Topic 19 -- Abstracts with Biological Entities (English) - 75 Topics

cite ad title authors publish year publish time dataset abstract mentions covid pmcid pubmed id doi cord uid topic weight Similarity scispacy Similarity specter
1 Tajima_2011 A long-distance RNA–RNA interaction plays an important role in programmed −1 ribosomal frameshifting in the translation of p88 replicase protein of Red clover necrotic mosaic virus Tajima, Yuri; Iwakawa, Hiro-oki; Kaido, Masanori; Mise, Kazuyuki; Okuno, Tetsuro 2011 2011-08-15 PMC N PMC7111920 21703656.0 10.1016/j.virol.2011.05.012 ywjk962a 0.962745 Stork_2011, Chen_2013, Lamb_1991, Yasuda-Inoue_2013 Bhullar_2014, Sasvari_2011, Okamoto_2008
2 Honigman_1991 cis acting RNA sequences control the gag-pol translation readthrough in murine leukemia virus Honigman, Alik; Wolf, Dana; Yaish, Shoshanit; Falk, Haya; Panet, Amos 1991 1991-07-31 PMC N PMC7131665 2053284.0 10.1016/0042-6822(91)90144-z nshwzkir 0.953423 Morikawa_1992, Lamb_1991, Jacks_1988, Hatfield_1990
3 Farabaugh_1993 A novel programed frameshift expresses the POL3 gene of retrotransposon Ty3 of yeast: Frameshifting without tRNA slippage Farabaugh, Philip J.; Zhao, Hong; Vimaladithan, Arunachalam 1993 1993-07-16 PMC N 8267715.0 10.1016/0092-8674(93)90297-4 431pyuzu 0.930423 Morikawa_1992, Lamb_1991, Jacks_1988, Honigman_1991
4 Hatfield_1990 The where, what and how of ribosomal frameshifting in retroviral protein synthesis Hatfield, Dolph; Oroszlan, Stephen 1990 1990-05-31 PMC N 2193436.0 10.1016/0968-0004(90)90159-9 wqy89i4v 0.928923 Morikawa_1992, Brierley_1989, Cattaneo_1989, Lamb_1991 Jacks_1988, Li_L_2001, Brierley_1989
5 Okamoto_2008 cis-Preferential requirement of a −1 frameshift product p88 for the replication of Red clover necrotic mosaic virus RNA1 Okamoto, Kimiyuki; Nagano, Hideaki; Iwakawa, Hirooki; Mizumoto, Hiroyuki; Takeda, Atsushi; Kaido, Masanori; Mise, Kazuyuki; Okuno, Tetsuro 2008 2008-05-25 PMC N PMC7103404 18308359.0 10.1016/j.virol.2008.02.004 0u62j7nj 0.924173 Stork_2011, Chen_2013, Rice_1992, Yasuda-Inoue_2013 Bhullar_2014, Tzeng_2006
6 Pillai-Nair_2003 Cis-acting Regulatory Elements in the Potato Virus X 3′ Non-translated Region Differentially Affect Minus-strand and Plus-strand RNA Accumulation Pillai-Nair, Neeta; Kim, Kook-Hyung; Hemenway, Cynthia 2003 2003-02-21 PMC N PMC7126608 12581634.0 10.1016/s0022-2836(02)01369-4 ppjohov8 0.920279 Chen_2013, Banerjee_2001, Stork_2011, Chen_2017
7 Lin_Z_2012 Spacer-length dependence of programmed −1 or −2 ribosomal frameshifting on a U(6)A heptamer supports a role for messenger RNA (mRNA) tension in frameshifting Lin, Zhaoru; Gilbert, Robert J. C.; Brierley, Ian 2012 2012-06-28 NONCOMM N PMC3458567 22743270.0 10.1093/nar/gks629 kjet3e50 0.919744 Morikawa_1992, Lamb_1991, Hatfield_1990, Brierley_1989, Krause_1987 Marcheschi_2007
8 Brierley_1989 Characterization of an efficient coronavirus ribosomal frameshifting signal: Requirement for an RNA pseudoknot Brierley, Ian; Digard, Paul; Inglis, Stephen C. 1989 1989-05-19 PMC N PMC7133225 2720781.0 10.1016/0092-8674(89)90124-4 5i3g2zb7 0.903018 Morikawa_1992, Hatfield_1990, Krause_1987, Lamb_1991 Brierley_1991, Su_M_2005
9 Jacks_1988 Signals for ribosomal frameshifting in the rous sarcoma virus gag-pol region Jacks, Tyler; Madhani, Hiten D.; Masiarz, Frank R.; Varmus, Harold E. 1988 1988-11-04 PMC N PMC7133365 2846182.0 10.1016/0092-8674(88)90031-1 kkkjl0le 0.897770 Morikawa_1992, Lamb_1991, Hatfield_1990, Honigman_1991 Marczinke_1998, Li_L_2001, Morikawa_1992
10 Pasternak_2004 Regulation of Relative Abundance of Arterivirus Subgenomic mRNAs Pasternak, Alexander O.; Spaan, Willy J. M.; Snijder, Eric J. 2004 2004-07-14 None N PMC446141 15254182.0 10.1128/jvi.78.15.8102-8113.2004 m76ls89z 0.886835 Banerjee_2001, Stork_2011, Lamb_1991, Rice_1992, Payne_2017
11 Belcourt_1990 Ribosomal frameshifting in the yeast retrotransposon Ty: tRNAs induce slippage on a 7 nucleotide minimal site Belcourt, Michael F.; Farabaugh, Philip J. 1990 1990-07-27 PMC N PMC7133245 2164889.0 10.1016/0092-8674(90)90371-k xk4yuibj 0.885412 Morikawa_1992, Farabaugh_1993, Hatfield_1990, Lamb_1991 Marczinke_2000
12 Morikawa_1992 Identification and analysis of the gag-pol ribosomal frameshift site of feline immunodeficiency virus Morikawa, Shigeru; Bishop, David H.L. 1992 1992-02-29 PMC N PMC7131530 1310175.0 10.1016/0042-6822(92)90004-9 7fx1ghd3 0.880734 Hatfield_1990, Lamb_1991, Brierley_1989, Jacks_1988 Li_L_2001, Jacks_1988, Marczinke_1998, Powell_2011
13 Nagy_1998 Dissecting RNA recombination in vitro: role of RNA sequences and the viral replicase. Nagy, P D; Zhang, C; Simon, A E 1998 1998-04-15 PMC N PMC1170582 9545250.0 10.1093/emboj/17.8.2392 sfue9fdb 0.875604 Stork_2011, Lin_X_2015, Morikawa_1992, Chen_2013, Pong_2011 Adams_2003, Bhullar_2014
14 Lai_M_2005 Coronavirus leader‐RNA‐primed transcription: An alternative mechanism to RNA splicing Lai, Michael M. C. 2005 2005-02-05 PMC N PMC7161880 3551939.0 10.1002/bies.950050606 7xkj27ph 0.871193 Stork_2011, Ivanova_2015, Rice_1992, Lin_X_2015
15 van_Vliet_2002 Discontinuous and non-discontinuous subgenomic RNA transcription in a nidovirus van Vliet, A.L.W.; Smits, S.L.; Rottier, P.J.M.; de Groot, R.J. 2002 2002-12-01 PMC N PMC136939 12456663.0 10.1093/emboj/cdf635 i0zym7iq 0.869523 Stork_2011, Rice_1992, Lamb_1991, Banerjee_2001, Payne_2017 Enjuanes_2008, Tzeng_2006
16 KRISHNAN_1996 Tandem Placement of a Coronavirus Promoter Results in Enhanced mRNA Synthesis from the Downstream-Most Initiation Site KRISHNAN, RAJESH; CHANG, RUEY-YI; BRIAN, DAVID A. 1996 1996-04-15 PMC N PMC7130602 8610468.0 10.1006/viro.1996.0210 xq1dxmb9 0.866085 Morikawa_1992, Krause_1987, Lamb_1991, Gendron_2010
17 Kang_1998 Direct structural evidence for formation of a stem-loop structure involved in ribosomal frameshifting in human immunodeficiency virus type 1 1 Kumho Life and Environmental Science Laboratory Publication No. 8. 1 Kang, Hunseung 1998 1998-04-01 PMC N PMC7148724 9545540.0 10.1016/s0167-4781(98)00004-9 ppb9k3zu 0.865274 Morikawa_1992, Brierley_1989, Krause_1987, Firth_2009 Marczinke_1998, Marcheschi_2007
18 White_1991 Defective RNAs of clover yellow mosaic virus encode nonstructural/coat protein fusion products White, K.Andrew; Brancroft, J.B.; Mackie, George A. 1991 1991-08-31 PMC N PMC7130666 1830181.0 10.1016/0042-6822(91)90977-j gu9ptt9y 0.865042 Lamb_1991, Morikawa_1992, Krause_1987, Banerjee_2001, Stork_2011 Tzeng_2006, Goldberg_1991
19 Henderson_2006 Antisense-induced ribosomal frameshifting Henderson, Clark M.; Anderson, Christine B.; Howard, Michael T. 2006 2006-08-18 NONCOMM N PMC1616946 16920740.0 10.1093/nar/gkl531 xgwbl8em 0.861321 Morikawa_1992, Lamb_1991, Hatfield_1990, Cattaneo_1989, Jacks_1988 Li_L_2001, Jacks_1988
20 Johnson_2003 Sequence elements controlling expression of Barley stripe mosaic virus subgenomic RNAs in vivo Johnson, Jennifer A; Bragg, Jennifer N; Lawrence, Diane M; Jackson, Andrew O 2003 2003-08-15 PMC N 12951022.0 10.1016/s0042-6822(03)00285-x lnagg1uw 0.859215 Lamb_1991, Morikawa_1992, Krause_1987, Bencun_2018, Wang_2007
21 Pasternak_2001 Sequence requirements for RNA strand transfer during nidovirus discontinuous subgenomic RNA synthesis Pasternak, Alexander O.; van den Born, Erwin; Spaan, Willy J.M.; Snijder, Eric J. 2001 2001-12-17 PMC N PMC125340 11742998.0 10.1093/emboj/20.24.7220 zjufx4fo 0.855391 Stork_2011, Morikawa_1992, Krause_1987, Banerjee_2001, Lai_M_2005 Adams_2003
22 Sekine_1992 DNA sequences required for translational frameshifting in production of the transposase encoded by IS 1 Sekine, Yasuhiko; Ohtsubo, Eiichi 1992 1992-01-01 PMC N PMC7088269 1334530.0 10.1007/bf00279377 f0smw5j0 0.854144 Morikawa_1992, Hatfield_1990, Jacks_1988, Brierley_1989 Sekine_1992, Li_L_2001
23 Yeh_P_2014 Identification of Cis-Acting Elements on Positive-Strand Subgenomic mRNA Required for the Synthesis of Negative-Strand Counterpart in Bovine Coronavirus Yeh, Po-Yuan; Wu, Hung-Yi 2014 2014-07-30 COMM-USE N PMC4147681 25080125.0 10.3390/v6082938 57jwhbcv 0.848408 Morikawa_1992, Krause_1987, Stork_2011, Lamb_1991, Chen_2017 Liao_2014
24 Senanayake_1997 Bovine coronavirus I protein synthesis follows ribosomal scanning on the bicistronic N mRNA Senanayake, Savithra D.; Brian, David A. 1997 1997-04-30 PMC N PMC7134031 9140198.0 10.1016/s0168-1702(96)01423-2 wsdda43u 0.845001 Morikawa_1992, Wurch_1991, Firth_2009, Lamb_1991 Goldberg_1991
25 Miller_2009 Ribosomal Frameshifting in Decoding Plant Viral RNAs Miller, W. Allen; Giedroc, David P. 2009 2009-07-21 PMC N PMC7122378 10.1007/978-0-387-89382-2_9 1pwa6zsk 0.840304 Morikawa_1992, Lamb_1991, Hatfield_1990, Jacks_1988, Brierley_1989 Li_L_2001, Marcheschi_2007
26 Banerjee_2001 Enhanced Accumulation of Coronavirus Defective Interfering RNA from Expressed Negative-Strand Transcripts by Coexpressed Positive-Strand RNA Transcripts Banerjee, Sangeeta; Repass, John F.; Makino, Shinji 2001 2001-09-01 PMC N PMC7133719 11531407.0 10.1006/viro.2001.1047 0yp4c4ks 0.835227 Stork_2011, Rice_1992, Mizutani_2000, Chen_2013 Bhullar_2014
27 Wang_2006 Identification of Hepta- and Octo-Uridine stretches as sole signals for programmed +1 and −1 ribosomal frameshifting during translation of SARS-CoV ORF 3a variants Wang, Xiaoxing; Wong, Sek-Man; Liu, D. X. 2006 2006-02-25 PMC N PMC1383626 16500894.0 10.1093/nar/gkl017 6z7rt5dd 0.830872 Morikawa_1992, Hatfield_1990, Firth_2009, Krause_1987, Lamb_1991 Powell_2011, Faaberg_1996, Firth_2009
28 Firth_2009 A case for a CUG-initiated coding sequence overlapping torovirus ORF1a and encoding a novel 30 kDa product Firth, Andrew E; Atkins, John F 2009 2009-09-08 COMM-USE N PMC2749830 19737402.0 10.1186/1743-422x-6-136 giea69b5 0.830629 Lamb_1991, Morikawa_1992, Luytjes_1988, Hatfield_1990
29 Huang_2018 mRNA-Mediated Duplexes Play Dual Roles in the Regulation of Bidirectional Ribosomal Frameshifting Huang, Wan-Ping; Cho, Che-Pei; Chang, Kung-Yao 2018 2018-12-04 COMM-USE N PMC6321510 30518074.0 10.3390/ijms19123867 nnoni7qb 0.827661 Morikawa_1992, Ivanova_2015, Landry_2009, Jacks_1988 Cho_C_2013, Su_M_2005
30 Markoff_2003 5′- and 3′-noncoding regions in flavivirus RNA Markoff, Lewis 2003 2003-12-31 PMC N PMC7119107 14696330.0 10.1016/s0065-3527(03)59006-6 jl3pf4ko 0.822700 Banerjee_2001, Chen_2017, Stork_2011, Lamb_1991, Payne_2017 Bhullar_2014, Adams_2003
31 Scott_1989 Detailed structural analysis of a genome rearrangement in bovine rotavirus Scott, G.E.; Tarlow, O.; McCrae, M.A. 1989 1989-10-31 PMC N PMC7133935 2558459.0 10.1016/0168-1702(89)90033-6 3wta8lms 0.817971 Morikawa_1992, Hatfield_1990, Krause_1987, Brierley_1989 Nowak_1984, Goldberg_1991
32 Sivakumaran_1999 RNA sequence and secondary structural determinants in a minimal viral promoter that directs replicase recognition and initiation of genomic plus-strand RNA synthesis 1 1 Edited by D. E. Draper Sivakumaran, K; Kim, Chul-Hyun; Tayon, Robert; Kao, C.Cheng 1999 1999-12-03 PMC N 10610788.0 10.1006/jmbi.1999.3297 cssgzvus 0.817124 Stork_2011, Rice_1992, den_Boon_2010, Banerjee_2001, Yasuda-Inoue_2013
33 Cobucci-Ponzano_2006 The gene of an archaeal α-l-fucosidase is expressed by translational frameshifting Cobucci-Ponzano, Beatrice; Conte, Fiorella; Benelli, Dario; Londei, Paola; Flagiello, Angela; Monti, Maria; Pucci, Piero; Rossi, Mosè; Moracci, Marco 2006 2006-08-18 NONCOMM N PMC1616953 16920738.0 10.1093/nar/gkl574 69gftii4 0.816990 Morikawa_1992, Hatfield_1990, Krause_1987, Wang_2007, Lamb_1991 Wang_2006
34 Chen_2013 Maintaining the structural integrity of the bamboo mosaic virus 3′ untranslated region is necessary for retaining the catalytic constant for minus-strand RNA synthesis Chen, I-Hsuan; Chu, Chiu-Heiu; Lin, Jen-Wen; Hsu, Yau-Heiu; Tsai, Ching-Hsiu 2013 2013-06-24 COMM-USE N PMC3720222 23800142.0 10.1186/1743-422x-10-208 jtn417z6 0.816079 Chen_2013, Stork_2011, Banerjee_2001, Rice_1992 Tzeng_2006, Adams_2003
35 Marczinke_1998 Secondary structure and mutational analysis of the ribosomal frameshift signal of rous sarcoma virus 1 1 Edited by D. E. Draper Marczinke, Beate; Fisher, Rosamond; Vidakovic, Marijana; Bloys, Alison J; Brierley, Ian 1998 1998-11-27 PMC N PMC7126186 9813113.0 10.1006/jmbi.1998.2186 9rs5n1ik 0.815480 Morikawa_1992, Hatfield_1990, Brierley_1989, Jacks_1988, Stork_2011 Jacks_1988, Powell_2011, Marcheschi_2007
36 Chou_2009 An intermolecular RNA triplex provides insight into structural determinants for the pseudoknot stimulator of −1 ribosomal frameshifting Chou, Ming-Yuan; Chang, Kung-Yao 2009 2009-12-08 NONCOMM N PMC2836554 20007152.0 10.1093/nar/gkp1107 8gnn6l4b 0.815393 Morikawa_1992, Brierley_1989, Stork_2011, Atkins_1999, Brierley_1991 Su_M_2005, Marczinke_1998, Marcheschi_2007
37 Cho_C_2013 Regulation of Programmed Ribosomal Frameshifting by Co-Translational Refolding RNA Hairpins Cho, Che-Pei; Lin, Szu-Chieh; Chou, Ming-Yuan; Hsu, Hsiu-Ting; Chang, Kung-Yao 2013 2013-04-29 COMM-USE N PMC3639245 23638024.0 10.1371/journal.pone.0062283 987dhnf7 0.810406 Morikawa_1992, Huang_2018, Ivanova_2015, Brierley_1989 Marcheschi_2007
38 Chen_2013 Characterization of the polyadenylation activity in a replicase complex from Bamboo mosaic virus-infected Nicotiana benthamiana plants Chen, I-Hsuan; Cheng, Jai-Hong; Huang, Ying-Wen; Lin, Na-Sheng; Hsu, Yau-Heiu; Tsai, Ching-Hsiu 2013 2013-09-30 PMC N PMC7111917 23768785.0 10.1016/j.virol.2013.05.032 vyo8l14p 0.810264 Stork_2011, Banerjee_2001, Rice_1992, Okamoto_2008 Nowak_1984, Chen_2013, Adams_2003
39 Powell_2011 Further Characterisation of the Translational Termination-Reinitiation Signal of the Influenza B Virus Segment 7 RNA Powell, Michael L.; Leigh, Kendra E.; Pöyry, Tuija A. A.; Jackson, Richard J.; Brown, T. David K.; Brierley, Ian 2011 2011-02-08 COMM-USE N PMC3035654 21347434.0 10.1371/journal.pone.0016822 ee7q7jhv 0.809412 Morikawa_1992, Ivanova_2015, Lamb_1991, Hatfield_1990 Napthine_2009
40 Yu_C_2011 Stem–loop structures can effectively substitute for an RNA pseudoknot in −1 ribosomal frameshifting Yu, Chien-Hung; Noteborn, Mathieu H.; Pleij, Cornelis W. A.; Olsthoorn, René C. L. 2011 2011-07-29 NONCOMM N PMC3203594 21803791.0 10.1093/nar/gkr579 wifs97yy 0.808438 Morikawa_1992, Marcheschi_2007, Stork_2011, Brierley_1991, Pong_2011 Marczinke_1998, Marcheschi_2007, Chou_2009, Cornish_2006
41 Nagy_1999 RNA elements required for RNA recombination function as replication enhancers in vitro and in vivo in a plus‐strand RNA virus Nagy, Peter D.; Pogany, Judit; Simon, Anne E. 1999 1999-10-15 PMC N PMC1171632 10523308.0 10.1093/emboj/18.20.5653 o360an6f 0.806577 Stork_2011, Rice_1992, Banerjee_2001, Chen_2013, Lin_X_2015
42 Tamm_2009 Stem-loop structure of Cocksfoot mottle virus RNA is indispensable for programmed −1 ribosomal frameshifting Tamm, Tiina; Suurväli, Jaanus; Lucchesi, Jimmy; Olspert, Allan; Truve, Erkki 2009 2009-12-31 PMC N PMC7114514 19748532.0 10.1016/j.virusres.2009.09.002 7t9e6xgu 0.806272 Morikawa_1992, Chen_2013, Stork_2011, Jacks_1988, Rice_1992 Marczinke_1998
43 Su_M_2005 An atypical RNA pseudoknot stimulator and an upstream attenuation signal for −1 ribosomal frameshifting of SARS coronavirus Su, Mei-Chi; Chang, Chung-Te; Chu, Chiu-Hui; Tsai, Ching-Hsiu; Chang, Kung-Yao 2005 2005-07-29 PMC N PMC1182165 16055920.0 10.1093/nar/gki731 7ots8npg 0.803615 Morikawa_1992, Brierley_1989, Stork_2011, Jacks_1988, Pong_2011 Marczinke_1998, Li_L_2001
44 Sztuba-Solińska_2012 Mutations in the coat protein-binding cis-acting RNA motifs debilitate RNA recombination of Brome mosaic virus Sztuba-Solińska, Joanna; Fanning, Sean W.; Horn, James R.; Bujarski, Jozef J. 2012 2012-12-31 PMC N PMC7114393 23079110.0 10.1016/j.virusres.2012.10.001 v1hbust8 0.800811 Rice_1992, Stork_2011, Okamoto_2008, Chen_2013, Banerjee_2001 Bhullar_2014, Tzeng_2006, Adams_2003
45 Edwards_1992 RNA recombination in the genome of Barley stripe mosaic virus Edwards, M.C.; Petty, I.T.D.; Jackson, A.O. 1992 1992-07-31 PMC N 1604824.0 10.1016/0042-6822(92)90722-2 a84pcc9z 0.800593 Rice_1992, Banerjee_2001, Endoh_2005, Armesto_2007, Brown_1984
46 Napthine_2003 Prokaryotic-style frameshifting in a plant translation system: conservation of an unusual single-tRNA slippage event Napthine, Sawsan; Vidakovic, Marijana; Girnary, Roseanne; Namy, Olivier; Brierley, Ian 2003 2003-08-01 PMC N PMC169038 12881428.0 10.1093/emboj/cdg365 0m32ecnu 0.789691 Morikawa_1992, Ivanova_2015, Lamb_1991, Dubois_2016, Landry_2009 Belcourt_1990, Brierley_1997, Marczinke_2000
47 Sekine_1992 Identification of the site of translational frameshifting required for production of the transposase encoded by insertion sequence IS 1 Sekine, Yasuhiko; Nagasawa, Hiromichi; Ohtsubo, Eiichi 1992 1992-01-01 PMC N PMC7088211 1334529.0 10.1007/bf00279376 fwav40fv 0.789658 Morikawa_1992, Hatfield_1990, Luytjes_1988, Firth_2009, Wu_G_2005 Sekine_1992, Faaberg_1996
48 Rott_1991 Comparison of the 5′ and 3′ termini of tomato ringspot virus RNA1 and RNA2: Evidence for RNA recombination Rott, M.E.; Tremaine, J.H.; Rochon, D.M. 1991 1991-11-30 PMC N 1926788.0 10.1016/0042-6822(91)90801-h ia04jc9j 0.788044 Luytjes_1988, Firth_2009, Morikawa_1992, Lamb_1991
49 Brierley_1991 Mutational analysis of the RNA pseudoknot component of a coronavirus ribosomal frameshifting signal Brierley, Ian; Rolley, Nicola J.; Jenner, Alison J.; Inglis, Stephen C. 1991 1991-08-20 PMC N PMC7131590 1880803.0 10.1016/0022-2836(91)90361-9 1m9s5bus 0.785745 Morikawa_1992, Brierley_1989, Hatfield_1990, Atkins_1999 Marczinke_1998
50 Li_L_2001 Structural Analysis of the −1 Ribosomal Frameshift Elements in Giardiavirus mRNA Li, Lei; Wang, Alice L.; Wang, Ching C. 2001 2001-11-15 None N PMC114643 11602703.0 10.1128/jvi.75.22.10612-10622.2001 ixslsd5s 0.784886 Morikawa_1992, Hatfield_1990, Krause_1987, Brierley_1989, Jacks_1988 Goldberg_1991, Firth_2009
51 Di_H_2018 New insights about the regulation of Nidovirus subgenomic mRNA synthesis Di, Han; McIntyre, Ayisha A.; Brinton, Margo A. 2018 2018-04-30 PMC N PMC5987246 29475599.0 10.1016/j.virol.2018.01.026 lnp5ye11 0.783433 Lamb_1991, Rice_1992, Banerjee_2001, Krause_1987, Payne_2017 Goldberg_1991
52 Lewis_1995 An astrovirus frameshift signal induces ribosomal frameshifting in vitro Lewis, T. L.; Matsui, S. M. 1995 1995-01-01 PMC N PMC7087256 7611883.0 10.1007/bf01315421 ti3jy64e 0.782480 Morikawa_1992, Lamb_1991, Luytjes_1988, Vennema_1991 Li_L_2001, Leibowitz_1988, Tzeng_2006
53 Schwer_1987 Discontinuous transcription or RNA processing of vaccinia virus late messengers results in a 5′ poly(A) leader Schwer, Beate; Visca, Paolo; Vos, Jan C.; Stunnenberg, Hendrik G. 1987 1987-07-17 PMC N 3594569.0 10.1016/0092-8674(87)90212-1 63160t7f 0.781860 Krause_1987, Morikawa_1992, Bertholet_1987, An_S_1998, Banerjee_2001 Nowak_1984
54 Léger_2007 The three transfer RNAs occupying the A, P and E sites on the ribosome are involved in viral programmed -1 ribosomal frameshift Léger, Mélissa; Dulude, Dominic; Steinberg, Sergey V.; Brakier-Gingras, Léa 2007 2007-08-17 NONCOMM N PMC2018615 17704133.0 10.1093/nar/gkm578 icj261ls 0.780302 Morikawa_1992, Jacks_1988, Hatfield_1990, Huang_2018 Powell_2011
55 Niu_S_2014 An infectious RNA with a hepta-adenosine stretch responsible for programmed −1 ribosomal frameshift derived from a full-length cDNA clone of Hibiscus latent Singapore virus Niu, Shengniao; Cao, Shishu; Wong, Sek-Man 2014 2014-01-20 PMC N PMC7127180 24418557.0 10.1016/j.virol.2013.11.021 4s54jrww 0.779743 Morikawa_1992, Stork_2011, Gendron_2010, Chen_2013, Jendrach_2014 Nowak_1984
56 Bertholet_1987 Vaccinia virus produces late mRNAs by discontinuous synthesis Bertholet, Christine; Van Meir, Erwin; ten Heggeler-Bordier, Béatrice; Wittek, Riccardo 1987 1987-07-17 PMC N PMC7133321 3036368.0 10.1016/0092-8674(87)90211-x so5jooj0 0.778827 Lamb_1991, Morikawa_1992, Krause_1987, Hatfield_1990 Schwer_1987, Tzeng_2006
57 Gao_F_2016 Multiple Cis-acting elements modulate programmed -1 ribosomal frameshifting in Pea enation mosaic virus Gao, Feng; Simon, Anne E. 2016 2016-01-29 COMM-USE N PMC4737148 26578603.0 10.1093/nar/gkv1241 mncz34kh 0.778377 Morikawa_1992, Hatfield_1990, Brierley_1989, Jacks_1988, Krause_1987 Powell_2011, Marczinke_1998
58 Yu_C_2010 Stimulation of ribosomal frameshifting by antisense LNA Yu, Chien-Hung; Noteborn, Mathieu H. M.; Olsthoorn, René C. L. 2010 2010-08-06 NONCOMM N PMC3001050 20693527.0 10.1093/nar/gkq650 pc4x5e24 0.777432 Morikawa_1992, Stork_2011, Brierley_1989, Krause_1987, Ivanova_2015 Marcheschi_2007
59 An_S_1998 Characterizations of Coronaviruscis-Acting RNA Elements and the Transcription Step Affecting Its Transcription Efficiency An, Sungwhan; Makino, Shinji 1998 1998-03-30 PMC N PMC7133654 9527929.0 10.1006/viro.1998.9059 85zntq7i 0.775594 Banerjee_2001, Rice_1992, Lamb_1991, Stork_2011 JEONG_1996
60 Liao_2014 The 3′-Terminal 55 Nucleotides of Bovine Coronavirus Defective Interfering RNA Harbor Cis-Acting Elements Required for Both Negative- and Positive-Strand RNA Synthesis Liao, Wei-Yu; Ke, Ting-Yung; Wu, Hung-Yi 2014 2014-05-22 COMM-USE N PMC4031142 24852421.0 10.1371/journal.pone.0098422 q4cs2h29 0.774257 Stork_2011, Banerjee_2001, Rice_1992, Chen_2017, Lin_X_2015
61 Madhugiri_2016 Chapter Four Coronavirus cis-Acting RNA Elements Madhugiri, R.; Fricke, M.; Marz, M.; Ziebuhr, J. 2016 2016-12-31 PMC N PMC7112319 27712622.0 10.1016/bs.aivir.2016.08.007 x43pp3fw 0.771107 Rice_1992, den_Boon_2010, Lamb_1991, Stork_2011 Madhugiri_2014
62 Sutton_1986 Evidence for Trans splicing in trypanosomes Sutton, Richard E.; Boothroyd, John C. 1986 1986-11-21 PMC N 3022935.0 10.1016/0092-8674(86)90617-3 0fu5h64z 0.770192 Krause_1987, Wang_2007, Lamb_1991, Morikawa_1992, Ivanova_2015 Gopinath_2015
63 Samal_2013 Leader Sequence Samal, S.K. 2013 2013-12-31 PMC N PMC7152451 10.1016/b978-0-12-374984-0.00850-0 dg94h2ko 0.767716 Krause_1987, Morikawa_1992, Lamb_1991, Hatfield_1990 Baric_1985
64 Wan_J_2018 A Coding Sequence-Embedded Principle Governs Translational Reading Frame Fidelity Wan, Ji; Gao, Xiangwei; Mao, Yuanhui; Zhang, Xingqian; Qian, Shu-Bing 2018 2018-09-20 COMM-USE N PMC6750092 31549036.0 10.1155/2018/7089174 6uv9nu65 0.765717 Morikawa_1992, Hatfield_1990, Lamb_1991, Cattaneo_1989 Namy_2006
65 Wang_2012 Identification and characterization of RNA duplex unwinding and ATPase activities of an alphatetravirus superfamily 1 helicase Wang, Qinrong; Han, Yajuan; Qiu, Yang; Zhang, Shaoqiong; Tang, Fenfen; Wang, Yan; Zhang, Jiamin; Hu, Yuanyang; Zhou, Xi 2012 2012-11-25 PMC N PMC7111927 22995190.0 10.1016/j.virol.2012.08.045 gk0r65b3 0.761191 Stork_2011, Yasuda-Inoue_2013, Pong_2011, Gorbalenya_1988, Kang_2009 Xia_H_2015, Rozanov_1995
66 JEONG_1996 Coronavirus Transcription Mediated by Sequences Flanking the Transcription Consensus Sequence JEONG, YONG SEOK; REPASS, JOHN F.; KIM, YOUNG-NAM; HWANG, SUN-MIN; MAKINO, SHINJI 1996 1996-03-01 PMC N PMC7131137 8599216.0 10.1006/viro.1996.0118 gkg1059v 0.760266 An_S_1998, Rice_1992, Banerjee_2001, Morikawa_1992 An_S_1998
67 Huang_2013 A Genome-Wide Analysis of RNA Pseudoknots That Stimulate Efficient −1 Ribosomal Frameshifting or Readthrough in Animal Viruses Huang, Xiaolan; Cheng, Qiang; Du, Zhihua 2013 2013-11-04 COMM-USE N PMC3835772 24298557.0 10.1155/2013/984028 c57impca 0.758663 Morikawa_1992, Lamb_1991, Hatfield_1990, Brierley_1989, Martínez-Salas_2008
68 Zhang_2000 Identification of a Noncanonical Signal for Transcription of a Novel Subgenomic mRNA of Mouse Hepatitis Virus: Implication for the Mechanism of Coronavirus RNA Transcription Zhang, Xuming; Liu, Runzhong 2000 2000-12-05 PMC N PMC7130745 11112483.0 10.1006/viro.2000.0637 z5uhrta5 0.756721 Morikawa_1992, Gendron_2010, Krause_1987, Jendrach_2014, Wurch_1991
69 Xiong_1993 Synthesis of the Putative Red Clover Necrotic Mosaic Virus RNA Polymerase by Ribosomal Frameshifting in Vitro Xiong, Z.; Kim, K.H.; Kendall, T.L.; Lommel, S.A. 1993 1993-03-31 PMC N 8438566.0 10.1006/viro.1993.1117 mtuxocrd 0.753632 Lamb_1991, Morikawa_1992, Stork_2011, Wurch_1991 White_1991, Okamoto_2008, Nowak_1984
70 Page_1990 Sequence analysis of the leader RNA of two porcine coronaviruses: Transmissible gastroenteritis virus and porcine respiratory coronavirus Page, Kevin W.; Britton, Paul; Boursnell, Michael E. G. 1990 1990-01-01 PMC N PMC7088910 1962975.0 10.1007/bf00570024 o81j3d1j 0.753482 Rice_1992, Banerjee_2001, Armesto_2007, Stork_2011 Baric_1985
71 Kierzek_2005 The influence of locked nucleic acid residues on the thermodynamic properties of 2′-O-methyl RNA/RNA heteroduplexes Kierzek, Elzbieta; Ciesielska, Anna; Pasternak, Karol; Mathews, David H.; Turner, Douglas H.; Kierzek, Ryszard 2005 2005-09-09 PMC N PMC1201327 16155181.0 10.1093/nar/gki789 cl9gpt9w 0.753084 Kierzek_2006, Karaman_2005, Stork_2011, Krause_1987 Scrima_2004, Poulsen_2015
72 Hatfield_1989 Chromatographic analysis of the aminoacyl-trnas which are required for translation of codons at and around the ribosomal frameshift sites of HIV, HTLV-1, and BLV Hatfield, Dolph; Feng, Ya-Xiong; Lee, Byeong J.; Rein, Alan; Levin, Judith G.; Oroszlan, Stephen 1989 1989-12-31 PMC N 2556852.0 10.1016/0042-6822(89)90589-8 muf79zhi 0.753084 Morikawa_1992, Jacks_1988, Hatfield_1990, Farabaugh_1993, Firth_2009 Marczinke_2000
73 Kim_H_2017 EF-G catalyzed translocation dynamics in the presence of ribosomal frameshifting stimulatory signals Kim, Hee-Kyung; Tinoco, Ignacio 2017 2017-03-17 NONCOMM N PMC5389563 27799473.0 10.1093/nar/gkw1020 isbmmrvl 0.752865 Morikawa_1992, Huang_2018, Hatfield_1990, Ivanova_2015, Brierley_1989 Powell_2011
74 Gendron_2007 The presence of the TAR RNA structure alters the programmed -1 ribosomal frameshift efficiency of the human immunodeficiency virus type 1 (HIV-1) by modifying the rate of translation initiation Gendron, Karine; Charbonneau, Johanie; Dulude, Dominic; Heveker, Nikolaus; Ferbeyre, Gerardo; Brakier-Gingras, Léa 2007 2007-11-05 NONCOMM N PMC2248755 17984074.0 10.1093/nar/gkm906 ipwm9uob 0.752510 Gendron_2010, Ivanova_2015, Morikawa_1992, Meyerson_2017 Gendron_2010, Brunelle_1999
75 Cattaneo_1989 How ‘hidden’ reading frames are expressed Cattaneo, Roberto 1989 1989-05-31 PMC N 2773038.0 10.1016/0968-0004(89)90266-1 nmn41dh5 0.751674 Lamb_1991, Hatfield_1990, Morikawa_1992, Firth_2009
76 Adams_2003 Analysis of intermolecular RNA–RNA recombination by rubella virus Adams, Sandra D.; Tzeng, Wen-Pin; Chen, Min-Hsin; Frey, Teryl K. 2003 2003-05-10 PMC N PMC7126107 12758173.0 10.1016/s0042-6822(03)00064-3 5ld0o9gv 0.749056 Morikawa_1992, Rice_1992, Banerjee_2001, Lamb_1991, Auewarakul_2005 Tzeng_2006
77 Wurch_1991 The cauliflower mosaic virus reverse transcriptase is not produced by the mechanism of ribosomal frameshifting in Saccharomyces cerevisiae Wurch, T.; Guidasci, T.; Geldreich, A.; Lebeurier, G.; Mesnard, J.-M. 1991 1991-02-28 PMC N 1703375.0 10.1016/0042-6822(91)90103-i m770a1rl 0.748350 Morikawa_1992, Lamb_1991, Vennema_1991, Firth_2009
78 Baril_2003 The Frameshift Stimulatory Signal of Human Immunodeficiency Virus Type 1 Group O is a Pseudoknot Baril, Martin; Dulude, Dominic; Steinberg, Sergey V; Brakier-Gingras, Léa 2003 2003-08-15 PMC N PMC7127721 12899829.0 10.1016/s0022-2836(03)00784-8 uftl1mx5 0.746503 Morikawa_1992, Jacks_1988, Hatfield_1990, Brierley_1989, Krause_1987 Marczinke_1998, Marcheschi_2007, Su_M_2005
79 Wu_H_2013 Regulation of Coronaviral Poly(A) Tail Length during Infection Wu, Hung-Yi; Ke, Ting-Yung; Liao, Wei-Yu; Chang, Nai-Yun 2013 2013-07-29 COMM-USE N PMC3726627 23923003.0 10.1371/journal.pone.0070548 4qu7fiwm 0.740733 Banerjee_2001, Chen_2017, Jendrach_2014, Krause_1987, Morikawa_1992
80 Brierley_1992 Mutational analysis of the “slippery-sequence” component of a coronavirus ribosomal frameshifting signal Brierley, Ian; Jenner, Alison J.; Inglis, Stephen C. 1992 1992-09-20 PMC N PMC7125858 1404364.0 10.1016/0022-2836(92)90901-u oir3rlb7 0.740076 Morikawa_1992, Hatfield_1990, Brierley_1989, Krause_1987, Firth_2009 Brierley_1991, Li_L_2001, Powell_2011
81 Caliskan_2014 Programmed –1 Frameshifting by Kinetic Partitioning during Impeded Translocation Caliskan, Neva; Katunin, Vladimir I.; Belardinelli, Riccardo; Peske, Frank; Rodnina, Marina V. 2014 2014-06-19 None N PMC7112342 24949973.0 10.1016/j.cell.2014.04.041 kzshcrwx 0.739922 Morikawa_1992, Ivanova_2015, Hatfield_1990, Lamb_1991 Powell_2011
82 Napthine_2009 Expression of the VP2 Protein of Murine Norovirus by a Translation Termination-Reinitiation Strategy Napthine, Sawsan; Lever, Robert A.; Powell, Michael L.; Jackson, Richard J.; Brown, T. David K.; Brierley, Ian 2009 2009-12-22 COMM-USE N PMC2793014 20027307.0 10.1371/journal.pone.0008390 2xvd5ogf 0.739317 Morikawa_1992, Lamb_1991, Hatfield_1990, Jacks_1988, Firth_2009 Powell_2011, Tzeng_2006
83 Ivanov_2004 Identification of a New Antizyme mRNA +1 Frameshifting Stimulatory Pseudoknot in a Subset of Diverse Invertebrates and its Apparent Absence in Intermediate Species Ivanov, Ivaylo P; Anderson, Christine B; Gesteland, Raymond F; Atkins, John F 2004 2004-06-04 PMC N PMC7125782 15147837.0 10.1016/j.jmb.2004.03.082 gsqmkxjx 0.738898 Lamb_1991, Morikawa_1992, Gorbalenya_1988, Krause_1987 Gopinath_2015
84 Chen_2013 Dynamics of translation by single ribosomes through mRNA secondary structures Chen, Chunlai; Zhang, Haibo; Broitman, Steven L.; Reiche, Michael; Farrell, Ian; Cooperman, Barry S.; Goldman, Yale E. 2013 2013-03-31 None N PMC3648610 23542154.0 10.1038/nsmb.2544 l600aeuo 0.738109 Morikawa_1992, Ivanova_2015, Huang_2018, Krause_1987 Balakin_1990
85 Firth_2011 Stimulation of stop codon readthrough: frequent presence of an extended 3′ RNA structural element Firth, Andrew E.; Wills, Norma M.; Gesteland, Raymond F.; Atkins, John F. 2011 2011-04-27 NONCOMM N PMC3159437 21525127.0 10.1093/nar/gkr224 2u49b7xo 0.737480 Morikawa_1992, Lamb_1991, Firth_2009, Hatfield_1990, Volmer_2010 Napthine_2009
86 DEN_BOON_1995 Equine Arteritis Virus Subgenomic RNA Transcription: UV Inactivation and Translation Inhibition Studies DEN BOON, JOHAN A.; SPAAN, WILLY J.M.; SNIJDER, ERIC J. 1995 1995-11-30 PMC N PMC7131190 7491761.0 10.1006/viro.1995.0009 il9vbbgk 0.734456 Rice_1992, Stork_2011, Banerjee_2001, Meyerson_2017, den_Boon_2010 Valle-Casuso_2020
87 Balakin_1990 Transition of the mRNA sequence downstream from the initiation codon into a single-stranded conformation is strongly promoted by binding of the initiator tRNA Balakin, Andrew; Skripkin, Eugene; Shatsky, Ivan; Bogdanov, Alexey 1990 1990-08-27 PMC N 2207137.0 10.1016/0167-4781(90)90151-q vgl3aog5 0.734139 Morikawa_1992, Krause_1987, Hatfield_1990, Brierley_1989, Lai_M_2005
88 Prère_2011 The Interplay of mRNA Stimulatory Signals Required for AUU-Mediated Initiation and Programmed −1 Ribosomal Frameshifting in Decoding of Transposable Element IS911 Prère, Marie-Françoise; Canal, Isabelle; Wills, Norma M.; Atkins, John F.; Fayet, Olivier 2011 2011-04-08 PMC N PMC3133126 21478364.0 10.1128/jb.00115-11 82mgv1w6 0.734023 Morikawa_1992, Hatfield_1990, Brierley_1989, Krause_1987, Lamb_1991 Powell_2011, Marczinke_1998, Su_M_2005, Sasvari_2011
89 Madhugiri_2018 Structural and functional conservation of cis-acting RNA elements in coronavirus 5'-terminal genome regions Madhugiri, Ramakanth; Karl, Nadja; Petersen, Daniel; Lamkiewicz, Kevin; Fricke, Markus; Wend, Ulrike; Scheuer, Robina; Marz, Manja; Ziebuhr, John 2018 2018-04-30 None N PMC7112051 29223446.0 10.1016/j.virol.2017.11.025 a1sf3r5e 0.732151 Rice_1992, Pong_2011, Stork_2011, den_Boon_2010 Yang_2015
90 Mizutani_2000 Nascent Synthesis of Leader Sequence-Containing Subgenomic mRNAs in Coronavirus Genome-Length Replicative Intermediate RNA Mizutani, Tetsuya; Repass, John F.; Makino, Shinji 2000 2000-09-30 PMC N PMC7130702 10998322.0 10.1006/viro.2000.0489 w8vy5rl8 0.730380 Banerjee_2001, Stork_2011, Rice_1992, Chen_2013 Baric_1985, Bhullar_2014
91 Suzuki_1992 Rice dwarf phytoreovirus segment S12 transcript is tricistronic in Vitro Suzuki, Nobuhiro; Sugawara, Mikiko; Kusano, Tomonobu 1992 1992-12-31 PMC N 1448932.0 10.1016/0042-6822(92)90279-x cwcpsq65 0.728855 Luytjes_1988, Firth_2009, Morikawa_1992, Lamb_1991, Hatfield_1990 Goldberg_1991
92 Chen_2018 The conserved stem-loop II structure at the 3' untranslated region of Japanese encephalitis virus genome is required for the formation of subgenomic flaviviral RNA Chen, Yi-Shiuan; Fan, Yi-Hsin; Tien, Chih-Feng; Yueh, Andrew; Chang, Ruey-Yi 2018 2018-07-26 COMM-USE N PMC6062100 30048535.0 10.1371/journal.pone.0201250 3se1wp8o 0.728000 Stork_2011, Chen_2013, Yasuda-Inoue_2013, Banerjee_2001, Meyerson_2017
93 Sztuba-Solinska_2016 A small stem-loop structure of the Ebola virus trailer is essential for replication and interacts with heat-shock protein A8 Sztuba-Solinska, Joanna; Diaz, Larissa; Kumar, Mia R.; Kolb, Gaëlle; Wiley, Michael R.; Jozwick, Lucas; Kuhn, Jens H.; Palacios, Gustavo; Radoshitzky, Sheli R.; J. Le Grice, Stuart F.; Johnson, Reed F. 2016 2016-11-16 PMC N PMC5175359 27651462.0 10.1093/nar/gkw825 08tknscm 0.726387 Stork_2011, Pong_2011, Yasuda-Inoue_2013, Meyerson_2017, Rice_1992 Bhullar_2014
94 Brierley_1997 Expression of a coronavirus ribosomal frameshift signal in Escherichia coli: influence of tRNA anticodon modification on frameshifting 1 1 Edited by J. Karn Brierley, Ian; Meredith, Michayla R; Bloys, Alison J; Hagervall, Tord G 1997 1997-07-18 PMC N PMC7126968 9237903.0 10.1006/jmbi.1997.1134 kcskp2ux 0.724307 Morikawa_1992, Hatfield_1990, Farabaugh_1993, Jacks_1988, Firth_2009 Marczinke_2000, Belcourt_1990
95 Chen_2017 The Functional Roles of the Cis-acting Elements in Bamboo mosaic virus RNA Genome Chen, I-Hsuan; Huang, Ying-Wen; Tsai, Ching-Hsiu 2017 2017-04-13 COMM-USE N PMC5390519 28450857.0 10.3389/fmicb.2017.00645 tu50ab1b 0.724156 Stork_2011, Rice_1992, Chen_2013, Yasuda-Inoue_2013 Bhullar_2014, Tzeng_2006
96 Hao_S_2017 Alternative Polyadenylation of Human Bocavirus at Its 3′ End Is Regulated by Multiple Elements and Affects Capsid Expression Hao, Sujuan; Zhang, Junmei; Chen, Zhen; Xu, Huanzhou; Wang, Hanzhong; Guan, Wuxiang 2017 2017-01-18 COMM-USE N PMC5244319 27881651.0 10.1128/jvi.02026-16 nulqcpz5 0.719780 Morikawa_1992, Lamb_1991, Chen_2013, Vennema_1991, Krause_1987 Gutiérrez-Escolano_2003
97 Sawicki_2005 Coronavirus Transcription: A Perspective Sawicki, S. G.; Sawicki, D. L. 2005 2005-01-01 PMC N PMC7121018 15609508.0 10.1007/3-540-26765-4_2 cbsadvbu 0.719599 Stork_2011, Banerjee_2001, Rice_1992, Lin_X_2015 Baker_1990, Mizutani_2000
98 Dasmahapatra_1985 Structure of the black beetle virus genome and its functional implications Dasmahapatra, Bimalendu; Dasgupta, Ranjit; Ghosh, Amit; Kaesberg, Paul 1985 1985-03-20 PMC N 3839022.0 10.1016/0022-2836(85)90337-7 uu57qilj 0.719308 Lamb_1991, Rice_1992, Rott_1991, Banerjee_2001, Morikawa_1992 Goldberg_1991, Tzeng_2006, White_1991
99 Mouzakis_2012 HIV-1 frameshift efficiency is primarily determined by the stability of base pairs positioned at the mRNA entrance channel of the ribosome Mouzakis, Kathryn D.; Lang, Andrew L.; Vander Meulen, Kirk A.; Easterday, Preston D.; Butcher, Samuel E. 2012 2012-12-15 NONCOMM N PMC3561942 23248007.0 10.1093/nar/gks1254 ix8du1er 0.718318 Morikawa_1992, Brierley_1989, Hatfield_1990, Jacks_1988, Krause_1987 Marczinke_1998, Marcheschi_2007, Powell_2011
100 Wu_C_2014 Nucleocapsid Phosphorylation and RNA Helicase DDX1 Recruitment Enables Coronavirus Transition from Discontinuous to Continuous Transcription Wu, Chia-Hsin; Chen, Pei-Jer; Yeh, Shiou-Hwei 2014 2014-10-08 None N PMC7104987 25299332.0 10.1016/j.chom.2014.09.009 9b64z84d 0.717654 Stork_2011, Yasuda-Inoue_2013, Meyerson_2017, Ivanova_2015, Pong_2011 Sasvari_2011, Bhullar_2014
101 Gordon_1985 Subgenomic RNAs with nucleotide sequences derived from RNAs 1 and 2 of cucumber mosaic virus can act as messenger RNAsin Vitro Gordon, Karl H.J.; Symons, Robert H. 1985 1985-04-15 PMC N 10.1016/0042-6822(85)90429-5 2w2hfpv3 0.716862 Banerjee_2001, Stork_2011, Chen_2013, Endoh_2005
102 Baric_1985 Characterization of leader-related small RNAs in coronavirus-infected cells: Further evidence for leader-primed mechanism of transcription Baric, Ralph S.; Stohlman, Stephen A.; Razavi, Mahmood K.; Lai, Michael M.C. 1985 1985-07-31 PMC N PMC7133907 2992183.0 10.1016/0168-1702(85)90038-3 ztmrrii3 0.715932 Banerjee_2001, Stork_2011, An_S_1998, Krause_1987, Rice_1992 Baker_1990
103 Mindich_1995 Heterologous recombination in the segmented dsRNA genome of bacteriophage Φ6 Mindich, Leonard 1995 1995-02-28 PMC N PMC7129777 10.1016/s1044-5773(05)80011-3 6f3e87yk 0.715133 Rice_1992, Stork_2011, den_Boon_2010, Payne_2017, Auewarakul_2005 Tzeng_2006, Adams_2003
104 Baker_1990 An in vitro system for the leader-primed transcription of coronavirus mRNAs. Baker, S C; Lai, M M 1990 1990-12-23 PMC N PMC552193 2174358.0 fma25t1n 0.713621 Stork_2011, Banerjee_2001, Lin_X_2015, Chen_2013, Rice_1992 Baric_1985
105 Atkins_2016 Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use Atkins, John F.; Loughran, Gary; Bhatt, Pramod R.; Firth, Andrew E.; Baranov, Pavel V. 2016 2016-09-06 COMM-USE N PMC5009743 27436286.0 10.1093/nar/gkw530 0s8huajd 0.712568 Morikawa_1992, Lamb_1991, Hatfield_1990, Krause_1987, Brierley_1989 Giedroc_2009
106 Brunelle_1999 Expression of the human immunodeficiency virus frameshift signal in a bacterial cell-free system: Influence of an interaction between the ribosome and a stem-loop structure downstream from the slippery site Brunelle, Marie-Noëlle; Payant, Catherine; Brakier-Gingras, Léa; Lemay, Guy 1999 1999-12-15 PMC N PMC148779 10572179.0 10.1093/nar/27.24.4783 6m4qrt3m 0.712221 Morikawa_1992, Gendron_2010, Jacks_1988, Krause_1987, Hatfield_1990 Nowak_1984
107 Atkins_1999 Intricacies of ribosomal frameshifting Atkins, John F.; Gesteland, Raymond F. 1999 1999-01-01 PMC N PMC7096882 10074934.0 10.1038/6642 14iqq6wy 0.711287 Morikawa_1992, Lamb_1991, Hatfield_1990, Brierley_1989 Trifonov_1992, Gopinath_2015, Hatfield_1990
108 Theimer_1999 Equilibrium unfolding pathway of an H-type RNA pseudoknot which promotes programmed −1 ribosomal frameshifting 1 1 Edited by D. E. Draper Theimer, Carla A.; Giedroc, David P. 1999 1999-06-25 PMC N PMC7126474 10373368.0 10.1006/jmbi.1999.2850 8jzoymfy 0.708837 Morikawa_1992, Guo_Y_2013, Atkins_1999, Brierley_1991, Hatfield_1990 Marczinke_1998, Zhong_2016, Marcheschi_2007
109 Krause_1987 A trans-spliced leader sequence on actin mRNA in C. elegans Krause, Michael; Hirsh, David 1987 1987-06-19 PMC N 10.1016/0092-8674(87)90613-1 hpv6916w 0.708115 Lamb_1991, Morikawa_1992, Hatfield_1990, Wang_2007 Samal_2013, Parsons_1984, Schwer_1987
110 Milhausen_1984 Identification of a small rna containing the trypanosome spliced leader: A donor of shared 5′ sequences of trypanosomatid mRNAs? Milhausen, Michael; Nelson, Richard G.; Sather, Susan; Selkirk, Murray; Agabian, Nina 1984 1984-10-31 PMC N PMC7133438 6091897.0 10.1016/0092-8674(84)90267-8 5q8tvowp 0.707784 Krause_1987, Lamb_1991, Bertholet_1987, Morikawa_1992, Firth_2009 Baric_1985, Parsons_1984
111 Bacher_1994 Sequence analysis of the 3' termini of RNA1 and RNA2 of blueberry leaf mottle virus Bacher, J.W.; Warkentin, D.; Ramsdell, D.; Hancock, J.F. 1994 1994-08-31 PMC N 7975879.0 10.1016/0168-1702(94)90051-5 xrue7s6l 0.707647 Rott_1991, Luytjes_1988, Gorbalenya_1988, Firth_2009
112 Makino_1988 Defective-interfering particles of murine coronavirus: Mechanism of synthesis of defective viral RNAs Makino, Shinji; Shieh, Chien-Kou; Keck, James G.; Lai, Michael M.C. 1988 1988-03-31 PMC N PMC7131348 2831651.0 10.1016/0042-6822(88)90237-1 pbn9n37n 0.706401 Stork_2011, Rice_1992, Banerjee_2001, den_Boon_2010, Meyerson_2017
113 Othman_1995 Nucleotide sequence of the bean strain of southern bean mosaic virus Othman, Yasmin; Hull, Roger 1995 1995-01-10 PMC N PMC7130989 7831784.0 10.1016/s0042-6822(95)80044-1 ktn8c0zx 0.705218 Rott_1991, Chieochansin_2010, Auewarakul_2005, Ryu_W_2017 Goldberg_1991, Tzeng_2006
114 Keck_1987 Multiple recombination sites at the 5′-end of murine coronavirus RNA Keck, James G.; Stohlman, Stephen A.; Side, Lisa H.; Makino, Shinji; Lai, Michael M.C. 1987 1987-02-28 PMC N PMC7130635 3027982.0 10.1016/0042-6822(87)90413-2 qvcgebjg 0.703408 Rice_1992, Auewarakul_2005, Morikawa_1992, Bertholet_1987, Armesto_2007 Tzeng_2006
115 Peng_2016 Characterization of the Role of Hexamer AGUAAA and Poly(A) Tail in Coronavirus Polyadenylation Peng, Yu-Hui; Lin, Ching-Houng; Lin, Chao-Nan; Lo, Chen-Yu; Tsai, Tsung-Lin; Wu, Hung-Yi 2016 2016-10-19 COMM-USE N PMC5070815 27760233.0 10.1371/journal.pone.0165077 kreuzo0j 0.700780 Trobaugh_2017, Volmer_2010, Morikawa_1992, Krause_1987, Stork_2011 Piñón_1997, Sun_D_2016, van_Ooij_2006
116 Mathew_2015 The Highly Conserved Codon following the Slippery Sequence Supports −1 Frameshift Efficiency at the HIV-1 Frameshift Site Mathew, Suneeth F.; Crowe-McAuliffe, Caillan; Graves, Ryan; Cardno, Tony S.; McKinney, Cushla; Poole, Elizabeth S.; Tate, Warren P. 2015 2015-03-25 COMM-USE N PMC4373837 25807539.0 10.1371/journal.pone.0122176 10p3mth2 0.699710 Morikawa_1992, Farabaugh_1993, Hatfield_1990, Jacks_1988, Brierley_1989 Marczinke_2000, Marcheschi_2007
117 Fu_C_1994 A ribosomal frameshifting error during translation of the argl mRNA of Escherichla coli Fu, Changwei; Parker, Jack 1994 1994-01-01 PMC N PMC7087753 7515462.0 10.1007/bf00280474 rr6chvsh 0.698030 Morikawa_1992, Hatfield_1990, Farabaugh_1993, Jacks_1988 Cobucci-Ponzano_2006
118 Payne_2017 Chapter 18 Family Arteriviridae Payne, Susan 2017 2017-12-31 PMC N PMC7149662 10.1016/b978-0-12-803109-4.00018-0 ww70klka 0.697678 Ryu_W_2017, Crowe_2014, Rice_1992, Lu_P_2016, Wang_2015 Valle-Casuso_2020, Brinton_2008, Balasuriya_2013
119 Plant_2013 Altering SARS Coronavirus Frameshift Efficiency Affects Genomic and Subgenomic RNA Production Plant, Ewan P.; Sims, Amy C.; Baric, Ralph S.; Dinman, Jonathan D.; Taylor, Deborah R. 2013 2013-01-18 COMM-USE N PMC3564121 23334702.0 10.3390/v5010279 zwl0safn 0.697676 Morikawa_1992, Auewarakul_2005, Rice_1992, Lamb_1991 Tzeng_2006
120 Scott_1987 Origin of the human L1 elements: Proposed progenitor genes deduced from a consensus DNA sequence Scott, Alan F.; Schmeckpeper, Barbara J.; Abdelrazik, Mona; Comey, Catherine Theisen; O'Hara, Bruce; Rossiter, Judith Pratt; Cooley, Tim; Heath, Peter; Smith, Kirby D.; Margolet, Louise 1987 1987-10-31 PMC N PMC7135745 3692483.0 10.1016/0888-7543(87)90003-6 po9gnpr9 0.694832 Morikawa_1992, Luytjes_1988, Firth_2009, Hatfield_1990, Krause_1987 Goldberg_1991, Firth_2009, Lapps_1987
121 Li_L_2008 Structural Lability in Stem–Loop 1 Drives a 5′ UTR–3′ UTR Interaction in Coronavirus Replication Li, Lichun; Kang, Hyojeung; Liu, Pinghua; Makkinje, Nick; Williamson, Shawn T.; Leibowitz, Julian L.; Giedroc, David P. 2008 2008-03-28 None N PMC2652258 18289557.0 10.1016/j.jmb.2008.01.068 lorveab5 0.692903 Morikawa_1992, Krause_1987, Brierley_1989, Lamb_1991
122 Vimaladithan_1998 Identification and Analysis of Frameshift Sites Vimaladithan, Arunachalam; Farabaugh, Philip J. 1998 1998-01-01 PMC N PMC7120883 9770684.0 10.1385/0-89603-397-x:399 se5s5tvw 0.690695 Lamb_1991, Morikawa_1992, Krause_1987, Hatfield_1990, Rodnina_2020 Wang_2006, Powell_2011
123 Derdeyn_1995 Characterization of defective-interfering RNAs of rubella virusgenerated during serial undiluted passage Derdeyn, Cynthia A.; Frey, Teryl K. 1995 1995-01-10 PMC N PMC7130850 7831776.0 10.1016/s0042-6822(95)80036-0 jbp8bxjz 0.689448 Banerjee_2001, An_S_1998, Bertholet_1987, Auewarakul_2005, Rice_1992 Tzeng_2006, Adams_2003
124 Sztuba-Solińska_2011 Recombination of 5′ subgenomic RNA3a with genomic RNA3 of Brome mosaic bromovirus in vitro and in vivo Sztuba-Solińska, Joanna; Dzianott, Aleksandra; Bujarski, Jozef J. 2011 2011-02-05 PMC N PMC7111948 21111438.0 10.1016/j.virol.2010.10.037 cp94ecac 0.689334 Stork_2011, Chen_2013, Banerjee_2001, Okamoto_2008, Chen_2017 Adams_2003, Tzeng_2006, Bhullar_2014
125 O'Connor_2000 Downstream Ribosomal Entry for Translation of Coronavirus TGEV Gene 3b O'Connor, Jennifer Black; Brian, David A. 2000 2000-03-30 PMC N PMC7130589 10725209.0 10.1006/viro.2000.0218 kh2t0kfz 0.689038 Jendrach_2014, Lamb_1991, Morikawa_1992, Wurch_1991, Vennema_1991 O'Connor_1999
126 Jendrach_2014 Characterization of an internal ribosome entry site within mRNA 5 of murine hepatitis virus Jendrach, M.; Thiel, V.; Siddell, S. 2014 2014-05-18 PMC N PMC7087331 10416375.0 10.1007/s007050050556 yb7ydyu2 0.687559 Morikawa_1992, Vennema_1991, Wurch_1991, Luytjes_1988
127 Otsuka_1999 Similarity relations of DNA and RNA polymerases investigated by the principal component analysis of amino acid sequences Otsuka, Jinya; Kikuchi, Norihiro; Kojima, Shinji 1999 1999-10-12 PMC N 10525143.0 10.1016/s0167-4838(99)00187-9 4z5jxxf2 0.684935 Gorbalenya_1988, Stork_2011, Payne_2017, Yasuda-Inoue_2013 Nowak_1984
128 Marcheschi_2007 Programmed Ribosomal Frameshifting in SIV is Induced by a Highly Structured RNA Stem-Loop Marcheschi, Ryan J.; Staple, David W.; Butcher, Samuel E. 2007 2007-10-01 PMC N PMC2080864 17868691.0 10.1016/j.jmb.2007.08.033 15s6otuz 0.683950 Pong_2011, Morikawa_1992, Stork_2011, Yasuda-Inoue_2013 Marczinke_1998
129 Beerens_2007 De Novo Initiation of RNA Synthesis by the Arterivirus RNA-Dependent RNA Polymerase Beerens, Nancy; Selisko, Barbara; Ricagno, Stefano; Imbert, Isabelle; van der Zanden, Linda; Snijder, Eric J.; Canard, Bruno 2007 2007-05-30 None N PMC1951334 17537850.0 10.1128/jvi.00564-07 7g1lrzcj 0.682898 Stork_2011, Rice_1992, Yasuda-Inoue_2013, den_Boon_2010, Meyerson_2017 Tzeng_2006
130 Maeda_1998 Importance of coronavirus negative-strand genomic RNA synthesis prior to subgenomic RNA transcription Maeda, Akihiko; An, Sungwhan; Makino, Shinji 1998 1998-09-30 PMC N PMC7127783 9833884.0 10.1016/s0168-1702(98)00090-2 d7yxkpf2 0.682340 Rice_1992, Banerjee_2001, Stork_2011, Mizutani_2000, Payne_2017 Mizutani_2000
131 Zongyu_1994 Detection of negative-stranded subgenomic RNAs but not of free leader in LDV-infected macrophages Zongyu, Chen; Faaberg, Kay S.; Plagemann, Peter G.W. 1994 1994-11-30 PMC N PMC7133802 7856308.0 10.1016/0168-1702(94)90098-1 sw95s6xe 0.682340 Banerjee_2001, Stork_2011, Rice_1992, Mizutani_2000, Chen_2013 Baric_1985, Mizutani_2000
132 Giedroc_2009 Frameshifting RNA pseudoknots: Structure and mechanism Giedroc, David P.; Cornish, Peter V. 2009 2009-02-28 None N PMC2670756 18621088.0 10.1016/j.virusres.2008.06.008 rlnb674e 0.681033 Morikawa_1992, Ivanova_2015, Martínez-Salas_2008, Hatfield_1990, Stork_2011 Marcheschi_2007
133 Ugarov_2008 Functional Circularity of Legitimate Qβ Replicase Templates Ugarov, Victor I.; Chetverin, Alexander B. 2008 2008-06-06 PMC N 18466922.0 10.1016/j.jmb.2008.03.074 lhchx3jt 0.680550 Stork_2011, Ivanova_2015, den_Boon_2010, Lai_M_2005, Meyerson_2017
134 Matsumoto_2018 Small synthetic molecule-stabilized RNA pseudoknot as an activator for –1 ribosomal frameshifting Matsumoto, Saki; Caliskan, Neva; Rodnina, Marina V; Murata, Asako; Nakatani, Kazuhiko 2018 2018-09-19 None N PMC6144811 30085309.0 10.1093/nar/gky689 id4rgjnk 0.680369 Morikawa_1992, Stork_2011, Krause_1987, Trobaugh_2017, Atkins_1999 Okamoto_2008
135 La_Monica_1992 Coronavirus mRNA synthesis: Identification of novel transcription initiation signals which are differentially regulated by different leader sequences La Monica, Nicola; Yokomori, Kyoko; Lai, Michael M.C. 1992 1992-05-31 PMC N PMC7131442 1566582.0 10.1016/0042-6822(92)90774-j 7e477y1x 0.678858 Krause_1987, Morikawa_1992, Rice_1992, Lamb_1991, An_S_1998 Baker_1990
136 Lai_M_1996 Recombination in large RNA viruses: Coronaviruses Lai, Michael M.C. 1996 1996-12-31 PMC N 10.1006/smvy.1996.0046 2s14knw6 0.677979 Rice_1992, Stork_2011, den_Boon_2010, Payne_2017, Auewarakul_2005
137 Guo_Y_2013 Molecular dynamics simulation of RNA pseudoknot unfolding pathway Guo, Yun; Zhang, Wenbing 2013 2013-03-12 PMC N PMC7149040 10.1007/s11859-013-0905-0 2fkghukw 0.676975 Stork_2011, Pong_2011, Atkins_1999, Staple_2005 Green_2008, Singleton_2018
138 Baranov_2005 Programmed ribosomal frameshifting in decoding the SARS-CoV genome Baranov, Pavel V.; Henderson, Clark M.; Anderson, Christine B.; Gesteland, Raymond F.; Atkins, John F.; Howard, Michael T. 2005 2005-02-20 PMC N PMC7111862 15680415.0 10.1016/j.virol.2004.11.038 65bkj1s4 0.676843 Morikawa_1992, Brierley_1989, Jacks_1988, Lamb_1991, Stork_2011 Li_L_2001, Marczinke_1998, Marcheschi_2007
139 LUYTJES_1996 Replication of Synthetic Defective Interfering RNAs Derived from Coronavirus Mouse Hepatitis Virus-A59 LUYTJES, WILLEM; GERRITSMA, HELEEN; SPAAN, WILLY J.M. 1996 1996-02-01 PMC N PMC7130680 8614984.0 10.1006/viro.1996.0044 ejgkrxoe 0.676334 Banerjee_2001, Rice_1992, Auewarakul_2005, Volmer_2010, An_S_1998
140 Olsthoorn_2010 Functional analysis of the SRV-1 RNA frameshifting pseudoknot Olsthoorn, René C. L.; Reumerman, Richard; Hilbers, Cornelis W.; Pleij, Cornelis W. A.; Heus, Hans A. 2010 2010-07-17 NONCOMM N PMC2995055 20639537.0 10.1093/nar/gkq629 8crvjzz4 0.675950 Morikawa_1992, Kang_1998, Hatfield_1990, Jacks_1988, Brierley_1989 Brierley_1991, Marczinke_1998, Li_L_2001
141 Dinan_2020 A case for a negative-strand coding sequence in a group of positive-sense RNA viruses Dinan, Adam M; Lukhovitskaya, Nina I; Olendraite, Ingrida; Firth, Andrew E 2020 2020-02-10 COMM-USE N PMC7010960 32064120.0 10.1093/ve/veaa007 x0t9fu4d 0.675595 Lamb_1991, Auewarakul_2005, Rice_1992, Firth_2009, Payne_2017 Dinan_2019, Bhullar_2014
142 Sittidilokratna_2008 RNA transcription analysis and completion of the genome sequence of yellow head nidovirus Sittidilokratna, Nusra; Dangtip, Sirintip; Cowley, Jeff A.; Walker, Peter J. 2008 2008-09-30 PMC N PMC7114370 18582978.0 10.1016/j.virusres.2008.05.008 bfpnzwyl 0.674408 Luytjes_1988, Lamb_1991, Firth_2009, Morikawa_1992 Goldberg_1991, Rozanov_1995
143 Guo_S_2015 TMV mutants with poly(A) tracts of different lengths demonstrate structural variations in 3′UTR affecting viral RNAs accumulation and symptom expression Guo, Song; Kierzek, Elzbieta; Chen, Gang; Zhou, Yi-Jun; Wong, Sek-Man 2015 2015-12-18 COMM-USE N PMC4683447 26678425.0 10.1038/srep18412 win7duc8 0.674408 Rice_1992, Stork_2011, Chen_2013, Volmer_2010, Banerjee_2001 Li_L_2008
144 Finch_2015 Characterization of Ribosomal Frameshifting in Theiler's Murine Encephalomyelitis Virus Finch, Leanne K.; Ling, Roger; Napthine, Sawsan; Olspert, Allan; Michiels, Thomas; Lardinois, Cécile; Bell, Susanne; Loughran, Gary; Brierley, Ian; Firth, Andrew E. 2015 2015-06-10 COMM-USE N PMC4524249 26063423.0 10.1128/jvi.01043-15 azzgygzk 0.674113 Morikawa_1992, Lamb_1991, Rice_1992, Stork_2011, Jacks_1988 Li_L_2001, DEN_BOON_1995
145 Firth_2010 Evidence for ribosomal frameshifting and a novel overlapping gene in the genomes of insect-specific flaviviruses Firth, Andrew E.; Blitvich, Bradley J.; Wills, Norma M.; Miller, Cathy L.; Atkins, John F. 2010 2010-03-30 None N PMC2830293 20097399.0 10.1016/j.virol.2009.12.033 x1nmbr4g 0.673536 Rice_1992, Lamb_1991, Morikawa_1992, Stork_2011, Ryu_W_2017 Firth_2009, Nowak_1984
146 Lee_N_2010 Cooperative translocation enhances the unwinding of duplex DNA by SARS coronavirus helicase nsP13 Lee, Na-Ra; Kwon, Hyun-Mi; Park, Kkothanahreum; Oh, Sangtaek; Jeong, Yong-Joo; Kim, Dong-Eun 2010 2010-07-29 NONCOMM N PMC2995068 20671029.0 10.1093/nar/gkq647 1k99yv4i 0.672691 Stork_2011, Pong_2011, Gorbalenya_1988, Herold_2001 Adedeji_2012, Reynolds_2015
147 Napthine_1999 The role of RNA pseudoknot stem 1 length in the promotion of efficient −1 ribosomal frameshifting 1 1 Edited by D. E. Draper Napthine, Sawsan; Liphardt, Jan; Bloys, Alison; Routledge, Samantha; Brierley, Ian 1999 1999-05-07 PMC N PMC7126229 10329144.0 10.1006/jmbi.1999.2688 thsmrnrc 0.671174 Morikawa_1992, Hatfield_1990, Krause_1987, Brierley_1989, Firth_2009 Marczinke_1998, Liphardt_1999
148 Cao_S_2008 Predicting ribosomal frameshifting efficiency Cao, Song; Chen, Shi-Jie 2008 2008-03-11 PMC N PMC2442619 18367782.0 10.1088/1478-3975/5/1/016002 5xqnpur7 0.670938 Morikawa_1992, Brierley_1989, Hatfield_1990, Huang_2018 Li_L_2001, Giedroc_2009
149 Liphardt_1999 Evidence for an RNA pseudoknot loop-helix interaction essential for efficient −1 ribosomal frameshifting 1 1 Edited by D. E. Draper Liphardt, Jan; Napthine, Sawsan; Kontos, Harry; Brierley, Ian 1999 1999-05-07 PMC N PMC7141562 10329145.0 10.1006/jmbi.1999.2689 z4mgtb6s 0.670340 Morikawa_1992, Brierley_1989, Hatfield_1990, Brierley_1991, Krause_1987 Napthine_1999, Marczinke_1998
150 Lu_J_2011 A 5'-proximal Stem-loop Structure of 5' Untranslated Region of Porcine Reproductive and Respiratory Syndrome Virus Genome Is Key for Virus Replication Lu, Jiaqi; Gao, Fei; Wei, Zuzhang; Liu, Ping; Liu, Changlong; Zheng, Haihong; Li, Yanhua; Lin, Tao; Yuan, Shishan 2011 2011-04-15 COMM-USE N PMC3096946 21496223.0 10.1186/1743-422x-8-172 k4q6nx73 0.669904 Rice_1992, Banerjee_2001, Yasuda-Inoue_2013, Hyde_2015, Stork_2011 Gao_F_2012
151 Zhong_2016 Mechanical unfolding kinetics of the SRV-1 gag-pro mRNA pseudoknot: possible implications for −1 ribosomal frameshifting stimulation Zhong, Zhensheng; Yang, Lixia; Zhang, Haiping; Shi, Jiahao; Vandana, J. Jeya; Lam, Do Thuy Uyen Ha; Olsthoorn, René C. L.; Lu, Lanyuan; Chen, Gang 2016 2016-12-21 None N PMC5175198 28000744.0 10.1038/srep39549 nr2xmcs0 0.669493 Morikawa_1992, Stork_2011, Guo_Y_2013, Brierley_1989, Pong_2011 Theimer_1999, Marczinke_1998, Marcheschi_2007, Sasvari_2011
152 Yang_2015 SHAPE analysis of the RNA secondary structure of the Mouse Hepatitis Virus 5’ untranslated region and N-terminal nsp1 coding sequences Yang, Dong; Liu, Pinghua; Wudeck, Elyse V.; Giedroc, David P.; Leibowitz, Julian L. 2015 2015-01-15 PMC N PMC4280293 25462342.0 10.1016/j.virol.2014.11.001 cciyb05w 0.667295 Stork_2011, Rice_1992, Pong_2011, Lin_X_2015, Banerjee_2001
153 Penno_2017 Stimulation of reverse transcriptase generated cDNAs with specific indels by template RNA structure: retrotransposon, dNTP balance, RT-reagent usage Penno, Christophe; Kumari, Romika; Baranov, Pavel V.; van Sinderen, Douwe; Atkins, John F. 2017 2017-09-29 NONCOMM N PMC5737552 28973469.0 10.1093/nar/gkx689 k4gtl2o7 0.667193 Stork_2011, Morikawa_1992, Lamb_1991, Rice_1992, Payne_2017 Moser_2012
154 Tam_A_1991 Hepatitis E virus (HEV): Molecular cloning and sequencing of the full-length viral genome Tam, Albert W.; Smith, Matthew M.; Guerra, Martha E.; Huang, Chiao-Chain; Bradley, Daniel W.; Fry, Kirk E.; Reyes, Gregory R. 1991 1991-11-30 PMC N 1926770.0 10.1016/0042-6822(91)90760-9 nnefbeo6 0.665254 Firth_2009, Luytjes_1988, Morikawa_1992, Lamb_1991, Hatfield_1990 Nowak_1984, Ren_X_2008
155 Makino_1988 Primary structure and translation of a defective interfering rna of murine coronavirus Makino, Shinji; Shieh, Chien-Kou; Soe, Lisa H.; Baker, Susan C.; Lai, Michael M.C. 1988 1988-10-31 PMC N PMC7131284 2845661.0 10.1016/0042-6822(88)90526-0 vtrfqozl 0.664639 Morikawa_1992, Hatfield_1990, Lamb_1991, Krause_1987, Firth_2009 Tzeng_2006
156 Moon_2007 FSDB: A frameshift signal database Moon, Sanghoon; Byun, Yanga; Han, Kyungsook 2007 2007-08-31 PMC N 17631420.0 10.1016/j.compbiolchem.2007.05.004 4cjqh2qv 0.663870 Morikawa_1992, Lamb_1991, Hatfield_1990, Moon_2006 Henderson_2006, Brierley_2009
157 Matsufuji_1995 Autoregulatory frameshifting in decoding mammalian ornithine decarboxylase antizyme Matsufuji, Senya; Matsufuji, Tamiko; Miyazaki, Youichi; Murakami, Yasuko; Atkins, John F; Gesteland, Raymond F; Hayashi, Shin-ichi 1995 1995-01-13 PMC N PMC7133313 7813017.0 10.1016/0092-8674(95)90450-6 8lbhu56q 0.663681 Morikawa_1992, Hatfield_1990, Huang_2018, Jacks_1988, Powell_2011 Cobucci-Ponzano_2006
158 Horsburgh_1996 Translational Recoding Induced by G-Rich mRNA Sequences That Form Unusual Structures Horsburgh, Brian C; Kollmus, Heike; Hauser, Hansjörg; Coen, Donald M 1996 1996-09-20 PMC N PMC7126349 8808630.0 10.1016/s0092-8674(00)80170-1 ck0jpp7e 0.663345 Morikawa_1992, Lamb_1991, Hatfield_1990, Jacks_1988, Brierley_1989 Gopinath_2015, Tzeng_2006
159 Cimino_2011 Multifaceted Regulation of Translational Readthrough by RNA Replication Elements in a Tombusvirus Cimino, Peter A.; Nicholson, Beth L.; Wu, Baodong; Xu, Wei; White, K. Andrew 2011 2011-12-08 COMM-USE N PMC3234231 22174683.0 10.1371/journal.ppat.1002423 d4ok8wxs 0.662851 Stork_2011, Rice_1992, Yasuda-Inoue_2013, den_Boon_2010, Pong_2011 Bhullar_2014, Okamoto_2008
160 Vopálenský_2018 Messenger RNAs transcribed from yeast linear cytoplasmic plasmids possess unconventional 5’ and 3’ UTRs and suggest a novel mechanism of translation Václav Vopálenský; Michal Sýkora; Tomáš Mašek; Martin Pospíšek 2018 2018-05-17 BioRxiv N 10.1101/325316 foskvkwn 0.661835 Wang_2007, Krause_1987, Lamb_1991, Ivanova_2015, Bencun_2018 Gutiérrez-Escolano_2003, Nowak_1984
161 Pleij_1994 RNA pseudoknots Pleij, Cornelis W.A. 1994 1994-06-30 PMC N PMC7133496 10.1016/s0959-440x(94)90101-5 ai8n1oeq 0.661651 Staple_2005, Yasuda-Inoue_2013, Martínez-Salas_2008, Stork_2011 Xia_H_2015
162 Plant_2005 A Three-Stemmed mRNA Pseudoknot in the SARS Coronavirus Frameshift Signal Plant, Ewan P; Pérez-Alvarado, Gabriela C; Jacobs, Jonathan L; Mukhopadhyay, Bani; Hennig, Mirko; Dinman, Jonathan D 2005 2005-05-17 COMM-USE N PMC1110908 15884978.0 10.1371/journal.pbio.0030172 a22s8xyz 0.658947 Morikawa_1992, Rice_1992, Stork_2011, Lamb_1991, Gorbalenya_1988
163 Rasschaert_1987 Enteric coronavirus TGEV: partial sequence of the genomic RNA, its organization and expression Rasschaert, Denis; Gelfi, Jacqueline; Laude, Hubert 1987 1987-07-31 PMC N PMC7130962 2825819.0 10.1016/0300-9084(87)90178-7 pwyl57nn 0.658894 Firth_2009, Luytjes_1988, Lamb_1991, Morikawa_1992, Wurch_1991 Goldberg_1991, Jouvenne_1992, Lapps_1987
164 Vennema_1991 Enhancement of the vaccinia virus/phage T7 RNA polymerase expression system using encephalomyocarditis virus 5'-untranslated region sequences Vennema, Harry; Rijnbrand, Rene; Heijnen, Leo; Horzinek, Marian C.; Spaan, Willy J.M. 1991 1991-12-15 PMC N PMC7131192 1660838.0 10.1016/0378-1119(91)90435-e lam9t14l 0.658485 Lamb_1991, Rice_1992, Morikawa_1992, Wurch_1991 Nowak_1984, Tzeng_2006, Brun_2014
165 Toshio_1989 Sequence analysis of nucleocapsid gene and leader RNA of human coronavirus OC43 Toshio, Kamahora; Soe, Lisa H.; Lai, Michael M.C. 1989 1989-01-31 PMC N PMC7134120 2541577.0 10.1016/0168-1702(89)90048-8 vvnhktca 0.657522 Luytjes_1988, Morikawa_1992, Firth_2009, Krause_1987 Goldberg_1991
166 Michiels_2001 Solution structure of the pseudoknot of SRV-1 RNA, involved in ribosomal frameshifting 1 1 Edited by I. Tinoco Michiels, Paul J.A; Versleijen, Alexandra A.M; Verlaan, Paul W; Pleij, Cornelis W.A; Hilbers, Cornelis W; Heus, Hans A 2001 2001-07-27 PMC N 11501999.0 10.1006/jmbi.2001.4823 4g8qtlfs 0.657202 Morikawa_1992, Brierley_1989, Hatfield_1990, Brierley_1991, Atkins_1999
167 Landry_2009 RPS25 is essential for translation initiation by the Dicistroviridae and hepatitis C viral IRESs Landry, Dori M.; Hertz, Marla I.; Thompson, Sunnie R. 2009 2009-12-01 None N PMC2788332 19952110.0 10.1101/gad.1832209 ug4gjst2 0.657001 Yasuda-Inoue_2013, Ivanova_2015, Stork_2011, Lamb_1991 Tzeng_2006, Sasvari_2011
168 Brown_1984 Avian infectious bronchitis virus genomic RNA contains sequence homologies at the intergenic boundaries Brown, T.D.K.; Boursnell, M.E.G. 1984 1984-01-31 PMC N PMC7134132 10.1016/0168-1702(84)90031-5 kw2cedm7 0.656330 Endoh_2005, An_S_1998, Armesto_2007, Krause_1987 Nowak_1984, Tzeng_2006
169 Magliery_2001 Expanding the genetic code: selection of efficient suppressors of four-base codons and identification of “shifty” four-base codons with a library approach in Escherichia coli 1 1 Edited by M. Gottesman Magliery, Thomas J; Anderson, J.Christopher; Schultz, Peter G 2001 2001-03-30 PMC N PMC7125544 11273699.0 10.1006/jmbi.2001.4518 uctd2mnd 0.655461 Morikawa_1992, Lamb_1991, Wu_G_2005, Firth_2009 Belcourt_1990
170 Snijder_1991 Comparison of the genome organization of toro- and coronaviruses: Evidence for two nonhomologous RNA recombination events during berne virus evolution Snijder, Eric J.; Den Boon, Johan A.; Horzinek, Marian C.; Spaan, Willy J.M. 1991 1991-01-31 PMC N PMC7126633 1984666.0 10.1016/0042-6822(91)90056-h x1dv7ag8 0.654832 Luytjes_1988, Firth_2009, Rice_1992, Gorbalenya_1988, Lamb_1991 Jouvenne_1992
171 Tholstrup_2011 mRNA pseudoknot structures can act as ribosomal roadblocks Tholstrup, Jesper; Oddershede, Lene B.; Sørensen, Michael A. 2011 2011-09-08 NONCOMM N PMC3245918 21908395.0 10.1093/nar/gkr686 e18licyc 0.651989 Morikawa_1992, Lamb_1991, Hatfield_1990, Brierley_1989, Krause_1987 Brierley_2009
172 Manktelow_2005 Characterization of the frameshift signal of Edr, a mammalian example of programmed −1 ribosomal frameshifting Manktelow, Emily; Shigemoto, Kazuhiro; Brierley, Ian 2005 2005-03-14 PMC N PMC1065257 15767280.0 10.1093/nar/gki299 mcfmxqp2 0.651324 Morikawa_1992, Krause_1987, Yasuda-Inoue_2013, Firth_2009, Volmer_2010 Marczinke_1998, Li_L_2001, Wang_2006, Powell_2011
173 Brierley_2009 Pseudoknot-Dependent Programmed —1 Ribosomal Frameshifting: Structures, Mechanisms and Models Brierley, Ian; Gilbert, Robert J.C.; Pennell, Simon 2009 2009-07-21 PMC N PMC7119991 10.1007/978-0-387-89382-2_7 ly55753z 0.650949 Morikawa_1992, Lamb_1991, Hatfield_1990, Ivanova_2015, Brierley_1989 Namy_2006
174 Stork_2011 RNA chaperone activity of the tombusviral p33 replication protein facilitates initiation of RNA synthesis by the viral RdRp in vitro Stork, Jozsef; Kovalev, Nikolay; Sasvari, Zsuzsanna; Nagy, Peter D. 2011 2011-01-20 PMC N 21071052.0 10.1016/j.virol.2010.10.015 x8pkgsk1 0.650556 Yasuda-Inoue_2013, Pong_2011, Rice_1992, Meyerson_2017
175 Wesley_1989 Nucleotide sequence of coronavirus TGEV genomic RNA: evidence for 3 mRNA species between the peplomer and matrix protein genes Wesley, Ronald D.; Cheung, Andrew K.; Michael, David D.; Woods, Roger D. 1989 1989-06-30 PMC N PMC7134121 2549745.0 10.1016/0168-1702(89)90008-7 gkhdfd4h 0.650172 Krause_1987, Lamb_1991, Luytjes_1988, Morikawa_1992, Jendrach_2014 Jouvenne_1992, Goldberg_1991
176 Dinan_2019 A case for a reverse-frame coding sequence in a group of positive-sense RNA viruses Adam M. Dinan; Nina I. Lukhovitskaya; Ingrida Olendraite; Andrew E. Firth 2019 2019-06-10 BioRxiv N 10.1101/664342 t16n853r 0.650106 Lamb_1991, Auewarakul_2005, Rice_1992, Firth_2009, Payne_2017 Dinan_2020, Bhullar_2014, Firth_2009
177 Advani_2015 Reprogramming the genetic code: the emerging role of ribosomal frameshifting in regulating cellular gene expression Advani, Vivek M.; Dinman, Jonathan D. 2015 2015-12-12 None N PMC4749135 26661048.0 10.1002/bies.201500131 rdru7ifb 0.646411 Morikawa_1992, Krause_1987, Dubois_2016, Haasnoot_2010, Trobaugh_2017 Powell_2011
178 Huh_C_1995 Structural organization, expression and chromosomal mapping of the mouse cystatin-C-encoding gene (Cst3) Huh, Changgoo; Nagle, James W.; Kozak, Christine A.; Abrahamson, Magnus; Karlsson, Stefan 1995 1995-01-23 PMC N 7835704.0 10.1016/0378-1119(94)00728-b loey5xq9 0.645480 Morikawa_1992, Krause_1987, Firth_2009, Luytjes_1988
179 Brierley_1987 An efficient ribosomal frame-shifting signal in the polymerase-encoding region of the coronavirus IBV. Brierley, I; Boursnell, M E; Binns, M M; Bilimoria, B; Blok, V C; Brown, T D; Inglis, S C 1987 1987-12-01 PMC N PMC553849 3428275.0 zyaqh139 0.645182 Morikawa_1992, Lamb_1991, Wurch_1991, Vennema_1991, Krause_1987 Nowak_1984, Tzeng_2006
180 Edwards_2014 Coat protein expression strategy of oat blue dwarf virus Edwards, Michael C.; Weiland, John J. 2014 2014-02-28 PMC N 24503092.0 10.1016/j.virol.2013.12.018 wyhsxj6g 0.645182 Morikawa_1992, Lamb_1991, Vennema_1991, Stork_2011, Volmer_2010
181 Chevin_2015 Characterisation of Structural Proteins from Chronic Bee Paralysis Virus (CBPV) Using Mass Spectrometry Chevin, Aurore; Coutard, Bruno; Blanchard, Philippe; Dabert-Gay, Anne-Sophie; Ribière-Chabert, Magali; Thiéry, Richard 2015 2015-06-23 COMM-USE N PMC4488741 26110588.0 10.3390/v7062774 rzl03vn1 0.645176 Rice_1992, Stork_2011, Payne_2017, Gorbalenya_1988 Goldberg_1991, Tzeng_2006
182 Sztuba-Solinska_2013 Structural complexity of Dengue virus untranslated regions: cis-acting RNA motifs and pseudoknot interactions modulating functionality of the viral genome Sztuba-Solinska, Joanna; Teramoto, Tadahisa; Rausch, Jason W.; Shapiro, Bruce A.; Padmanabhan, Radhakrishnan; Le Grice, Stuart F. J. 2013 2013-03-26 NONCOMM N PMC3643606 23531545.0 10.1093/nar/gkt203 1pbd4maf 0.642339 Stork_2011, Morikawa_1992, Pong_2011, Gorbalenya_1988, Lin_X_2015
183 Meyers_1992 Rearrangement of viral sequences in cytopathogenic pestiviruses Meyers, Gregor; Tautz, Norbert; Stark, Robert; Brownlie, Joe; Dubovi, Edward J.; Collett, Marc S.; Thiel, Heinz-Jürgen 1992 1992-11-30 PMC N PMC7131167 1329326.0 10.1016/0042-6822(92)90199-y tvjqnxy8 0.642023 Rice_1992, Volmer_2010, Armesto_2007, Payne_2017, Morikawa_1992 Ren_X_2008, Sun_D_2016
184 Lee_H_1991 The complete sequence (22 kilobases) of murine coronavirus gene 1 encoding the putative proteases and RNA polymerase Lee, Han-Jung; Shieh, Chien-Kou; Gorbalenya, Alexander E.; Koonin, Eugene V.; La Monica, Nicola; Tuler, Jeremy; Bagdzhadzhyan, Anush; Lai, Michael M.C. 1991 1991-02-28 PMC N PMC7131164 1846489.0 10.1016/0042-6822(91)90071-i bam3pa70 0.641365 Luytjes_1988, Firth_2009, Morikawa_1992, Lamb_1991 Firth_2009
185 Kovalev_2014 The Expanding Functions of Cellular Helicases: The Tombusvirus RNA Replication Enhancer Co-opts the Plant eIF4AIII-Like AtRH2 and the DDX5-Like AtRH5 DEAD-Box RNA Helicases to Promote Viral Asymmetric RNA Replication Kovalev, Nikolay; Nagy, Peter D. 2014 2014-04-17 COMM-USE N PMC3990711 24743583.0 10.1371/journal.ppat.1004051 t21l6i3f 0.640561 Yasuda-Inoue_2013, Stork_2011, den_Boon_2010, Rice_1992, Pong_2011 Yasuda-Inoue_2013, Li_Z_2009
186 Chen_2017 Coordination among tertiary base pairs results in an efficient frameshift-stimulating RNA pseudoknot Chen, Yu-Ting; Chang, Kai-Chun; Hu, Hao-Teng; Chen, Yi-Lan; Lin, You-Hsin; Hsu, Chiung-Fang; Chang, Cheng-Fu; Chang, Kung-Yao; Wen, Jin-Der 2017 2017-06-02 None N PMC5449628 28334864.0 10.1093/nar/gkx134 aofirvc8 0.640234 Morikawa_1992, Brierley_1989, Atkins_1999, Brierley_1991 Marcheschi_2007, Cornish_2006, Marczinke_1998
187 Ward_2020 The RNA pseudoknots in foot-and-mouth disease virus are dispensable for genome replication but essential for the production of infectious virus Joseph C. Ward; Lidia Lasecka-Dykes; Chris Neil; Oluwapelumi Adeyemi; Sarah Gold; Niall McLean; Caroline Wright; Morgan R. Herod; David Kealy; Emma Warner; Donald P. King; Tobias J. Tuthill; David J. Rowlands; Nicola J. Stonehouse 2020 2020-01-11 BioRxiv N 10.1101/2020.01.10.901801 ahrrphm8 0.639594 Morikawa_1992, Lamb_1991, Firth_2009, Vennema_1991, Luytjes_1988 Bhullar_2014
188 Geng_2019 Variable 3’polyadenylation of Wheat yellow mosaic virus and its novel effects on translation and replication Geng, Guowei; Yu, Chengming; Li, Xiangdong; Yuan, Xuefeng 2019 2019-02-20 COMM-USE N PMC6383263 30786887.0 10.1186/s12985-019-1130-z l2qrlpwh 0.637103 Chen_2013, Lamb_1991, Stork_2011, Chen_2017, Banerjee_2001 Bhullar_2014, Gutiérrez-Escolano_2003
189 Boursnell_1984 Sequencing of coronavirus IBV genomic RNA: a 195-base open reading frame encoded by mRNA B Boursnell, M.E.G.; Brown, T.D.K. 1984 1984-08-31 PMC N PMC7157916 6092234.0 10.1016/0378-1119(84)90169-0 t1nfyzf5 0.635879 Lamb_1991, Brown_1984, Firth_2009, Krause_1987 Nowak_1984, Jouvenne_1992
190 Kim_J_2007 A pseudoknot improves selection efficiency in ribosome display Kim, Jong-Myung; Shin, Ho-Joon; Kim, Kyongmin; Lee, Myung-Shin 2007 2007-04-17 PMC N PMC7090622 17827535.0 10.1007/s12033-007-0017-1 o7mt8hr6 0.635115 Stork_2011, Pong_2011, Ivanova_2015, Volmer_2010, Morikawa_1992 Tzeng_2006, Singleton_2018
191 Lin_H_2004 A complex network of RNA–RNA interactions controls subgenomic mRNA transcription in a tombusvirus Lin, Han-Xin; White, K Andrew 2004 2004-07-29 PMC N PMC514510 15282544.0 10.1038/sj.emboj.7600336 03s4zp4q 0.634680 Rice_1992, Stork_2011, Yasuda-Inoue_2013, Trobaugh_2017, den_Boon_2010 Li_Z_2009
192 Napthine_2016 A novel role for poly(C) binding proteins in programmed ribosomal frameshifting Napthine, Sawsan; Treffers, Emmely E.; Bell, Susanne; Goodfellow, Ian; Fang, Ying; Firth, Andrew E.; Snijder, Eric J.; Brierley, Ian 2016 2016-07-08 None N PMC4937337 27257056.0 10.1093/nar/gkw480 rdgm0q7m 0.634514 Stork_2011, Ivanova_2015, Morikawa_1992, Yasuda-Inoue_2013, Pong_2011
193 Westhof_1992 RNA pseudoknots Westhof, Eric; Jaeger, Luc 1992 1992-06-30 PMC N PMC7144347 10.1016/0959-440x(92)90221-r s32d3di2 0.633317 den_Boon_2010, Martínez-Salas_2008, Wu_B_2009, Rice_1992, Stork_2011
194 An_H_2019 Identification and formation mechanism of a novel noncoding RNA produced by avian infectious bronchitis virus An, Hongliu; Cai, Zhichao; Yang, Yuying; Wang, Zhaoxiong; Liu, Ding Xiang; Fang, Shouguo 2019 2019-02-28 PMC N PMC7112027 30616206.0 10.1016/j.virol.2018.12.019 2naxn580 0.633317 Rice_1992, Lamb_1991, Stork_2011, Trobaugh_2017, den_Boon_2010 Tzeng_2006
195 Belew_2010 Endogenous ribosomal frameshift signals operate as mRNA destabilizing elements through at least two molecular pathways in yeast Belew, Ashton T.; Advani, Vivek M.; Dinman, Jonathan D. 2010 2010-11-24 NONCOMM N PMC3074144 21109528.0 10.1093/nar/gkq1220 cbzd8ybv 0.632524 Wang_2007, Trobaugh_2017, Haasnoot_2010, Moon_2012, Blank_2017 Sarnowska_2007
196 Sung_2003 Prokaryotic and eukaryotic translational machineries respond differently to the frameshifting RNA signal from plant or animal virus Sung, Deukyong; Kang, Hunseung 2003 2003-04-30 PMC N PMC7127617 12686425.0 10.1016/s0168-1702(03)00042-x kuxvnq6d 0.631684 Stork_2011, Morikawa_1992, Rice_1992, Yasuda-Inoue_2013 Li_Z_2009, Marczinke_1998
197 Moon_2006 Prediction of Ribosomal -1 Frameshifts in the Escherichia coli K12 Genome Moon, Sanghoon; Byun, Yanga; Han, Kyungsook 2006 2006-01-01 PMC N PMC7122894 10.1007/11816102_65 czjjnlkf 0.631684 Morikawa_1992, Lamb_1991, Hatfield_1990, Cattaneo_1989 Li_L_2001
198 Makino_1989 Evolution of the 5′-end of genomic rna of murine coronaviruses during passages in vitro Makino, Shinji; Lai, Michael M.C. 1989 1989-03-31 PMC N PMC7131712 2538033.0 10.1016/0042-6822(89)90060-3 1esr4qcz 0.630113 Rice_1992, Auewarakul_2005, Morikawa_1992, Volmer_2010, Lamb_1991 Makino_1988
199 Larsen_1997 Structural probing and mutagenic analysis of the stem-loop required for Escherichia coli dnaX ribosomal frameshifting: programmed efficiency of 50% 1 1 Edited By D. E. Draper Larsen, Bente; Gesteland, Raymond F; Atkins, John F 1997 1997-08-08 PMC N PMC7126992 9300054.0 10.1006/jmbi.1997.1162 169j2woy 0.627089 Morikawa_1992, Hatfield_1990, Krause_1987, Brierley_1989 Marczinke_1998
200 Yang_2013 A cypovirus VP5 displays the RNA chaperone-like activity that destabilizes RNA helices and accelerates strand annealing Yang, Jie; Cheng, Zhenyun; Zhang, Songliu; Xiong, Wei; Xia, Hongjie; Qiu, Yang; Wang, Zhaowei; Wu, Feige; Qin, Cheng-Feng; Yin, Lei; Hu, Yuanyang; Zhou, Xi 2013 2013-12-05 COMM-USE N PMC3936753 24319147.0 10.1093/nar/gkt1256 d6dqr03e 0.626451 Stork_2011, Pong_2011, Yasuda-Inoue_2013, Meyerson_2017, Rice_1992 Xia_H_2015
201 Brakier-Gingras_2012 Targeting frameshifting in the human immunodeficiency virus Brakier-Gingras, Léa; Charbonneau, Johanie; Butcher, Samuel E. 2012 2012-03-01 PMC N PMC3328590 22404160.0 10.1517/14728222.2012.665879 r0mqxu90 0.626451 Morikawa_1992, Lamb_1991, Jacks_1988, Gendron_2010 Brunelle_1999, Jacks_1988
202 Huang_2011 SARS Coronavirus nsp1 Protein Induces Template-Dependent Endonucleolytic Cleavage of mRNAs: Viral mRNAs Are Resistant to nsp1-Induced RNA Cleavage Huang, Cheng; Lokugamage, Kumari G.; Rozovics, Janet M.; Narayanan, Krishna; Semler, Bert L.; Makino, Shinji 2011 2011-12-08 COMM-USE N PMC3234236 22174690.0 10.1371/journal.ppat.1002433 staq8byl 0.623305 Stork_2011, Pong_2011, Rice_1992, Chen_2013, Meyerson_2017
203 Ishimaru_2012 RNA dimerization plays a role in ribosomal frameshifting of the SARS coronavirus Ishimaru, Daniella; Plant, Ewan P.; Sims, Amy C.; Yount, Boyd L.; Roth, Braden M.; Eldho, Nadukkudy V.; Pérez-Alvarado, Gabriela C.; Armbruster, David W.; Baric, Ralph S.; Dinman, Jonathan D.; Taylor, Deborah R.; Hennig, Mirko 2012 2012-12-26 NONCOMM N PMC3575852 23275571.0 10.1093/nar/gks1361 zrbn637z 0.622946 Stork_2011, Pong_2011, Morikawa_1992, Yasuda-Inoue_2013, Lin_X_2015 Su_M_2005, Xia_H_2015
204 Lamb_1991 Diversity of coding strategies in influenza viruses Lamb, Robert A.; Horvath, Curt M. 1991 1991-08-31 PMC N 1771674.0 10.1016/0168-9525(91)90326-l mn6yp6d7 0.622925 Cattaneo_1989, Rice_1992, Vennema_1991, Morikawa_1992
205 Herold_2001 Poliovirus RNA Replication Requires Genome Circularization through a Protein–Protein Bridge Herold, Jens; Andino, Raul 2001 2001-03-01 PMC N PMC7129834 11463383.0 10.1016/s1097-2765(01)00205-2 gs8s7kn8 0.621434 Stork_2011, den_Boon_2010, Pong_2011, Yasuda-Inoue_2013 Bhullar_2014, YU_W_1995
206 Olspert_2015 Transcriptional slippage in the positive-sense RNA virus family Potyviridae Olspert, Allan; Chung, Betty Y-W; Atkins, John F; Carr, John P; Firth, Andrew E 2015 2015-06-25 COMM-USE N PMC4552492 26113364.0 10.15252/embr.201540509 fjrq63me 0.619222 Rice_1992, Yasuda-Inoue_2013, Stork_2011, Volmer_2010, Auewarakul_2005 Sun_D_2016, Firth_2009
207 Galinski_1992 RNA editing in the phosphoprotein gene of the human parainfluenza virus type 3 Galinski, Mark S.; Troy, Roberta M.; Banerjee, Amiya K. 1992 1992-02-29 PMC N PMC7130814 1310183.0 10.1016/0042-6822(92)90020-p l6wh0gud 0.619191 Banerjee_2001, Morikawa_1992, Rice_1992, Krause_1987, Volmer_2010 Nowak_1984, Goldberg_1991
208 Rajagopal_2008 Viral Helicases Rajagopal, Vaishnavi; Patel, Smita S. 2008 2008-11-01 PMC N PMC7121818 10.1007/b135974_20 q3qtgrfc 0.618394 Gralinski_2015, Wojcechowskyj_2010, Yasuda-Inoue_2013, Gupta_2012 Xia_H_2015, Gopinath_2015, Okamoto_2008
209 Ivanyi-Nagy_2012 Core protein-mediated 5′–3′ annealing of the West Nile virus genomic RNA in vitro Ivanyi-Nagy, Roland; Darlix, Jean-Luc 2012 2012-08-31 PMC N 22652509.0 10.1016/j.virusres.2012.05.003 rkq5wn0x 0.617882 Stork_2011, Pong_2011, Rice_1992, Yasuda-Inoue_2013, Meyerson_2017
210 Theis_2008 KnotInFrame: prediction of −1 ribosomal frameshift events Theis, Corinna; Reeder, Jens; Giegerich, Robert 2008 2008-09-27 NONCOMM N PMC2566878 18820303.0 10.1093/nar/gkn578 4ov0j2u3 0.617741 Morikawa_1992, Hatfield_1990, Brierley_1989, Lamb_1991, Price_2019 Su_M_2005, Caliskan_2015, Giedroc_2009
211 Namy_2006 A mechanical explanation of RNA pseudoknot function in programmed ribosomal frameshifting Namy, Olivier; Moran, Stephen J.; Stuart, David I.; Gilbert, Robert J. C.; Brierley, Ian 2006 2006-01-01 None N PMC7094908 16688178.0 10.1038/nature04735 i3yiuai7 0.617682 Morikawa_1992, Hatfield_1990, Brierley_1989, Lamb_1991, Ivanova_2015 Giedroc_2009, Brierley_2009
212 Mazauric_2009 Interaction of the HIV-1 frameshift signal with the ribosome Mazauric, Marie-Hélène; Seol, Yeonee; Yoshizawa, Satoko; Visscher, Koen; Fourmy, Dominique 2009 2009-10-07 NONCOMM N PMC2794165 19812214.0 10.1093/nar/gkp779 ftxq9g7h 0.617204 Morikawa_1992, Brierley_1989, Atkins_1999, Guo_Y_2013, Stork_2011 Marcheschi_2007, Marczinke_1998
213 Yu_C_2013 Stimulation of ribosomal frameshifting by RNA G-quadruplex structures Yu, Chien-Hung; Teulade-Fichou, Marie-Paule; Olsthoorn, René C. L. 2013 2013-10-30 COMM-USE N PMC3919603 24178029.0 10.1093/nar/gkt1022 v6lycc7k 0.617028 Morikawa_1992, Krause_1987, Stork_2011, Ivanova_2015, Masante_2015 Marcheschi_2007, Gopinath_2015
214 Spaan_1983 Coronavirus mRNA synthesis involves fusion of non-contiguous sequences. Spaan, W; Delius, H; Skinner, M; Armstrong, J; Rottier, P; Smeekens, S; van der Zeijst, B A; Siddell, S G 1983 1983-01-01 PMC N PMC555368 6196191.0 jzngtd06 0.614977 Lamb_1991, Rice_1992, Payne_2017, Stork_2011, den_Boon_2010 Gopinath_2015, Tzeng_2006
215 Staple_2005 Pseudoknots: RNA Structures with Diverse Functions Staple, David W; Butcher, Samuel E 2005 2005-06-14 COMM-USE N PMC1149493 15941360.0 10.1371/journal.pbio.0030213 0brhn8oc 0.614681 Stork_2011, Gorbalenya_1988, Pleij_1994, Yasuda-Inoue_2013 Jiang_2013, Wesolowski_2010
216 Gorbalenya_1988 A novel superfamily of nucleoside triphosphate-binding motif containing proteins which are probably involved in duplex unwinding in DNA and RNA replication and recombination Gorbalenya, Alexander E.; Koonin, Eugene V.; Donchenko, Alexei P.; Blinov, Vladimir M. 1988 1988-08-01 PMC N 2841153.0 10.1016/0014-5793(88)81226-2 c5k5rpq5 0.613939 Yasuda-Inoue_2013, Stork_2011, Pong_2011, Rice_1992 Xia_H_2015, Gopinath_2015, Myllykoski_2017
217 Brian_1997 Recombination and Coronavirus Defective Interfering RNAs Brian, David A.; Spaan, Willy J.M. 1997 1997-12-31 PMC N PMC7129747 10.1006/smvy.1997.0109 8sein6kc 0.612622 Rice_1992, den_Boon_2010, Stork_2011, Payne_2017, Banerjee_2001 Tzeng_2006
218 Carter_1990 Transcription of feline calicivirus RNA Carter, M. J. 1990 1990-01-01 PMC N PMC7087285 2241572.0 10.1007/bf01310744 2cfphi88 0.611318 Rice_1992, Stork_2011, Banerjee_2001, Armesto_2007, Lin_X_2015 Carter_1992, Adams_2003, Tzeng_2006
219 Bock_2019 Thermodynamic control of −1 programmed ribosomal frameshifting Bock, Lars V.; Caliskan, Neva; Korniy, Natalia; Peske, Frank; Rodnina, Marina V.; Grubmüller, Helmut 2019 2019-10-10 None N PMC6787027 31601802.0 10.1038/s41467-019-12648-x igzdrbfr 0.610536 Morikawa_1992, Hatfield_1990, Brierley_1989, Krause_1987 Caliskan_2015, Caliskan_2014
220 Kempf_2015 Picornavirus RNA polyadenylation by 3Dpol, the viral RNA-dependent RNA polymerase Kempf, Brian J.; Barton, David J. 2015 2015-08-03 None N PMC4801031 25559071.0 10.1016/j.virusres.2014.12.030 16qy4j1s 0.610383 Rice_1992, Stork_2011, Yasuda-Inoue_2013, den_Boon_2010, Ryu_W_2017 Bhullar_2014, Xia_H_2015
221 Liu_Y_2009 Cis-acting RNA elements in human and animal plus-strand RNA viruses Liu, Ying; Wimmer, Eckard; Paul, Aniko V. 2009 2009-10-31 None N PMC2783963 19781674.0 10.1016/j.bbagrm.2009.09.007 c1kjvfwj 0.608469 Rice_1992, den_Boon_2010, Stork_2011, Martínez-Salas_2008 Bhullar_2014
222 Kruse_2011 A novel synthesis and detection method for cap-associated adenosine modifications in mouse mRNA Kruse, Susanne; Zhong, Silin; Bodi, Zsuzsanna; Button, James; Alcocer, Marcos J. C.; Hayes, Christopher J.; Fray, Rupert 2011 2011-10-24 NONCOMM N PMC3216607 22355643.0 10.1038/srep00126 69vuc6l9 0.608282 Krause_1987, An_S_1998, Wang_2007, Lai_M_2005, Hatfield_1990 Poulsen_2015, Gopinath_2015, Byszewska_2015
223 Jacobs_2006 Identification of functional, endogenous programmed −1 ribosomal frameshift signals in the genome of Saccharomyces cerevisiae Jacobs, Jonathan L.; Belew, Ashton T.; Rakauskaite, Rasa; Dinman, Jonathan D. 2006 2006-12-07 NONCOMM N PMC1802563 17158156.0 10.1093/nar/gkl1033 n3ouk7wa 0.607880 Wang_2007, Morikawa_1992, Krause_1987, Lamb_1991, Price_2019
224 Godeny_1990 Map location of lactate dehydrogenase-elevating virus (LDV) capsid protein (Vpl) gene Godeny, E.K.; Speicher, D.W.; Brintow, M.A. 1990 1990-08-31 PMC N 2371780.0 10.1016/0042-6822(90)90546-4 5rovh1xf 0.607383 Luytjes_1988, Firth_2009, Morikawa_1992, Tohya_1991 Goldberg_1991, Faaberg_1996
225 Tzeng_2006 C-E1 fusion protein synthesized by rubella virus DI RNAs maintained during serial passage Tzeng, Wen-Pin; Frey, Teryl K. 2006 2006-12-20 None N PMC2694048 16938325.0 10.1016/j.virol.2006.07.041 sik7m86l 0.606863 Rice_1992, Banerjee_2001, Stork_2011, Armesto_2007, Payne_2017 Adams_2003
226 Chetverin_1997 Nonhomologous RNA Recombination in a Cell-Free System: Evidence for a Transesterification Mechanism Guided by Secondary Structure Chetverin, Alexander B; Chetverina, Helena V; Demidenko, Alexander A; Ugarov, Victor I 1997 1997-02-21 PMC N 9038341.0 10.1016/s0092-8674(00)81890-5 8oy18apx 0.606531 Stork_2011, den_Boon_2010, Rice_1992, Payne_2017, Lin_X_2015
227 Caliskan_2015 Changed in translation: mRNA recoding by −1 programmed ribosomal frameshifting Caliskan, Neva; Peske, Frank; Rodnina, Marina V. 2015 2015-05-31 PMC N PMC7126180 25850333.0 10.1016/j.tibs.2015.03.006 58cat4xj 0.606101 Trobaugh_2017, Moon_2012, Lamb_1991, Ivanova_2015, Wang_2007 Giedroc_2009
228 Dinman_2012 Mechanisms and Implications of Programmed Translational Frameshifting Dinman, Jonathan D. 2012 2012-06-19 None N PMC3419312 22715123.0 10.1002/wrna.1126 pil78xd3 0.605577 Lamb_1991, Morikawa_1992, Trobaugh_2017, Ivanova_2015, Moon_2012 Henderson_2006
229 Kirkegaard_1986 The mechanism of RNA recombination in poliovirus Kirkegaard, Karla; Baltimore, David 1986 1986-11-07 PMC N PMC7133339 3021340.0 10.1016/0092-8674(86)90600-8 p0nwbgun 0.603378 Rice_1992, Auewarakul_2005, den_Boon_2010, Stork_2011 Adams_2003, King_1982
230 Mauger_2013 The genetic code as expressed through relationships between mRNA structure and protein function Mauger, David M.; Siegfried, Nathan A.; Weeks, Kevin M. 2013 2013-04-17 None N PMC4269304 23499436.0 10.1016/j.febslet.2013.03.002 rdpd6hbg 0.603174 Trobaugh_2017, Ivanova_2015, Dubois_2016, Blank_2017, Moon_2012 Järvelin_2016, Gopinath_2015
231 Potisopon_2014 The methyltransferase domain of dengue virus protein NS5 ensures efficient RNA synthesis initiation and elongation by the polymerase domain Potisopon, Supanee; Priet, Stéphane; Collet, Axelle; Decroly, Etienne; Canard, Bruno; Selisko, Barbara 2014 2014-10-13 COMM-USE N PMC4191377 25209234.0 10.1093/nar/gku666 jhn81kon 0.601909 Stork_2011, Meyerson_2017, Pong_2011, Kang_2009, Yasuda-Inoue_2013 Bhullar_2014, Sasvari_2011
232 Zhou_2011 Mutational analysis of the SDD sequence motif of a PRRSV RNA-dependent RNA polymerase Zhou, Yan; Zheng, HaiHong; Gao, Fei; Tian, DeBin; Yuan, ShiShan 2011 2011-09-16 NONCOMM N PMC7088696 21922433.0 10.1007/s11427-011-4216-4 yo9libo0 0.600422 Stork_2011, Rice_1992, Pong_2011, Yasuda-Inoue_2013 Masante_2015, Tzeng_2006
233 Nga_P_2011 Discovery of the First Insect Nidovirus, a Missing Evolutionary Link in the Emergence of the Largest RNA Virus Genomes Nga, Phan Thi; Parquet, Maria del Carmen; Lauber, Chris; Parida, Manmohan; Nabeshima, Takeshi; Yu, Fuxun; Thuy, Nguyen Thanh; Inoue, Shingo; Ito, Takashi; Okamoto, Kenta; Ichinose, Akitoyo; Snijder, Eric J.; Morita, Kouichi; Gorbalenya, Alexander E. 2011 2011-09-08 COMM-USE N PMC3169540 21931546.0 10.1371/journal.ppat.1002215 ah9cnwzw 0.600333 Ryu_W_2017, Lamb_1991, Rice_1992, Payne_2017, Firth_2009 Gorbalenya_2006, Ogando_2019, Enjuanes_2008
234 Cologna_2000 Identification of Nucleocapsid Binding Sites within Coronavirus-Defective Genomes Cologna, Raymond; Spagnolo, Jeannie F.; Hogue, Brenda G. 2000 2000-11-25 PMC N PMC7131401 11080472.0 10.1006/viro.2000.0611 zo2ff0jk 0.599288 Rice_1992, Stork_2011, Banerjee_2001, Kang_2009, Lin_X_2015 Zhang_2015, Wulan_2015, Masters_1992, Bhullar_2014
235 Bujarski_1994 Molecular Studies of Genetic RNA–RNA Recombination in Brome Mosaic Virus Bujarski, Jozef J.; Nagy, Peter D.; Flasinski, Stanislaw 1994 1994-12-31 PMC N 8191956.0 10.1016/s0065-3527(08)60051-2 0u2fatbg 0.598878 Rice_1992, den_Boon_2010, Auewarakul_2005, Payne_2017, Gmyl_2005 Adams_2003
236 Yang_2009 Translational control of the subgenomic RNAs of severe acute respiratory syndrome coronavirus Yang, Yaling; Hussain, Snawar; Wang, Hao; Ke, Min; Guo, Deyin 2009 2009-04-12 PMC N PMC7089290 19363699.0 10.1007/s11262-009-0357-y pz7mi86u 0.598831 Lamb_1991, Morikawa_1992, Firth_2009, Hatfield_1990 Wang_2009
237 Crescenzo-Chaigne_2013 The Panhandle Formed by Influenza A and C Virus NS Non-Coding Regions Determines NS Segment Expression Crescenzo-Chaigne, Bernadette; Barbezange, Cyril; van der Werf, Sylvie 2013 2013-11-21 COMM-USE N PMC3858493 24348921.0 10.1371/journal.pone.0081550 puj74k7y 0.596297 Rice_1992, Volmer_2010, Morikawa_1992, Trobaugh_2017 Crescenzo-Chaigne_2014
238 Maines_2005 Two cellular proteins that interact with a stem loop in the simian hemorrhagic fever virus 3′(+)NCR RNA Maines, Taronna R.; Young, Mary; Dinh, Nikita Nhu-Nguyen; Brinton, Margo A. 2005 2005-05-31 PMC N PMC7126611 15763141.0 10.1016/j.virusres.2004.11.014 8hvznle0 0.595901 Pong_2011, Stork_2011, Yasuda-Inoue_2013, Gorbalenya_1988, Kang_2009
239 Korniy_2019 Mechanisms and biomedical implications of –1 programmed ribosome frameshifting on viral and bacterial mRNAs Korniy, Natalia; Samatova, Ekaterina; Anokhina, Maria M.; Peske, Frank; Rodnina, Marina V. 2019 2019-06-20 NONCOMM N PMC6771820 31222875.0 10.1002/1873-3468.13478 bxbmcntf 0.595734 Morikawa_1992, Lamb_1991, Trobaugh_2017, Martínez-Salas_2008, Hatfield_1990 Powell_2011, Gopinath_2015
240 Giedroc_2000 Structure, stability and function of RNA pseudoknots involved in stimulating ribosomal frameshifting 1 1 Edited by D. E. Draper Giedroc, David P; Theimer, Carla A; Nixon, Paul L 2000 2000-04-28 PMC N PMC7126452 10764589.0 10.1006/jmbi.2000.3668 jbcnz0of 0.595370 Morikawa_1992, Lamb_1991, Martínez-Salas_2008, Brierley_1989, Hatfield_1990 Marczinke_1998
241 Baric_1987 Analysis of intracellular small RNAs of mouse hepatitis virus: evidence for discontinuous transcription Baric, Ralph S.; Shieh, Chien-Kou; Stohlman, Stephen A.; Lai, Michael M.C. 1987 1987-02-28 PMC N PMC7130593 3027983.0 10.1016/0042-6822(87)90414-4 ck7eto16 0.595020 Stork_2011, Rice_1992, Payne_2017, Banerjee_2001, Trobaugh_2017 Baric_1985, Nowak_1984
242 Ahn_D_2012 Biochemical characterization of a recombinant SARS coronavirus nsp12 RNA-dependent RNA polymerase capable of copying viral RNA templates Ahn, Dae-Gyun; Choi, Jin-Kyu; Taylor, Deborah R.; Oh, Jong-Won 2012 2012-07-13 PMC N PMC7086750 22791111.0 10.1007/s00705-012-1404-x 1tlxfc6r 0.594682 Stork_2011, Pong_2011, Meyerson_2017, Rice_1992 Tzeng_2006
243 Vendeix_2012 Human tRNA(Lys3)(UUU) is Pre-Structured by Natural Modifications for Cognate and Wobble Codon Binding through Keto-EnolTautomerism Vendeix, Franck A. P.; Murphy, Frank V.; Cantara, William A.; Leszczyńska, Grażyna; Gustilo, Estella M.; Sproat, Brian; Malkiewicz, Andrzej; Agris, Paul F. 2012 2012-03-01 PMC N PMC3662832 22227389.0 10.1016/j.jmb.2011.12.048 xx73wawr 0.594143 Morikawa_1992, Krause_1987, Powell_2011, Brierley_1989, Huang_2018 Tükenmez_2015, Marczinke_2000, Scrima_2004, Powell_2011
244 Tükenmez_2015 The role of wobble uridine modifications in +1 translational frameshifting in eukaryotes Tükenmez, Hasan; Xu, Hao; Esberg, Anders; Byström, Anders S. 2015 2015-10-30 COMM-USE N PMC4627075 26283182.0 10.1093/nar/gkv832 7c37elh6 0.593753 Morikawa_1992, Hatfield_1990, Jacks_1988, Krause_1987, Powell_2011 Marczinke_2000, Punekar_2012, Scrima_2004
245 Madhugiri_2014 RNA structure analysis of alphacoronavirus terminal genome regions Madhugiri, Ramakanth; Fricke, Markus; Marz, Manja; Ziebuhr, John 2014 2014-12-19 PMC N PMC7114417 25307890.0 10.1016/j.virusres.2014.10.001 7de21oaq 0.593753 Rice_1992, den_Boon_2010, Payne_2017, Stork_2011 Adams_2003
246 Ke_T_2013 A Leaderless Genome Identified during Persistent Bovine Coronavirus Infection Is Associated with Attenuation of Gene Expression Ke, Ting-Yung; Liao, Wei-Yu; Wu, Hung-Yi 2013 2013-12-12 COMM-USE N PMC3861326 24349214.0 10.1371/journal.pone.0082176 5gn2qy8g 0.593476 Rice_1992, Stork_2011, Banerjee_2001, Lamb_1991, Auewarakul_2005 Tzeng_2006
247 Dinman_2012 Control of gene expression by translational recoding Dinman, Jonathan D. 2012 2012-12-31 PMC N PMC7149833 22243583.0 10.1016/b978-0-12-386497-0.00004-9 ay3ayh8b 0.592433 Lamb_1991, Cattaneo_1989, Hatfield_1990, Morikawa_1992 Cobucci-Ponzano_2006, Cassan_1990, Caliskan_2015
248 Melior_2019 Transcription attenuation-derived small RNA rnTrpL regulates tryptophan biosynthesis gene expression in trans Melior, Hendrik; Li, Siqi; Madhugiri, Ramakanth; Stötzel, Maximilian; Azarderakhsh, Saina; Barth-Weber, Susanne; Baumgardt, Kathrin; Ziebuhr, John; Evguenieva-Hackenberg, Elena 2019 2019-07-09 NONCOMM N PMC6614838 30993322.0 10.1093/nar/gkz274 ilbh8723 0.591849 Wang_2007, Krause_1987, Blank_2017, Bencun_2018, Morikawa_1992 Powell_2011, Sasvari_2011
249 Kierzek_2006 Nearest neighbor parameters for Watson–Crick complementary heteroduplexes formed between 2′-O-methyl RNA and RNA oligonucleotides Kierzek, Elzbieta; Mathews, David H.; Ciesielska, Anna; Turner, Douglas H.; Kierzek, Ryszard 2006 2006-07-26 PMC N PMC1540717 16870722.0 10.1093/nar/gkl232 sztzrx1l 0.591191 Guo_Y_2013, Fernando_2008, Staple_2005, Krause_1987 Cornish_2006, Vasquez-Del_Carpio_2006, Su_L_1999
250 Shu-Yun_Le_1991 RNA pseudoknots downstream of the frameshift sites of retroviruses Shu-Yun Le, ; Shapiro, Bruce A.; Chen, Jih-H.; Nussinov, Ruth; Maizel, Jacob V. 1991 1991-11-30 PMC N 1663382.0 10.1016/1050-3862(91)90013-h i3bbo0qg 0.590739 Rice_1992, Ryu_W_2017, den_Boon_2010, Tallmadge_2008, Pong_2011 Bhullar_2014
251 Thomas_1988 Two mRNAs that differ by two nontemplated nucleotides encode the amino coterminal proteins P and V of the paramyxovirus SV5 Thomas, Sheila M.; Lamb, Robert A.; Paterson, Reay G. 1988 1988-09-09 PMC N PMC7133244 3044614.0 10.1016/s0092-8674(88)91285-8 tysyq6o4 0.588970 Luytjes_1988, Firth_2009, Morikawa_1992, UNKNOWN_1987
252 Kumar_2017 Molecular characterization of a novel cryptic virus infecting pigeonpea plants Kumar, Surender; Subbarao, Burra L.; Kumari, Reenu; Hallan, Vipin 2017 2017-08-03 COMM-USE N PMC5542627 28771507.0 10.1371/journal.pone.0181829 ypov9ha3 0.588603 Firth_2009, Rice_1992, Gorbalenya_1988, Wurch_1991, Payne_2017 Goldberg_1991, Ren_X_2008, Wu_H_2004
253 Zhu_B_2014 Identification of the Active Sites in the Methyltransferases of a Transcribing dsRNA Virus Zhu, Bin; Yang, Chongwen; Liu, Hongrong; Cheng, Lingpeng; Song, Feng; Zeng, Songjun; Huang, Xiaojun; Ji, Gang; Zhu, Ping 2014 2014-05-29 None N PMC7094362 24690366.0 10.1016/j.jmb.2014.03.013 um9zw5bv 0.588267 Stork_2011, Pong_2011, den_Boon_2010, Gorbalenya_1988, Lin_X_2015 Gopinath_2015
254 Wen_J_2008 Following translation by single ribosomes one codon at a time Wen, Jin-Der; Lancaster, Laura; Hodges, Courtney; Zeri, Ana-Carolina; Yoshimura, Shige H.; Noller, Harry F.; Bustamante, Carlos; Tinoco, Ignacio 2008 2008-03-09 PMC N PMC2556548 18327250.0 10.1038/nature06716 iy1oyiqm 0.587499 Hatfield_1990, Krause_1987, Morikawa_1992, Brierley_1989 Chen_2013
255 Kim_H_2019 RNA-Dependent RNA Polymerase Speed and Fidelity are not the Only Determinants of the Mechanism or Efficiency of Recombination Kim, Hyejeong; Ellis, Victor D.; Woodman, Andrew; Zhao, Yan; Arnold, Jamie J.; Cameron, Craig E. 2019 2019-11-25 COMM-USE N PMC6947342 31775299.0 10.3390/genes10120968 vbmkasx2 0.587292 Stork_2011, den_Boon_2010, Volmer_2010, Masante_2015, Kang_2009 Kim_H_2019
256 Wu_B_2007 Uncoupling RNA virus replication from transcription via the polymerase: functional and evolutionary insights Wu, Baodong; White, K Andrew 2007 2007-11-22 PMC N PMC2140117 18034156.0 10.1038/sj.emboj.7601931 qufm6boc 0.585273 Stork_2011, Rice_1992, Yasuda-Inoue_2013, Trobaugh_2017, den_Boon_2010 Bhullar_2014
257 Wang_2001 Specific Inhibition of Coxsackievirus B3 Translation and Replication by Phosphorothioate Antisense Oligodeoxynucleotides Wang, Aikun; Cheung, Paul K. M.; Zhang, Huifang; Carthy, Christopher M.; Bohunek, Lubos; Wilson, Janet E.; McManus, Bruce M.; Yang, Decheng 2001 2001-04-01 None N PMC90423 11257014.0 10.1128/aac.45.4.1043-1052.2001 t78fyys0 0.584538 Stork_2011, Masaki_2015, Rice_1992, Meyerson_2017, Yasuda-Inoue_2013 Masante_2015, DEN_BOON_1995, Sun_D_2016, Tzeng_2006
258 Gmyl_2005 Diverse Mechanisms of RNA Recombination Gmyl, A. P.; Agol, V. I. 2005 2005-01-01 PMC N PMC7089151 10.1007/s11008-005-0069-x 5t5xthk6 0.583981 Rice_1992, den_Boon_2010, Trobaugh_2017, Stork_2011 Adams_2003
259 Tuteja_2004 Prokaryotic and eukaryotic DNA helicases: Essential molecular motor proteins for cellular machinery Tuteja, Narendra; Tuteja, Renu 2004 2004-04-19 PMC N PMC7164108 15128294.0 10.1111/j.1432-1033.2004.04093.x 0i2dvdey 0.583703 Gorbalenya_1988, Yasuda-Inoue_2013, Taschuk_2020, Stork_2011, den_Boon_2010
260 De_Groot_1988 Sequence analysis of the 3′ end of the feline coronavirus FIPV 79-1146 genome: Comparison with the genome of porcine coronavirus TGEV reveals large insertions De Groot, Raoul J.; Andeweg, Arno C.; Horzinek, Marian C.; Spaan, Willy J.M. 1988 1988-12-31 PMC N PMC7130511 3201747.0 10.1016/0042-6822(88)90097-9 i6vuhaiv 0.581500 Luytjes_1988, Morikawa_1992, Armesto_2007, Yamanaka_1998, Firth_2009 Vennema_1992, Yamanaka_1998, Crucière_1988
261 Lo_C_2019 Interaction of coronavirus nucleocapsid protein with the 5′‐ and 3′‐ends of the coronavirus genome is involved in genome circularization and negative‐strand RNA synthesis Lo, Chen‐Yu; Tsai, Tsung‐Lin; Lin, Chao‐Nan; Lin, Ching‐Hung; Wu, Hung‐Yi 2019 2019-05-08 PMC N PMC7164124 31034708.0 10.1111/febs.14863 ap0w40vn 0.580853 Kang_2009, Stork_2011, Volmer_2010, Meyerson_2017, Shi_S_2000
262 Usui_2015 A design principle for a single-stranded RNA genome that replicates with less double-strand formation Usui, Kimihito; Ichihashi, Norikazu; Yomo, Tetsuya 2015 2015-09-18 NONCOMM N PMC4652763 26202975.0 10.1093/nar/gkv742 znhvdtg8 0.578464 Stork_2011, Rice_1992, den_Boon_2010, Payne_2017, Wu_B_2009 Adams_2003
263 Cooper_2014 Proof by synthesis of Tobacco mosaic virus Cooper, Bret 2014 2014-04-30 COMM-USE N PMC4072989 24887356.0 10.1186/gb-2014-15-5-r67 ihip45mw 0.577495 Rice_1992, Tallmadge_2008, Stork_2011, Armesto_2007, Keep_2014 Tzeng_2006, Nowak_1984, Satyanarayana_2003
264 Bekaert_2005 An Extended Signal Involved in Eukaryotic −1 Frameshifting Operates through Modification of the E Site tRNA Bekaert, Michaël; Rousset, Jean-Pierre 2005 2005-01-07 PMC N PMC7129640 15629717.0 10.1016/j.molcel.2004.12.009 yf8fvx7k 0.575770 Morikawa_1992, Hatfield_1990, Krause_1987, Lamb_1991, Gorbalenya_1988 Li_L_2001, Gopinath_2015
265 Gorbalenya_2006 Nidovirales: Evolving the largest RNA virus genome Gorbalenya, Alexander E.; Enjuanes, Luis; Ziebuhr, John; Snijder, Eric J. 2006 2006-04-30 PMC N PMC7114179 16503362.0 10.1016/j.virusres.2006.01.017 r68l7g2e 0.574454 Rice_1992, Payne_2017, den_Boon_2010, Lamb_1991, Stork_2011 Enjuanes_2008, Posthuma_2017, Ogando_2019
266 Parsons_1984 Trypanosome mRNAs share a common 5′ spliced leader sequence Parsons, Marilyn; Nelson, Richard G.; Watkins, Kenneth P.; Agabian, Nina 1984 1984-08-31 PMC N PMC7133311 6088073.0 10.1016/0092-8674(84)90552-x 5r0oc9kz 0.574434 Krause_1987, Lamb_1991, Wang_2007, Bertholet_1987 Milhausen_1984, Samal_2013, Baric_1985
267 Martínez-Salas_2008 The impact of RNA structure on picornavirus IRES activity Martínez-Salas, Encarnación 2008 2008-05-31 PMC N 18420413.0 10.1016/j.tim.2008.01.013 hq84lje9 0.574153 Lamb_1991, Landry_2009, Rice_1992, Ivanova_2015
268 Brian_2005 Coronavirus Genome Structure and Replication Brian, D. A.; Baric, R. S. 2005 2005-01-01 PMC N PMC7120446 15609507.0 10.1007/3-540-26765-4_1 pl3tmky8 0.571765 Ryu_W_2017, Rice_1992, Crowe_2014, Payne_2017, Armesto_2007 Niemeyer_2018, Ren_X_2008, Phillips_2011
269 Yokomori_1991 Heterogeneity of gene expression of the hemagglutinin-esterase (HE) protein of murine coronaviruses Yokomori, Kyoko; Banner, Lisa R.; Lai, Michael M.C. 1991 1991-08-31 PMC N PMC7130567 1649505.0 10.1016/0042-6822(91)90994-m wbwb90h8 0.571741 Volmer_2010, Rice_1992, Auewarakul_2005, Morikawa_1992, Kang_2009 Duckmanton_1999, Morita_1998, Zhang_1998
270 Graham_2008 Sequence analysis of a reovirus isolated from the winter moth Operophtera brumata (Lepidoptera: Geometridae) and its parasitoid wasp Phobocampe tempestiva (Hymenoptera: Ichneumonidae) Graham, Robert I.; Rao, Shujing; Sait, Steven M.; Attoui, Houssam; Mertens, Peter P.C.; Hails, Rosemary S.; Possee, Robert D. 2008 2008-07-31 PMC N PMC7114361 18405997.0 10.1016/j.virusres.2008.02.005 s0zrvn9o 0.570791 Wurch_1991, Firth_2009, Krause_1987, Luytjes_1988, Vennema_1991 Zhou_2017, Hashimoto_2005, Goldberg_1991
271 Dunkle_2015 Mechanisms of mRNA frame maintenance and its subversion during translation of the genetic code Dunkle, Jack A.; Dunham, Christine M. 2015 2015-07-01 PMC N PMC4458409 25708857.0 10.1016/j.biochi.2015.02.007 0v8yd5qj 0.570295 Lamb_1991, Morikawa_1992, Cattaneo_1989, Rodnina_2020 Powell_2011, Gopinath_2015
272 Flores_2000 Avsunviroidae family: Viroids containing hammerhead ribozymes Flores, Ricardo; Daròs, Jose-Antonio; Hernández, Carmen 2000 2000-12-31 PMC N 11050945.0 10.1016/s0065-3527(00)55006-4 crmggkkx 0.570172 den_Boon_2010, Stork_2011, Liu_Y_2009, Staple_2005, Modrow_2013
273 MÉNDEZ_1996 Molecular Characterization of Transmissible Gastroenteritis Coronavirus Defective Interfering Genomes: Packaging and Heterogeneity MÉNDEZ, ANA; SMERDOU, CRISTIAN; IZETA, ANDER; GEBAUER, FÁTIMA; ENJUANES, LUIS 1996 1996-03-15 PMC N PMC7131039 8610441.0 10.1006/viro.1996.0144 i9q5il41 0.570008 Banerjee_2001, Rice_1992, Auewarakul_2005, Brown_1984, Payne_2017 Tzeng_2006, Derdeyn_1995
274 Gendron_2010 The activity of the HIV-1 IRES is stimulated by oxidative stress and controlled by a negative regulatory element Gendron, Karine; Ferbeyre, Gerardo; Heveker, Nikolaus; Brakier-Gingras, Léa 2010 2010-10-08 None N PMC3035469 20935056.0 10.1093/nar/gkq885 qtn3ukf4 0.567175 Ivanova_2015, Chen_2013, Landry_2009, Morikawa_1992 van_der_Linden_2014, Fajardo_2012
275 Napthine_2017 Protein-directed ribosomal frameshifting temporally regulates gene expression Napthine, Sawsan; Ling, Roger; Finch, Leanne K.; Jones, Joshua D.; Bell, Susanne; Brierley, Ian; Firth, Andrew E. 2017 2017-06-08 COMM-USE N PMC5472766 28593994.0 10.1038/ncomms15582 50lhd5yc 0.567000 Trobaugh_2017, Lamb_1991, Morikawa_1992, Ivanova_2015, Herbert_2016 Henderson_2006
276 Firth_2011 Discovery of a small arterivirus gene that overlaps the GP5 coding sequence and is important for virus production Firth, Andrew E.; Zevenhoven-Dobbe, Jessika C.; Wills, Norma M.; Go, Yun Young; Balasuriya, Udeni B. R.; Atkins, John F.; Snijder, Eric J.; Posthuma, Clara C. 2011 2011-05-23 COMM-USE N PMC3139419 21307223.0 10.1099/vir.0.029264-0 vjre36nt 0.566190 Lamb_1991, Rice_1992, Morikawa_1992, Luytjes_1988, Firth_2009 Firth_2009, Goldberg_1991
277 Draker_2006 The complete sequence of the bovine torovirus genome Draker, Ryan; Roper, Rachel L.; Petric, Martin; Tellier, Raymond 2006 2006-01-31 PMC N PMC7114287 16137782.0 10.1016/j.virusres.2005.07.005 bvvjdnp7 0.566190 Gorbalenya_1988, Luytjes_1988, Firth_2009, Morikawa_1992, Lee_H_1991 Duckmanton_1998, Ren_X_2008
278 Pachuk_1989 Molecular cloning of the gene encoding the putative polymerase of mouse hepatitis coronavirus, strain A59 Pachuk, Catherine J.; Bredenbeek, Peter J.; Zoltick, Philip W.; Spaan, Willy J.M.; Weiss, Susan R. 1989 1989-07-31 PMC N PMC7130916 2545027.0 10.1016/0042-6822(89)90520-5 l2akpv5b 0.566073 Krause_1987, Firth_2009, Luytjes_1988, Morikawa_1992, Wurch_1991 Nowak_1984
279 van_Ooij_2006 Polyadenylation of genomic RNA and initiation of antigenomic RNA in a positive-strand RNA virus are controlled by the same cis-element van Ooij, Mark J. M.; Polacek, Charlotta; Glaudemans, Dirk H. R. F.; Kuijpers, Judith; van Kuppeveld, Frank J. M.; Andino, Raul; Agol, Vadim I.; Melchers, Willem J. G. 2006 2006-05-31 PMC N PMC1474053 16738134.0 10.1093/nar/gkl349 4s71mh8j 0.564477 Stork_2011, Rice_1992, Yasuda-Inoue_2013, den_Boon_2010, Payne_2017 Bhullar_2014
280 Yi_G_2009 RNA Binding by the Brome Mosaic Virus Capsid Protein and the Regulation of Viral RNA Accumulation Yi, Guanghui; Vaughan, Robert C.; Yarbrough, Ian; Dharmaiah, S.; Kao, C. Cheng 2009 2009-08-01 PMC N PMC2774812 19481091.0 10.1016/j.jmb.2009.05.065 4hwamo17 0.563316 Stork_2011, Rice_1992, Yasuda-Inoue_2013, Meyerson_2017, Banerjee_2001 Bhullar_2014, Tzeng_2006
281 Sasvari_2011 Synergistic Roles of Eukaryotic Translation Elongation Factors 1Bγ and 1A in Stimulation of Tombusvirus Minus-Strand Synthesis Sasvari, Zsuzsanna; Izotova, Lara; Kinzy, Terri Goss; Nagy, Peter D. 2011 2011-12-15 COMM-USE N PMC3240602 22194687.0 10.1371/journal.ppat.1002438 tkfozwpf 0.562974 Stork_2011, Li_Z_2010, den_Boon_2010, Yasuda-Inoue_2013 Li_Z_2010, Li_Z_2009
282 Lenstra_1988 Synthesis of long cDNA from viral RNA template Lenstra, J.A.; De Groot, R.J.; Jacobs, L.; Kusters, J.G.; Niesters, H.G.M.; Van Der Zeijst, B.A.M. 1988 1988-06-30 PMC N 3192156.0 10.1016/0735-0651(88)90017-9 rd61t7ln 0.561524 Stork_2011, Majerciak_2018, An_S_1998, Endoh_2005 Nowak_1984
283 Wang_2011 Poly(C)-Binding Protein 2 Interacts with Sequences Required for Viral Replication in the Hepatitis C Virus (HCV) 5′ Untranslated Region and Directs HCV RNA Replication through Circularizing the Viral Genome Wang, Linya; Jeng, King-Song; Lai, Michael M. C. 2011 2011-06-01 PMC N PMC3147998 21632751.0 10.1128/jvi.00339-11 r2j3yssb 0.561448 Yasuda-Inoue_2013, Stork_2011, Liu_H_2009, Meyerson_2017, Masaki_2015 Bhullar_2014
284 Nakagawa_2016 Chapter Five Viral and Cellular mRNA Translation in Coronavirus-Infected Cells Nakagawa, K.; Lokugamage, K.G.; Makino, S. 2016 2016-12-31 None N PMC5388242 27712623.0 10.1016/bs.aivir.2016.08.001 ncufofro 0.560867 Lamb_1991, Rice_1992, Yasuda-Inoue_2013, Stork_2011, Trobaugh_2017 Tzeng_2006, Galán_2009, Bhullar_2014
285 Imbert_2006 A second, non-canonical RNA-dependent RNA polymerase in SARS Coronavirus Imbert, Isabelle; Guillemot, Jean-Claude; Bourhis, Jean-Marie; Bussetta, Cécile; Coutard, Bruno; Egloff, Marie-Pierre; Ferron, François; Gorbalenya, Alexander E; Canard, Bruno 2006 2006-10-05 PMC N PMC1618104 17024178.0 10.1038/sj.emboj.7601368 31by8zse 0.560188 Stork_2011, Pong_2011, Yasuda-Inoue_2013, Gorbalenya_1988 Ahn_D_2012, Bhullar_2014
286 Malagnac_2013 Rab-GDI Complex Dissociation Factor Expressed through Translational Frameshifting in Filamentous Ascomycetes Malagnac, Fabienne; Fabret, Céline; Prigent, Magali; Rousset, Jean-Pierre; Namy, Olivier; Silar, Philippe 2013 2013-09-19 COMM-USE N PMC3777964 24069231.0 10.1371/journal.pone.0073772 vy1nxax2 0.559713 Wang_2007, Krause_1987, Connelly_1996, Volmer_2010, Brown_2008 Bhat_2011, Suzuki_1992
287 Kozak_2002 Pushing the limits of the scanning mechanism for initiation of translation Kozak, Marilyn 2002 2002-10-16 PMC N PMC7126118 12459250.0 10.1016/s0378-1119(02)01056-9 6f4h3cck 0.559664 Morikawa_1992, Hatfield_1990, Lamb_1991, Brierley_1989, Krause_1987 Powell_2011, Napthine_2009, KRISHNAN_1996
288 de_Vries_1997 The Genome Organization of the Nidovirales: Similarities and Differences between Arteri-, Toro-, and Coronaviruses de Vries, Antoine A.F.; Horzinek, Marian C.; Rottier, Peter J.M.; de Groot, Raoul J. 1997 1997-02-28 PMC N 10.1006/smvy.1997.0104 4kgy20o9 0.558854 Ryu_W_2017, Wang_2015, den_Boon_2010, Rice_1992 Niemeyer_2018, Gorbalenya_2006
289 Xie_P_2016 Model of the pathway of −1 frameshifting: Long pausing Xie, Ping 2016 2016-01-29 None N PMC5600365 28955849.0 10.1016/j.bbrep.2016.01.017 ajfgwe3o 0.558056 Morikawa_1992, Krause_1987, Hatfield_1990, Huang_2018, Brierley_1989
290 Lehmann_2016 Arterivirus RNA-dependent RNA polymerase: Vital enzymatic activity remains elusive Lehmann, Kathleen C.; Gorbalenya, Alexander E.; Snijder, Eric J.; Posthuma, Clara C. 2016 2016-01-31 PMC N PMC7111705 26499043.0 10.1016/j.virol.2015.10.002 xzw8iwzf 0.557173 Stork_2011, Pong_2011, Kang_2009, Rice_1992, Meyerson_2017 Yu_F_2007
291 Wong_2008 Identification of Plant Virus IRES Wong, Sek-Man; Koh, Dora Chin-Yen; Liu, Dingxiang 2008 2008-01-01 PMC N PMC7121985 18370252.0 10.1007/978-1-59745-102-4_9 9ix9sg2u 0.556299 Rice_1992, Stork_2011, Chen_2013, Yasuda-Inoue_2013 Wu_H_2004, Tzeng_2006, Garcia_2014
292 Firth_2012 Ribosomal frameshifting used in influenza A virus expression occurs within the sequence UCC_UUU_CGU and is in the +1 direction Firth, A. E.; Jagger, B. W.; Wise, H. M.; Nelson, C. C.; Parsawar, K.; Wills, N. M.; Napthine, S.; Taubenberger, J. K.; Digard, P.; Atkins, J. F. 2012 2012-10-23 COMM-USE N PMC3498833 23155484.0 10.1098/rsob.120109 mq414yby 0.556164 Volmer_2010, Rice_1992, Lamb_1991, Auewarakul_2005, Berkhout_2006 Li_L_2001, Tzeng_2006
293 Nedialkova_2010 Arterivirus Nsp1 Modulates the Accumulation of Minus-Strand Templates to Control the Relative Abundance of Viral mRNAs Nedialkova, Danny D.; Gorbalenya, Alexander E.; Snijder, Eric J. 2010 2010-02-19 COMM-USE N PMC2824749 20174607.0 10.1371/journal.ppat.1000772 6g55l35h 0.555890 Rice_1992, Stork_2011, Yasuda-Inoue_2013, Meyerson_2017, den_Boon_2010 Tzeng_2006
294 Arkhipova_2017 Giant Reverse Transcriptase-Encoding Transposable Elements at Telomeres Arkhipova, Irina R.; Yushenova, Irina A.; Rodriguez, Fernando 2017 2017-05-30 None N PMC5850863 28575409.0 10.1093/molbev/msx159 tkdh740c 0.554460 Lamb_1991, Hyde_2015, Gorbalenya_1988, Morikawa_1992, Liu_Y_2009 Adams_2003
295 Lin_Y_2016 Rational design of a synthetic mammalian riboswitch as a ligand-responsive -1 ribosomal frame-shifting stimulator Lin, Ya-Hui; Chang, Kung-Yao 2016 2016-10-14 NONCOMM N PMC5062990 27521370.0 10.1093/nar/gkw718 1pou702r 0.551962 Stork_2011, Rice_1992, Trobaugh_2017, Morikawa_1992, Yasuda-Inoue_2013 Su_M_2005, Sasvari_2011
296 Bencun_2018 Translational profiling of B cells infected with the Epstein-Barr virus reveals 5′ leader ribosome recruitment through upstream open reading frames Bencun, Maja; Klinke, Olaf; Hotz-Wagenblatt, Agnes; Klaus, Severina; Tsai, Ming-Han; Poirey, Remy; Delecluse, Henri-Jacques 2018 2018-04-06 None N PMC5887285 29529302.0 10.1093/nar/gky129 ec1uq448 0.551355 Lamb_1991, Ivanova_2015, Yasuda-Inoue_2013, Rice_1992 Tzeng_2006, Baric_1985, Nowak_1984
297 Mendes_2018 Alphavirus Nucleocapsid Packaging and Assembly Mendes, Adriano; Kuhn, Richard J. 2018 2018-03-20 COMM-USE N PMC5869531 29558394.0 10.3390/v10030138 5h8mtupm 0.551235 den_Boon_2010, Volmer_2010, Trobaugh_2017, Denison_2008 Wulan_2015, Sun_D_2016
298 Sawicki_1986 The effect of loss of regulation of minus-strand RNA synthesis on sindbis virus replication Sawicki, Stanley G.; Sawicki, Dorothea L. 1986 1986-06-30 PMC N PMC7131060 3705466.0 10.1016/0042-6822(86)90054-1 u8otoxn4 0.551159 Stork_2011, den_Boon_2010, Banerjee_2001, Rice_1992 Sasvari_2011
299 Stahl_2002 Ribosome structure: revisiting the connection between translational accuracy and unconventional decoding Stahl, Guillaume; McCarty, Gregory P; Farabaugh, Philip J 2002 2002-04-01 PMC N PMC7126812 11943544.0 10.1016/s0968-0004(02)02064-9 rw2byz31 0.551008 Morikawa_1992, Hatfield_1990, Cattaneo_1989, Brierley_1989 Namy_2006, Wan_J_2018
300 Wojciechowska_2014 RAN translation and frameshifting as translational challenges at simple repeats of human neurodegenerative disorders Wojciechowska, Marzena; Olejniczak, Marta; Galka-Marciniak, Paulina; Jazurek, Magdalena; Krzyzosiak, Wlodzimierz J. 2014 2014-10-29 None N PMC4231732 25217582.0 10.1093/nar/gku794 utigp2vi 0.550852 Lamb_1991, Morikawa_1992, Farabaugh_1993, Hyde_2015 Schein_2018, Toh_Z_2016
301 Ivanyi-Nagy_2012 Reprint of: Core protein-mediated 5′–3′ annealing of the West Nile virus genomic RNA in vitro Ivanyi-Nagy, Roland; Darlix, Jean-Luc 2012 2012-11-30 PMC N 10.1016/j.virusres.2012.09.009 dv6aak01 0.550737 Stork_2011, Pong_2011, Rice_1992, Yasuda-Inoue_2013, Meyerson_2017
302 Chen_2010 Group-specific structural features of the 5′-proximal sequences of coronavirus genomic RNAs Chen, Shih-Cheng; Olsthoorn, René C.L. 2010 2010-05-25 PMC N PMC7111916 20202661.0 10.1016/j.virol.2010.02.007 obes9kjl 0.550599 Gorbalenya_1988, Morikawa_1992, Luytjes_1988, Firth_2009, Hyde_2015
303 Kelly_2020 Structural and functional conservation of the programmed -1 ribosomal frameshift signal of SARS-CoV-2 Jamie A. Kelly; Jonathan D. Dinman 2020 2020-03-15 BioRxiv Y 10.1101/2020.03.13.991083 62izhj8d 0.549410 Morikawa_1992, Naito_2007, Trobaugh_2017, Volmer_2010, Haasnoot_2010 Niemeyer_2018, Yuan_2004, Pinto_2020, Ng_O_2014
304 Pattnaik_1995 The termini of VSV DI particle RNAs are sufficient to signal RNA encapsidation, replication, and budding to generate infectious particles Pattnaik, Asit K.; Ball, L. Andrew; Legrone, Alison; Wertz, Gail W. 1995 1995-01-10 PMC N 7831839.0 10.1016/s0042-6822(95)80005-0 rbwag5qi 0.548360 Rice_1992, Banerjee_2001, Stork_2011, Payne_2017, Armesto_2007 Tzeng_2006, Bhullar_2014
305 Carlson_2008 RIBOSOMAL FRAMESHIFTING IN RESPONSE TO HYPOMODIFIED tRNAs IN XENOPUS OOCYTES Carlson, Bradley A.; Lee, Byeong Jae; Hatfield, Dolph L. 2008 2008-10-01 PMC N PMC2674873 18675785.0 10.1016/j.bbrc.2008.07.118 qn2frbwo 0.547997 Morikawa_1992, Farabaugh_1993, Huang_2018, Jacks_1988, Powell_2011 Marczinke_2000, Belcourt_1990
306 Dedepsidis_2010 Correlation between recombination junctions and RNA secondary structure elements in poliovirus Sabin strains Dedepsidis, Evaggelos; Kyriakopoulou, Zaharoula; Pliaka, Vaia; Markoulatos, Panayotis 2010 2010-07-17 PMC N PMC7089419 20640496.0 10.1007/s11262-010-0512-5 5hm0jr7u 0.547682 Callison_1999, Volmer_2010, Auewarakul_2005, Chang_2011, Rice_1992
307 Kirkegaard_1992 Genetic analysis of picornaviruses Kirkegaard, Karla 1992 1992-02-29 PMC N 1321679.0 10.1016/s0959-437x(05)80324-7 y97iyrwj 0.546357 Stork_2011, Rice_1992, den_Boon_2010, Yasuda-Inoue_2013, Payne_2017
308 Korniy_2019 Modulation of HIV-1 Gag/Gag-Pol frameshifting by tRNA abundance Korniy, Natalia; Goyal, Akanksha; Hoffmann, Markus; Samatova, Ekaterina; Peske, Frank; Pöhlmann, Stefan; Rodnina, Marina V 2019 2019-06-04 NONCOMM N PMC6547452 30968122.0 10.1093/nar/gkz202 onybus5o 0.544124 Morikawa_1992, Lamb_1991, Stork_2011, Jacks_1988, Meyerson_2017 van_Weringh_2011, Jacks_1988, Moosmayer_1991
309 Schreiber_1989 Sequence analysis of the nucleocapsid protein gene of human coronavirus 229E Schreiber, Steven S.; Kamahora, Toshio; Lai, Michael M.C. 1989 1989-03-31 PMC N PMC7131124 2922924.0 10.1016/0042-6822(89)90050-0 btfz6ye8 0.544023 Luytjes_1988, Morikawa_1992, Firth_2009, Gorbalenya_1988, Rice_1992 Jouvenne_1990, Jouvenne_1992, Lapps_1987
310 Li_Y_2019 Programmed −2/−1 Ribosomal Frameshifting in Simarteriviruses: an Evolutionarily Conserved Mechanism Li, Yanhua; Firth, Andrew E.; Brierley, Ian; Cai, Yingyun; Napthine, Sawsan; Wang, Tao; Yan, Xingyu; Kuhn, Jens H.; Fang, Ying 2019 2019-07-30 COMM-USE N PMC6675879 31167906.0 10.1128/jvi.00370-19 or5nbobd 0.542866 Rice_1992, Yasuda-Inoue_2013, Volmer_2010, Ryu_W_2017, Trobaugh_2017
311 Visscher_2016 Chapter Two −1 Programmed Ribosomal Frameshifting as a Force-Dependent Process Visscher, Koen 2016 2016-12-31 PMC N PMC7102820 26970190.0 10.1016/bs.pmbts.2015.11.003 cwuls6xs 0.542490 Morikawa_1992, Lamb_1991, Cao_S_2008, Huang_2018 Caliskan_2015, Bock_2019
312 Enjuanes_2008 Nidovirales Enjuanes, L.; Gorbalenya, A.E.; de Groot, R.J.; Cowley, J.A.; Ziebuhr, J.; Snijder, E.J. 2008 2008-12-31 PMC N PMC7150171 10.1016/b978-012374410-4.00775-5 v3yqs4u8 0.541042 Rice_1992, Stork_2011, den_Boon_2010, Payne_2017, Yasuda-Inoue_2013 Wulan_2015
313 Grötzinger_1996 Characterization of a 105-kDa Polypeptide Encoded in Gene 1 of the Human Coronavirus HCV 229E Grötzinger, Carsten; Heusipp, Gerhard; Ziebuhr, John; Harms, Ute; Süss, Jochen; Siddell, Stuart G. 1996 1996-08-01 PMC N PMC7130665 8806502.0 10.1006/viro.1996.0413 qfmzrexc 0.540346 Pong_2011, Stork_2011, Rice_1992, Lamb_1991 O'Connor_1999
314 Posthuma_2017 Nidovirus RNA polymerases: Complex enzymes handling exceptional RNA genomes Posthuma, Clara C.; te Velthuis, Aartjan J.W.; Snijder, Eric J. 2017 2017-04-15 PMC N PMC7114556 28174054.0 10.1016/j.virusres.2017.01.023 g4sg2nex 0.540240 Rice_1992, Stork_2011, Yasuda-Inoue_2013, den_Boon_2010, Pong_2011 Xia_H_2015, Mielech_2014
315 Stewart_2018 Transcriptional and Translational Landscape of Equine Torovirus Stewart, Hazel; Brown, Katherine; Dinan, Adam M.; Irigoyen, Nerea; Snijder, Eric J.; Firth, Andrew E. 2018 2018-08-16 COMM-USE N PMC6096809 29950409.0 10.1128/jvi.00589-18 jlnv90vn 0.540184 Rice_1992, Lamb_1991, Auewarakul_2005, Payne_2017, Trobaugh_2017 Stewart_2018, Valle-Casuso_2020
316 Gao_F_2012 Cis-acting structural element in 5′ UTR is essential for infectivity of porcine reproductive and respiratory syndrome virus Gao, Fei; Lu, Jiaqi; Yao, Huochun; Wei, Zuzhang; Yang, Qian; Yuan, Shishan 2012 2012-01-31 PMC N PMC7114472 21924304.0 10.1016/j.virusres.2011.08.018 7ad7ievj 0.538840 Rice_1992, Stork_2011, Morikawa_1992, Armesto_2007, Banerjee_2001 Tzeng_2006, Masante_2015
317 Neill_1988 Further characterization of the virus-specific RNAs in feline calicivirus infected cells Neill, John D.; Mengeling, William L. 1988 1988-08-31 PMC N 3176687.0 10.1016/0168-1702(88)90067-6 s8hdoq4a 0.537869 Banerjee_2001, Mizutani_2000, Brown_1984, An_S_1998
318 Wijngaert_2020 Cryo-EM structures reveal transcription initiation steps by yeast mitochondrial RNA polymerase Brent De Wijngaert; Shemaila Sultana; Chhaya Dharia; Hans Vanbuel; Jiayu Shen; Daniel vasilchuk; Sergio E Martinez; Eaazhisai Kandiah; Smita S Patel; Kalyan Das 2020 2020-04-14 BioRxiv N 10.1101/2020.04.13.038620 ex3zlq38 0.537463 Stork_2011, Ivanova_2015, Blank_2017, Herold_2001, Pong_2011 Bhullar_2014
319 Lauber_2013 The Footprint of Genome Architecture in the Largest Genome Expansion in RNA Viruses Lauber, Chris; Goeman, Jelle J.; Parquet, Maria del Carmen; Thi Nga, Phan; Snijder, Eric J.; Morita, Kouichi; Gorbalenya, Alexander E. 2013 2013-07-18 COMM-USE N PMC3715407 23874204.0 10.1371/journal.ppat.1003500 3g3apbon 0.535294 Auewarakul_2005, Lamb_1991, Firth_2009, Rice_1992, Morikawa_1992
320 Khan_2019 Contesting the evidence for -1 frameshifting in immune-functioning C-C chemokine receptor 5 (CCR5) - the HIV-1 co-receptor Yousuf A Khan; Gary Loughran; John F. Atkins 2019 2019-01-08 BioRxiv N 10.1101/513333 yvha7wzz 0.535236 Morikawa_1992, Lamb_1991, Hatfield_1990, Jacks_1988, Ivanova_2015 Brunelle_1999, Powell_2011
321 Türkel_2011 Glucose signalling pathway controls the programmed ribosomal frameshift efficiency in retroviral‐like element Ty3 in Saccharomyces cerevisiae Türkel, Sezai; Kaplan, Güliz; Farabaugh, Philip J. 2011 2011-10-12 PMC N PMC7169698 21989811.0 10.1002/yea.1906 il66v434 0.534800 Blank_2017, Morikawa_1992, Yasuda-Inoue_2013, Wang_2007, Ivanova_2015
322 Dost_2006 Structural Alignment of Pseudoknotted RNA Dost, Banu; Han, Buhm; Zhang, Shaojie; Bafna, Vineet 2006 2006-01-01 PMC N PMC7121381 10.1007/11732990_13 a5htfx76 0.534759 Chang_2011, Lee_C_2017, Qi_Z_2018, Deng_2015
323 Leppek_2017 Functional 5′ UTR mRNA structures in eukaryotic translation regulation and how to find them Leppek, Kathrin; Das, Rhiju; Barna, Maria 2017 2017-11-22 PMC N PMC5820134 29165424.0 10.1038/nrm.2017.103 38ba3jk2 0.534759 Trobaugh_2017, Lamb_1991, Martínez-Salas_2008, Ivanova_2015 Byszewska_2015, Sarnowska_2007, Sasvari_2011
324 Hu_H_2016 A general strategy to inhibiting viral −1 frameshifting based on upstream attenuation duplex formation Hu, Hao-Teng; Cho, Che-Pei; Lin, Ya-Hui; Chang, Kung-Yao 2016 2016-01-08 None N PMC4705660 26612863.0 10.1093/nar/gkv1307 1u10lpx2 0.533725 Morikawa_1992, Rice_1992, Trobaugh_2017, Stork_2011, Lamb_1991 Su_M_2005, Fajardo_2012
325 Le_S_1992 Conserved tertiary structure elements in the 5′ untranslated region of human enteroviruses and rhinoviruses Le, Shu-Yun; Chen, Jih-H.; Sonenberg, Nahum; Maizel, Jacob V. 1992 1992-12-31 PMC N PMC7131026 1333125.0 10.1016/0042-6822(92)90261-m diwm1940 0.533281 Morikawa_1992, Krause_1987, Firth_2009, Luytjes_1988, Gorbalenya_1988
326 Zoltick_1989 A general method for the induction and screening of antisera for cDNA-encoded polypeptides: antibodies specific for a coronavirus putative polymerase-encoding gene Zoltick, Philip W.; Leibowitz, Julian L.; DeVries, James R.; Weinstock, George M.; Weiss, Susan R. 1989 1989-12-28 PMC N PMC7127337 2560756.0 10.1016/0378-1119(89)90434-4 bago6g6k 0.533268 Armesto_2007, Rice_1992, Bickerton_2017, Keep_2014, Keep_2015 Nowak_1984, Zhang_2010
327 Fütterer_1996 Translation in plants-rules and exceptions Fütterer, Johannes; Hohn, Thomas 1996 1996-01-01 PMC N PMC7089402 8980479.0 10.1007/bf00039382 urmhw450 0.530825 Lamb_1991, Landry_2009, Ivanova_2015, Trobaugh_2017, Herbert_2016 de_Breyne_2018, Sasvari_2011
328 Goldberg_1991 Structure of the glycoprotein gene of sonchus yellow net virus, a plant rhabdovirus Goldberg, Karen-Beth; Modrell, Brett; Hillman, Bradley I.; Heaton, Louis A.; Choi, Tae-Jin; Jackson, A.O. 1991 1991-11-30 PMC N PMC7130609 1926779.0 10.1016/0042-6822(91)90750-6 x2w73spd 0.530374 Luytjes_1988, Morikawa_1992, Firth_2009, Wurch_1991 Tzeng_2006, Godeny_1990
329 Oberbeckmann_2020 Ruler elements in chromatin remodelers set nucleosome array spacing and phasing Elisa Oberbeckmann; Vanessa Niebauer; Shinya Watanabe; Lucas Farnung; Manuela Moldt; Andrea Schmid; Patrick Cramer; Craig L. Peterson; Sebastian Eustermann; Karl-Peter Hopfner; Philipp Korber 2020 2020-02-29 BioRxiv N 10.1101/2020.02.28.969618 5hkd80eh 0.529985 Sundaramoorthy_2018, Blank_2017, Dubois_2016, UNKNOWN_1992 Sundaramoorthy_2018, Jia_Z_2020, Sarnowska_2007
330 Miras_2017 Non-canonical Translation in Plant RNA Viruses Miras, Manuel; Miller, W. Allen; Truniger, Verónica; Aranda, Miguel A. 2017 2017-04-06 COMM-USE N PMC5382211 28428795.0 10.3389/fpls.2017.00494 2t09zqqi 0.529903 Lamb_1991, Trobaugh_2017, Rice_1992, Herbert_2016, Stork_2011 Firth_2012, Sasvari_2011
331 Modrow_2013 Viruses with Single-Stranded, Positive-Sense RNA Genomes Modrow, Susanne; Falke, Dietrich; Truyen, Uwe; Schätzl, Hermann 2013 2013-08-12 PMC N PMC7169642 10.1007/978-3-642-20718-1_14 gqvwiy5h 0.529408 Rice_1992, Ryu_W_2017, den_Boon_2010, Stork_2011
332 Cheung_2013 A divergent clade of circular single-stranded DNA viruses from pig feces Cheung, Andrew K.; Ng, Terry F.; Lager, Kelly M.; Bayles, Darrell O.; Alt, David P.; Delwart, Eric L.; Pogranichniy, Roman M.; Kehrli, Marcus E. 2013 2013-04-24 PMC N PMC4175981 23612924.0 10.1007/s00705-013-1701-z tu6g977q 0.529407 Rice_1992, den_Boon_2010, Payne_2017, Ryu_W_2017, Auewarakul_2005 Ren_X_2008, Lima_2015
333 Ketteler_2012 On programmed ribosomal frameshifting: the alternative proteomes Ketteler, Robin 2012 2012-11-19 COMM-USE N PMC3500957 23181069.0 10.3389/fgene.2012.00242 4wfhuvww 0.529404 Lamb_1991, Morikawa_1992, Plant_2013, Price_2019 Caliskan_2015, Cobucci-Ponzano_2006, Brierley_2009
334 Jani_2012 In vitro Transcription and Capping of Gaussia Luciferase mRNA Followed by HeLa Cell Transfection Jani, Bhairavi; Fuchs, Ryan 2012 2012-03-26 PMC N PMC3460589 22473375.0 10.3791/3702 1m8uazo3 0.528780 Stork_2011, Chen_2013, Banerjee_2001, Lin_X_2015, Mizutani_2000 Baker_1990, Adams_2003
335 Horie_2016 An RNA-dependent RNA polymerase gene in bat genomes derived from an ancient negative-strand RNA virus Horie, Masayuki; Kobayashi, Yuki; Honda, Tomoyuki; Fujino, Kan; Akasaka, Takumi; Kohl, Claudia; Wibbelt, Gudrun; Mühldorfer, Kristin; Kurth, Andreas; Müller, Marcel A.; Corman, Victor M.; Gillich, Nadine; Suzuki, Yoshiyuki; Schwemmle, Martin; Tomonaga, Keizo 2016 2016-05-13 COMM-USE N PMC4865735 27174689.0 10.1038/srep25873 m44fic4g 0.528746 Rice_1992, Firth_2009, Lamb_1991, Auewarakul_2005, Gorbalenya_1988 Tzeng_2006
336 Irigoyen_2018 Ribosome profiling of the retrovirus murine leukemia virus Irigoyen, Nerea; Dinan, Adam M.; Brierley, Ian; Firth, Andrew E. 2018 2018-01-22 COMM-USE N PMC5778647 29357872.0 10.1186/s12977-018-0394-5 41h90h05 0.528313 Lamb_1991, Morikawa_1992, Firth_2009, Vennema_1991, Hatfield_1990 Nowak_1984, Tzeng_2006
337 Satyanarayana_2003 Frameshift mutations in infectious cDNA clones of Citrus tristeza virus: a strategy to minimize the toxicity of viral sequences to Escherichia coli Satyanarayana, Tatineni; Gowda, Siddarame; Ayllón, María A; Dawson, William O 2003 2003-09-01 PMC N PMC7125997 12954215.0 10.1016/s0042-6822(03)00387-8 ndjbrtrv 0.527672 Rice_1992, Armesto_2007, Lamb_1991, Bickerton_2017, Keep_2015 Tzeng_2006, Nowak_1984
338 Knorr_1991 De novo generation of defective interfering RNAs of tomato bushy stunt virus by high multiplicity passage Knorr, D.A.; Mullin, R.H.; Hearne, P.Q.; Morris, T.J. 1991 1991-03-31 PMC N PMC7131041 1994574.0 10.1016/0042-6822(91)90484-s xo4mbxei 0.526357 Rice_1992, Banerjee_2001, Auewarakul_2005, Payne_2017, Stork_2011 Tzeng_2006, Derdeyn_1995
339 May_J_2020 The Multifunctional Long-Distance Movement Protein of Pea Enation Mosaic Virus 2 Protects Viral and Host Transcripts from Nonsense-Mediated Decay May, Jared P.; Johnson, Philip Z.; Ilyas, Muhammad; Gao, Feng; Simon, Anne E. 2020 2020-03-10 COMM-USE N PMC7064760 32156817.0 10.1128/mbio.00204-20 ayfus6az 0.525598 Rice_1992, Stork_2011, Yasuda-Inoue_2013, Herbert_2016, Lamb_1991 Bhullar_2014
340 Sivanandam_2016 Functional analysis of the N-terminal basic motif of a eukaryotic satellite RNA virus capsid protein in replication and packaging Sivanandam, Venkatesh; Mathews, Deborah; Garmann, Rees; Erdemci-Tandogan, Gonca; Zandi, Roya; Rao, A. L. N. 2016 2016-05-19 COMM-USE N PMC4872054 27193742.0 10.1038/srep26328 jvr1t6t2 0.525598 Stork_2011, Pong_2011, Kang_2009, Rice_1992, Gorbalenya_1988 Bhullar_2014, YU_W_1995
341 Kolondam_2015 Co-infection with two strains of Brome mosaic bromovirus reveals common RNA recombination sites in different hosts Kolondam, Beivy; Rao, Parth; Sztuba-Solinska, Joanna; Weber, Philipp H.; Dzianott, Aleksandra; Johns, Mitrick A.; Bujarski, Jozef J. 2015 2015-12-23 NONCOMM N PMC5014487 27774290.0 10.1093/ve/vev021 b0pa47x2 0.524836 Rice_1992, Auewarakul_2005, Li_Z_2009, Payne_2017, Okamoto_2008 Tzeng_2006, Wu_H_2004
342 Taufer_2008 RNAVLab: A virtual laboratory for studying RNA secondary structures based on grid computing technology Taufer, Michela; Leung, Ming-Ying; Solorio, Thamar; Licon, Abel; Mireles, David; Araiza, Roberto; Johnson, Kyle L. 2008 2008-11-30 PMC N 10.1016/j.parco.2008.08.002 wouunr5s 0.523045 Wu_B_2009, Martínez-Salas_2008, Wang_2018, Liu_Z_2008, Chang_2011
343 Liu_Z_2016 Viral RNA switch mediates the dynamic control of flavivirus replicase recruitment by genome cyclization Liu, Zhong-Yu; Li, Xiao-Feng; Jiang, Tao; Deng, Yong-Qiang; Ye, Qing; Zhao, Hui; Yu, Jiu-Yang; Qin, Cheng-Feng 2016 2016-10-01 COMM-USE N PMC5101012 27692070.0 10.7554/elife.17636 gzxtjf0a 0.522637 Rice_1992, Stork_2011, Pong_2011, den_Boon_2010, Ryu_W_2017 Masante_2015, Bhullar_2014, Yasuda-Inoue_2013
344 Poole_2000 Methyl-RNA: an evolutionary bridge between RNA and DNA? Poole, Anthony; Penny, David; Sjöberg, Britt-Marie 2000 2000-12-31 PMC N 11137821.0 10.1016/s1074-5521(00)00042-9 pvt0amth 0.522579 Stork_2011, Payne_2017, den_Boon_2010, Rice_1992, Lin_X_2015
345 Kozak_1994 Determinants of translational fidelity and efficiency in vertebrate mRNAs Kozak, M. 1994 1994-12-31 PMC N 7880897.0 10.1016/0300-9084(94)90182-1 y1vr1db0 0.522316 Valle_1988, Shulla_2016, Martínez-Salas_2008, Rodnina_2020 Valle_1988, Oh_S_1993, Whitelaw_2004, Trifonov_1992
346 Selisko_2018 Structural and Functional Basis of the Fidelity of Nucleotide Selection by Flavivirus RNA-Dependent RNA Polymerases Selisko, Barbara; Papageorgiou, Nicolas; Ferron, François; Canard, Bruno 2018 2018-01-30 COMM-USE N PMC5850366 29385764.0 10.3390/v10020059 e993uavn 0.521892 Stork_2011, Rice_1992, den_Boon_2010, Payne_2017, Gorbalenya_1988 Zhou_2011, Masante_2015
347 Yang_2015 The structure and functions of coronavirus genomic 3′ and 5′ ends Yang, Dong; Leibowitz, Julian L. 2015 2015-08-03 None N PMC4476908 25736566.0 10.1016/j.virusres.2015.02.025 ihinqmig 0.521235 Rice_1992, den_Boon_2010, Trobaugh_2017, Payne_2017, Yasuda-Inoue_2013 Gao_F_2012
348 Wang_2014 Switch from Cap- to Factorless IRES-Dependent 0 and +1 Frame Translation during Cellular Stress and Dicistrovirus Infection Wang, Qing S.; Jan, Eric 2014 2014-08-04 COMM-USE N PMC4121135 25089704.0 10.1371/journal.pone.0103601 0if5z3xp 0.519827 Landry_2009, Lamb_1991, Gendron_2010, Ivanova_2015 Sasvari_2011, Landry_2009, Powell_2011
349 Nicholson_2014 Functional long-range RNA–RNA interactions in positive-strand RNA viruses Nicholson, Beth L.; White, K. Andrew 2014 2014-06-16 PMC N PMC7097572 24931042.0 10.1038/nrmicro3288 3jijeemg 0.519231 Rice_1992, den_Boon_2010, Payne_2017, Stork_2011 Bhullar_2014, Wu_B_2009, Diaz_2012, YU_W_1995
350 Payne_2017 Chapter 10 Introduction to RNA Viruses Payne, Susan 2017 2017-12-31 PMC N 10.1016/b978-0-12-803109-4.00010-6 jxhtdhgg 0.518059 Rice_1992, Stork_2011, den_Boon_2010, Banerjee_2001
351 Chang_2012 Revealing −1 Programmed Ribosomal Frameshifting Mechanisms by Single-Molecule Techniques and Computational Methods Chang, Kai-Chun 2012 2012-04-01 COMM-USE N PMC3321566 22545064.0 10.1155/2012/569870 ne7rvqex 0.517116 den_Boon_2010, Martínez-Salas_2008, Wu_B_2009, Stork_2011, Zúñiga_2009 Zhong_2016, Marcheschi_2007
352 Reynolds_2015 Melting of duplex DNA in the absence of ATP by NS3 helicase domain through specific interaction with a single-strand/double-strand junction Reynolds, Kimberly A.; Cameron, Craig E.; Raney, Kevin D. 2015 2015-07-02 PMC N PMC5111830 26091150.0 10.1021/acs.biochem.5b00214 kv3otavl 0.514614 Stork_2011, Pong_2011, Lee_N_2010, Gorbalenya_1988 Vasquez-Del_Carpio_2006
353 Gopinath_2015 Evidence for N(7) guanine methyl transferase activity encoded within the modular domain of RNA-dependent RNA polymerase L of a Morbillivirus Gopinath, M.; Shaila, M. S. 2015 2015-10-07 PMC N PMC7088885 26446666.0 10.1007/s11262-015-1252-3 bww62vx8 0.514289 Stork_2011, Yasuda-Inoue_2013, Meyerson_2017, Pong_2011 Okamoto_2008
354 Flanagan_2010 Direct Observation of Distinct A/P Hybrid-State tRNAs in Translocating Ribosomes Flanagan, John F.; Namy, Olivier; Brierley, Ian; Gilbert, Robert J.C. 2010 2010-02-10 None N PMC4340587 20159470.0 10.1016/j.str.2009.12.007 bddiy1ea 0.512293 Blank_2017, Dubois_2016, Ivanova_2015, Krause_1987, Gorbalenya_1988 Scrima_2004
355 Saberi_2018 A planarian nidovirus expands the limits of RNA genome size Saberi, Amir; Gulyaeva, Anastasia A.; Brubacher, John L.; Newmark, Phillip A.; Gorbalenya, Alexander E. 2018 2018-11-01 None N PMC6211748 30383829.0 10.1371/journal.ppat.1007314 pxf8piqm 0.512119 Rice_1992, den_Boon_2010, Lamb_1991, Payne_2017, Auewarakul_2005 Saberi_2018, Wulan_2015, Enjuanes_2008, Ogando_2019
356 Bautista_2002 Functional Properties of the Predicted Helicase of Porcine Reproductive and Respiratory Syndrome Virus Bautista, Elida M.; Faaberg, Kay S.; Mickelson, Dan; McGruder, Edward D. 2002 2002-07-05 PMC N 12127789.0 10.1006/viro.2002.1495 g4rohhtt 0.511246 Yasuda-Inoue_2013, Rice_1992, Pong_2011, Stork_2011, Gorbalenya_1988
357 Banner_1990 A clustering of rna recombination sites adjacent to a hypervariable region of the peplomer gene of murine coronavirus Banner, Lisa R.; Keck, James G.; Lai, Michael M.C. 1990 1990-04-30 PMC N PMC7130556 2158184.0 10.1016/0042-6822(90)90439-x tqeo15ar 0.510787 Morikawa_1992, Auewarakul_2005, Volmer_2010, Rice_1992 Nowak_1984
358 Freistadt_2007 Conserved aspartic acid 233 and alanine 231 are not required for poliovirus polymerase function in replicons Freistadt, Marion S; Eberle, Karen E 2007 2007-03-12 COMM-USE N PMC1839082 17352827.0 10.1186/1743-422x-4-28 y6mp3rk9 0.509773 Gorbalenya_1988, Stork_2011, Yasuda-Inoue_2013, Kang_2009 Gopinath_2015, Someya_2008, Xia_H_2015
359 Hiscox_1995 Quantification of individual subgenomic mRNA species during replication of the coronavirus transmissible gastroenteritis virus Hiscox, Julian A.; Cavanagh, David; Britton, Paul 1995 1995-05-31 PMC N PMC7134076 7653093.0 10.1016/0168-1702(94)00108-o wi2hhsmh 0.509112 Wang_2007, Auewarakul_2005, Banerjee_2001, Krause_1987, An_S_1998 DEN_BOON_1995, Tzeng_2006
360 Fajardo_2012 Exploring IRES Region Accessibility by Interference of Foot-and-Mouth Disease Virus Infectivity Fajardo, Teodoro; Rosas, Maria Flora; Sobrino, Francisco; Martinez-Salas, Encarnacion 2012 2012-07-18 COMM-USE N PMC3399821 22815996.0 10.1371/journal.pone.0041382 ywkxxye5 0.509000 Stork_2011, Rice_1992, Lamb_1991, Ivanova_2015, Yasuda-Inoue_2013 Tzeng_2006, Bhullar_2014, Masante_2015
361 Firth_2012 Non-canonical translation in RNA viruses Firth, Andrew E.; Brierley, Ian 2012 2012-07-23 COMM-USE N PMC3542737 22535777.0 10.1099/vir.0.042499-0 o5jo69um 0.508958 Lamb_1991, Rice_1992, Trobaugh_2017, den_Boon_2010, Stork_2011 Bhullar_2014
362 Hyde_2015 The 5′ and 3′ ends of alphavirus RNAs – Non-coding is not non-functional Hyde, Jennifer L.; Chen, Rubing; Trobaugh, Derek W.; Diamond, Michael S.; Weaver, Scott C.; Klimstra, William B.; Wilusz, Jeffrey 2015 2015-08-03 None N PMC4654126 25630058.0 10.1016/j.virusres.2015.01.016 1oqxmzze 0.508524 Lamb_1991, Rice_1992, Trobaugh_2017, Yasuda-Inoue_2013 Gao_F_2012
363 UNKNOWN_2012 Family Coronaviridae None 2012 2012-12-31 None N PMC7149967 10.1016/b978-0-12-384684-6.00068-9 yilv9z2m 0.508257 Ryu_W_2017, Modrow_2013, den_Boon_2010, Payne_2017, Gorbalenya_1988 Sun_D_2016, Mielech_2014, Niemeyer_2018
364 Kapke_1986 Sequence analysis of the porcine transmissible gastroenteritis coronavirus nucleocapsid protein gene Kapke, Paul A.; Brian, David A. 1986 1986-05-31 PMC N PMC7131278 3008432.0 10.1016/0042-6822(86)90102-9 y3hgnb6u 0.508007 Luytjes_1988, Morikawa_1992, Firth_2009, Armesto_2007, Toshio_1989 Lapps_1987, O'Connor_1999, Goldberg_1991, Ren_X_2008
365 Plagemann_1992 Lactate Dehydrogenase-Elevating Virus, Equine Arteritis Virus, and Simian Hemorrhagic Fever Virus: A New Group of Positive-Strand RNA Viruses Plagemann, Peter G.W.; Moennig, Volker 1992 1992-12-31 PMC N 1315480.0 10.1016/s0065-3527(08)60036-6 t6f3jiri 0.507239 Ryu_W_2017, Rice_1992, Lu_P_2016, den_Boon_2010, Tallmadge_2008 Valle-Casuso_2020
366 Perlman_1986 MHV nucleocapsid synthesis in the presence of cycloheximide and accumulation of negative strand MHV RNA Perlman, Stanley; Ries, Dana; Bolger, Eric; Lung-Ji, Chang; Stoltzfus, C.Martin 1986 1986-12-31 PMC N PMC7133998 3033933.0 10.1016/0168-1702(86)90074-2 fhvstenq 0.506689 Stork_2011, Banerjee_2001, Masante_2015, Masaki_2015, Liu_H_2009 Wulan_2015
367 Xu_J_2016 Genome Organization of the SARS-CoV Xu, Jing; Hu, Jianfei; Wang, Jing; Han, Yujun; Hu, Yongwu; Wen, Jie; Li, Yan; Ji, Jia; Ye, Jia; Zhang, Zizhang; Wei, Wei; Li, Songgang; Wang, Jun; Wang, Jian; Yu, Jun; Yang, Huanming 2016 2016-11-28 None N PMC5172239 15629035.0 10.1016/s1672-0229(03)01028-3 i738t9lf 0.505624 Morikawa_1992, Lamb_1991, Luytjes_1988, Firth_2009 Wang_2009, Kumar_2007
368 Samuel_1989 Polycistronic Animal Virus mRNAs Samuel, Charles E. 1989 1989-12-31 PMC N 2505328.0 10.1016/s0079-6603(08)60697-2 65hqvwg9 0.504841 Lamb_1991, Rice_1992, Payne_2017, den_Boon_2010, Auewarakul_2005 Tzeng_2006, Wulan_2015
369 Nowak_1984 Physical mapping of human cytomegalovirus genes: Identification of DNA sequences coding for a virion phosphoprotein of 71 kDa and a viral 65-kDa polypeptide Nowak, Barbara; Gmeiner, Agnes; Sarnow, Peter; Levine, Arnold J.; Fleckenstein, Bernhard 1984 1984-04-15 PMC N PMC7131772 6324477.0 10.1016/0042-6822(84)90275-7 ov92qh6h 0.504526 Stork_2011, Rice_1992, Armesto_2007, Keep_2014
370 Woodman_2016 Biochemical and genetic analysis of the role of the viral polymerase in enterovirus recombination Woodman, Andrew; Arnold, Jamie J.; Cameron, Craig E.; Evans, David J. 2016 2016-08-19 COMM-USE N PMC5001610 27317698.0 10.1093/nar/gkw567 6o70ybpf 0.504185 Rice_1992, Stork_2011, den_Boon_2010, Masante_2015 Nowak_1984, Adams_2003
371 Widjaja_2012 Competition between Influenza A Virus Genome Segments Widjaja, Ivy; de Vries, Erik; Rottier, Peter J. M.; de Haan, Cornelis A. M. 2012 2012-10-11 COMM-USE N PMC3469491 23071819.0 10.1371/journal.pone.0047529 pzbhq26m 0.503255 Gendron_2010, Rice_1992, Brake_2008, Vennema_1991 Tzeng_2006, Masante_2015
372 Trifonov_1992 Recognition of correct reading frame by the ribosome Trifonov, E.N. 1992 1992-04-30 PMC N PMC7131330 1637861.0 10.1016/0300-9084(92)90113-s j3q4k5ol 0.501661 Valle_1988, Trobaugh_2017, Kozak_1994, Martínez-Salas_2008 Oh_S_1993, Powell_2011, Caliskan_2014
373 Edgil_2006 End-to-end communication in the modulation of translation by mammalian RNA viruses Edgil, Dianna; Harris, Eva 2006 2006-07-31 PMC N 16307817.0 10.1016/j.virusres.2005.10.012 nwm6hmvv 0.500973 Rice_1992, Trobaugh_2017, Stork_2011, Yasuda-Inoue_2013, Ivanova_2015
374 Sztuba-Solińska_2011 Subgenomic messenger RNAs: Mastering regulation of (+)-strand RNA virus life cycle Sztuba-Solińska, Joanna; Stollar, Victor; Bujarski, Jozef J. 2011 2011-04-10 PMC N PMC7111999 21377709.0 10.1016/j.virol.2011.02.007 g410mavp 0.500672 Stork_2011, Yasuda-Inoue_2013, Rice_1992, Trobaugh_2017, den_Boon_2010 Bhullar_2014, Adams_2003
375 Wilson_1988 Crossover regions in foot-and-mouth disease virus (FMDV) recombinants correspond to regions of high local secondary structure Wilson, Valerie; Taylor, P.; Desselberger, U. 1988 1988-01-01 PMC N PMC7086634 2848475.0 10.1007/bf01315570 bcmli6gj 0.500656 Choudhury_2011, Largo_2016, David_2013, Abou-Hamdan_2018, Luytjes_1988 Brun_2014, Ren_X_2008
376 Liu_X_2015 Nucleobase but not Sugar Fidelity is Maintained in the Sabin I RNA-Dependent RNA Polymerase Liu, Xinran; Musser, Derek M.; Lee, Cheri A.; Yang, Xiaorong; Arnold, Jamie J.; Cameron, Craig E.; Boehr, David D. 2015 2015-10-26 COMM-USE N PMC4632402 26516899.0 10.3390/v7102894 o43cfrfh 0.500613 Stork_2011, Rice_1992, Kang_2009, Volmer_2010, Armesto_2007
377 Jiang_2014 Orsay virus utilizes ribosomal frameshifting to express a novel protein that is incorporated into virions() Jiang, Hongbing; Franz, Carl J.; Wu, Guang; Renshaw, Hilary; Zhao, Guoyan; Firth, Andrew E.; Wang, David 2014 2014-02-23 None N PMC3969245 24503084.0 10.1016/j.virol.2013.12.016 v425xitn 0.500600 Rice_1992, Volmer_2010, Stork_2011, Yasuda-Inoue_2013 Tzeng_2006, Goldberg_1991
378 Green_2008 Characterization of the Mechanical Unfolding of RNA Pseudoknots Green, Lisa; Kim, Chul-Hyun; Bustamante, Carlos; Tinoco, Ignacio 2008 2008-01-11 PMC N PMC7094456 18021801.0 10.1016/j.jmb.2007.05.058 1fdpvswz 0.500427 Stork_2011, Guo_Y_2013, Pong_2011, Atkins_1999 Zhong_2016
379 Cavanagh_2008 Coronaviruses: General Features Cavanagh, D.; Britton, P. 2008 2008-12-31 PMC N PMC7149783 10.1016/b978-012374410-4.00370-8 sneqefec 0.500409 Rice_1992, Ryu_W_2017, Auewarakul_2005, Payne_2017, Volmer_2010 Enjuanes_2008
380 UNKNOWN_2012 Order Nidovirales None 2012 2012-12-31 PMC N PMC7150239 10.1016/b978-0-12-384684-6.00066-5 js9ek5me 0.496807 Volmer_2010, Dolja_2006, Auewarakul_2005, Li_D_2019, Payne_2017 Gorbalenya_2006, Enjuanes_2008, Walker_2011, Sun_D_2016
381 Liu_D_1991 A polycistronic mRNA specified by the coronavirus infectious bronchitis virus Liu, D.X.; Cavanagh, D.; Green, P.; Inglis, S.C. 1991 1991-10-31 PMC N PMC7131956 1653486.0 10.1016/0042-6822(91)90423-9 k22fdsuk 0.495851 Lamb_1991, Jendrach_2014, Morikawa_1992, Volmer_2010 Tzeng_2006
382 Kieft_2019 Identification of a Novel Base J Binding Protein Complex Involved in RNA Polymerase II Transcription Termination in Trypanosomes Rudo Kieft; Yang Zhang; Alexandre P. Marand; Jose Dagoberto Moran; Robert Bridger; Lance Wells; Robert J. Schmitz; Robert Sabatini 2019 2019-08-30 BioRxiv N 10.1101/753004 j3u7yq3y 0.495557 Blank_2017, Ivanova_2015, Yasuda-Inoue_2013, Abernathy_2015, Stork_2011 Kieft_2020, Scrima_2004
383 Britton_1989 Sequence of the coding regions from the 3.0 kb and 3.9 kb mRNA: Subgenomic species from a virulent isolate of transmissible gastroenteritis virus Britton, P.; Otin, C. Lopez; Alonso, J. M. Martin; Parra, F. 1989 1989-01-01 PMC N PMC7086989 2546515.0 10.1007/bf01311354 cljnoklc 0.495121 Tohya_1991, Brown_1984, Luytjes_1988, Wurch_1991, Armesto_2007 Yin_J_2005, Nowak_1984, Tung_1992
384 Cornish_2006 Pairwise coupling analysis of helical junction hydrogen bonding interactions in luteoviral RNA pseudoknots Cornish, Peter V.; Giedroc, David P. 2006 2006-09-01 PMC N PMC2573051 16964977.0 10.1021/bi060430n n7o7x9ta 0.494313 Morikawa_1992, Stork_2011, Krause_1987, Guo_Y_2013, Pong_2011 Vasquez-Del_Carpio_2006, Kanitz_2019, Punekar_2012
385 Abrahams_2017 Adenine Enrichment at the Fourth CDS Residue in Bacterial Genes Is Consistent with Error Proofing for +1 Frameshifts Abrahams, Liam; Hurst, Laurence D 2017 2017-08-24 COMM-USE N PMC5850271 28961919.0 10.1093/molbev/msx223 sex63uvb 0.493948 Morikawa_1992, Firth_2009, Gu_W_2004, Hatfield_1990, Wu_G_2005 Firth_2009, Sekine_1992
386 Molenkamp_1997 Identification of a Specific Interaction between the Coronavirus Mouse Hepatitis Virus A59 Nucleocapsid Protein and Packaging Signal Molenkamp, Richard; Spaan, Willy J.M. 1997 1997-12-08 PMC N PMC7130520 9426448.0 10.1006/viro.1997.8867 14nfqusv 0.492954 Stork_2011, Rice_1992, Pong_2011, Meyerson_2017, Kang_2009 Nowak_1984
387 Carter_1992 Identification and sequence determination of the capsid protein gene of feline calicivirus Carter, M. J.; Milton, I. D.; Turner, P. C.; Meanger, J.; Bennett, M.; Gaskell, R. M. 1992 1992-01-01 PMC N PMC7086951 1731695.0 10.1007/bf01317185 zgqivufm 0.492951 Luytjes_1988, Morikawa_1992, Firth_2009, Hatfield_1990, Toshio_1989 Goldberg_1991
388 Teoh_2009 Virus-Specific Read-Through Codon Preference Affects Infectivity of Chimeric Cucumber Green Mottle Mosaic Viruses Displaying a Dengue Virus Epitope Teoh, Pak-Guan; Ooi, Aik-Seng; AbuBakar, Sazaly; Othman, Rofina Yasmin 2009 2009-03-22 PMC N PMC2659398 19325913.0 10.1155/2009/781712 ftjnw3an 0.492386 Armesto_2007, Bickerton_2017, Keep_2015, Keep_2014, Wurch_1991 Wu_H_2004, Tzeng_2006, Satyanarayana_2003, Brun_2014
389 Lin_X_2015 Subgenomic promoter recognition by the norovirus RNA-dependent RNA polymerases Lin, Xiaoyan; Thorne, Lucy; Jin, Zhinan; Hammad, Loubna A.; Li, Serena; Deval, Jerome; Goodfellow, Ian G.; Kao, C. Cheng 2015 2015-01-09 COMM-USE N PMC4288183 25520198.0 10.1093/nar/gku1292 v3sfww3e 0.491999 Stork_2011, Rice_1992, Pong_2011, Banerjee_2001 Bhullar_2014
390 Conzelmann_1993 Molecular Characterization of Porcine Reproductive and Respiratory Syndrome Virus, a Member of the Arterivirus Group Conzelmann, Karl-Klaus; Visser, Nico; Van Woensel, Peter; Thiel, Heinz-Jürgen 1993 1993-03-31 PMC N PMC7131490 8438574.0 10.1006/viro.1993.1129 ft30zevv 0.490682 Luytjes_1988, Tohya_1991, Rice_1992, Lamb_1991 Ren_X_2008
391 Dinman_2004 Ribosomal frameshifting in yeast viruses Dinman, Jonathan D. 2004 2004-01-29 PMC N PMC7169727 8619310.0 10.1002/yea.320111202 mqvm9zn4 0.489736 Lamb_1991, Rice_1992, Trobaugh_2017, Morikawa_1992
392 Walker_2008 Yellow Head Virus Walker, P.J.; Sittidilokratna, N. 2008 2008-12-31 PMC N 10.1016/b978-012374410-4.00779-2 hs37lb9t 0.485268 Ryu_W_2017, Crowe_2014, Rice_1992, Lamb_1991, Lu_P_2016
393 Raffo_1991 Construction of tobacco mosaic virus subgenomic replicons that are replicated and spread systemically in tobacco plants Raffo, Anthony J.; Dawson, William O. 1991 1991-09-30 PMC N 1871972.0 10.1016/0042-6822(91)90844-2 7i14nsmg 0.484807 Rice_1992, Banerjee_2001, Armesto_2007, Bickerton_2017, Keep_2015 Tzeng_2006, Adams_2003
394 Saberi_2018 A planarian nidovirus expands the limits of RNA genome size Amir Saberi; Anastasia A. Gulyaeva; John L. Brubacher; Phillip A. Newmark; Alexander E. Gorbalenya 2018 2018-04-11 BioRxiv N 10.1101/299776 gwgflckq 0.484591 Rice_1992, den_Boon_2010, Payne_2017, Auewarakul_2005, Wang_2018 Saberi_2018, Wulan_2015, Enjuanes_2008, Ogando_2019
395 Stewart_2018 The transcriptional and translational landscape of equine torovirus Hazel Stewart; Katherine Brown; Adam M. Dinan; Nerea Irigoyen; Eric J. Snijder; Andrew E. Firth 2018 2018-04-07 BioRxiv N 10.1101/296996 mozfm5ds 0.483518 Rice_1992, Lamb_1991, Trobaugh_2017, den_Boon_2010, Auewarakul_2005 Stewart_2018, Valle-Casuso_2020
396 Chetverin_2004 Replicable and recombinogenic RNAs Chetverin, Alexander B. 2004 2004-06-01 PMC N 15165890.0 10.1016/j.febslet.2004.03.066 xdouv8me 0.483129 Kozak_1994, Rice_1992, Trobaugh_2017, Wu_B_2009, Valle_1988
397 Giegé_1993 The TYMV tRNA-like structure Giegé, R; Florentz, C; Dreher, TW 1993 1993-12-31 PMC N PMC7130797 8268257.0 10.1016/0300-9084(93)90063-x 8z0xypmf 0.482503 Martínez-Salas_2008, Gorbalenya_1988, Taschuk_2020, Yasuda-Inoue_2013, Stork_2011 Gopinath_2015, Rozanov_1995
398 Marczinke_2000 The Q-base of asparaginyl-tRNA is dispensable for efficient −1 ribosomal frameshifting in eukaryotes 1 1 Edited by J. Karn Marczinke, Beate; Hagervall, Tord; Brierley, Ian 2000 2000-01-14 PMC N PMC7126154 10623518.0 10.1006/jmbi.1999.3361 ubm4au41 0.482044 Morikawa_1992, Jacks_1988, Hatfield_1990, Huang_2018, Krause_1987 Powell_2011, Brierley_1997
399 Liao_2010 The many paths to frameshifting: kinetic modelling and analysis of the effects of different elongation steps on programmed –1 ribosomal frameshifting Liao, Pei-Yu; Choi, Yong Seok; Dinman, Jonathan D.; Lee, Kelvin H. 2010 2010-09-07 NONCOMM N PMC3017607 20823091.0 10.1093/nar/gkq761 wwq0sd2r 0.481299 Lamb_1991, Morikawa_1992, Rice_1992, Hatfield_1990, Jacks_1988 Powell_2011, Wang_2006, Marczinke_1998, Sasvari_2011
400 Rowley_2016 XRN1 is a Species-Specific Virus Restriction Factor in Yeasts Paul A. Rowley; Brandon Ho; Sarah Bushong; Arlen Johnson; Sara L. Sawyer 2016 2016-08-16 BioRxiv N 10.1101/069799 1znuxoj5 0.480537 Yasuda-Inoue_2013, Stork_2011, den_Boon_2010, Rice_1992, Rowley_2016 Rowley_2016, Case_2017
401 Leibowitz_1988 Detection of a murine coronavirus nonstructural protein encoded in a downstream open reading frame Leibowitz, Julian L.; Perlman, Stanley; Weinstock, George; Devries, James R.; Budzilowicz, Carol; Weissemann, Jane M.; Weiss, Susan R. 1988 1988-05-31 PMC N PMC7131066 2834866.0 10.1016/0042-6822(88)90631-9 uoei747i 0.480153 Wurch_1991, Vennema_1991, Jendrach_2014, Morikawa_1992 Tzeng_2006
402 Kim_D_2020 The architecture of SARS-CoV-2 transcriptome Dongwan Kim; Joo-Yeon Lee; Jeong-Sun Yang; Jun Won Kim; V. Narry Kim; Hyeshik Chang 2020 2020-03-14 BioRxiv Y 10.1101/2020.03.12.988865 wt4pxu08 0.479829 Rice_1992, Price_2019, Wang_2017, Lamb_1991, Krause_1987 Niemeyer_2018, Wang_2009
403 Sawicki_2008 Coronavirus Genome Replication Sawicki, Stanley G. 2008 2008-11-01 PMC N PMC7122471 10.1007/b135974_2 3tfwy8km 0.478021 Ryu_W_2017, Wang_2015, Crowe_2014, Xu_L_2018 Gorbalenya_2006, Enjuanes_2008, Wulan_2015
404 Wang_2008 Brome Mosaic Virus Wang, X.; Ahlquist, P. 2008 2008-12-31 PMC N 10.1016/b978-012374410-4.00560-4 po4p1466 0.478021 Rice_1992, den_Boon_2010, Ryu_W_2017, Stork_2011, Yasuda-Inoue_2013
405 Su_L_1999 Minor groove RNA triplex in the crystal structure of a ribosomal frameshifting viral pseudoknot Su, Li; Chen, Liqing; Egli, Martin; Berger, James M.; Rich, Alexander 1999 1999-01-01 PMC N PMC7097825 10074948.0 10.1038/6722 93qae2al 0.475684 Morikawa_1992, Guo_Y_2013, Brierley_1991, Brierley_1989 Cornish_2006, Marcheschi_2007
406 Redondo_2013 Translation of viral mRNAs that do not require eIF4E is blocked by the inhibitor 4EGI-1 Redondo, Natalia; García-Moreno, Manuel; Sanz, Miguel Angel; Carrasco, Luis 2013 2013-09-30 PMC N PMC7111898 23870416.0 10.1016/j.virol.2013.06.008 tltdzujk 0.474259 Stork_2011, Yasuda-Inoue_2013, Meyerson_2017, Masaki_2015, Ivanova_2015 Sasvari_2011
407 Low_J_2014 Structure and Dynamics of the HIV-1 Frameshift Element RNA Low, Justin\nT.; Garcia-Miranda, Pablo; Mouzakis, Kathryn D.; Gorelick, Robert J.; Butcher, Samuel E.; Weeks, Kevin M. 2014 2014-06-13 PMC N PMC4089884 24926888.0 10.1021/bi5004926 y6qcig5u 0.473702 Morikawa_1992, Ivarsson_2012, Brierley_1989, Gorbalenya_1988, Krause_1987 Marcheschi_2007, Marczinke_1998
408 Ghorai_2010 Molecular characterization of genome segment 2 encoding RNA dependent RNA polymerase of Antheraea mylitta cytoplasmic polyhedrosis virus Ghorai, Suvankar; Chakrabarti, Mrinmay; Roy, Sobhan; Chavali, Venkata Ramana Murthy; Bagchi, Abhisek; Ghosh, Ananta Kumar 2010 2010-08-15 PMC N PMC7111928 20488502.0 10.1016/j.virol.2010.04.019 bd2bkz5t 0.472727 Wurch_1991, Luytjes_1988, Gorbalenya_1988, Stork_2011, Yang_2010 Goldberg_1991, Nowak_1984, Tzeng_2006
409 Ferron_2012 The viral RNA capping machinery as a target for antiviral drugs Ferron, François; Decroly, Etienne; Selisko, Barbara; Canard, Bruno 2012 2012-10-31 PMC N PMC7114304 22841701.0 10.1016/j.antiviral.2012.07.007 66kw1ubk 0.472207 Trobaugh_2017, Stork_2011, den_Boon_2010, Rice_1992, Yasuda-Inoue_2013 Chen_2016, Byszewska_2015, Decroly_2011
410 Yu_F_2007 Identification and characterization of RNA-dependent RNA polymerase activity in recombinant Japanese encephalitis virus NS5 protein Yu, F.; Hasebe, F.; Inoue, S.; Mathenge, E. G. M.; Morita, K. 2007 2007-06-18 PMC N PMC7086876 17577613.0 10.1007/s00705-007-1007-0 s0lcyjgh 0.470944 Stork_2011, Pong_2011, Kang_2009, Meyerson_2017, Rice_1992 Tzeng_2006, Loa_C_2004, Nowak_1984
411 Sharma_2014 Analysis of tetra- and hepta-nucleotides motifs promoting -1 ribosomal frameshifting in Escherichia coli Sharma, Virag; Prère, Marie-Françoise; Canal, Isabelle; Firth, Andrew E.; Atkins, John F.; Baranov, Pavel V.; Fayet, Olivier 2014 2014-07-01 COMM-USE N PMC4066793 24875478.0 10.1093/nar/gku386 a3y1rfas 0.470550 Morikawa_1992, Hatfield_1990, Brierley_1989, Firth_2009, Krause_1987 Li_L_2001, Wang_2006, Marczinke_1998
412 Ziebuhr_2005 The Coronavirus Replicase Ziebuhr, J. 2005 2005-01-01 PMC N PMC7121973 15609509.0 10.1007/3-540-26765-4_3 l6awxamv 0.470207 Stork_2011, Yasuda-Inoue_2013, Rice_1992, den_Boon_2010, Shi_S_2005 Tzeng_2006
413 Nair_2010 Natively unfolded nucleic acid binding P8 domain of SeMV polyprotein 2a affects the novel ATPase activity of the preceding P10 domain Nair, Smita; Savithri, H.S. 2010 2010-02-05 PMC N PMC7125719 19995563.0 10.1016/j.febslet.2009.12.003 baqph4le 0.469041 Yang_2010, UNKNOWN_1987, UNKNOWN_1993, Pong_2011 Faaberg_1996, Piñón_1997, Rozanov_1995
414 Kolla_2000 Synthesis of a bacteriophage MB78 late protein by novel ribosomal frameshifting Kolla, Venkatadri; Chakravorty, Maharani; Pandey, Bindu; Srinivasula, Srinivasa M; Mukherjee, Annapurna; Litwack, Gerald 2000 2000-08-22 PMC N 10974552.0 10.1016/s0378-1119(00)00264-x gmgbus9i 0.468387 Morikawa_1992, Krause_1987, Volmer_2010, Rice_1992, Wang_2007
415 Hou_L_2014 Archaeal DnaG contains a conserved N-terminal RNA-binding domain and enables tailing of rRNA by the exosome Hou, Linlin; Klug, Gabriele; Evguenieva-Hackenberg, Elena 2014 2014-11-10 COMM-USE N PMC4227792 25326320.0 10.1093/nar/gku969 l1r416w7 0.467118 Yasuda-Inoue_2013, Gorbalenya_1988, Stork_2011, Blank_2017 Scrima_2004, Vasquez-Del_Carpio_2006
416 Ryabova_2002 Viral strategies of translation initiation: Ribosomal shunt and reinitiation Ryabova, Lyubov A; Pooggin, Mikhail M; Hohn, Thomas 2002 2002-12-31 PMC N PMC7133299 12206450.0 10.1016/s0079-6603(02)72066-7 7obfhwey 0.466582 Lamb_1991, Cattaneo_1989, Martínez-Salas_2008, Trobaugh_2017, den_Boon_2010 Wulan_2015
417 Rodnina_2020 Translational recoding: canonical translation mechanisms reinterpreted Rodnina, Marina V; Korniy, Natalia; Klimova, Mariia; Karki, Prajwal; Peng, Bee-Zen; Senyushkina, Tamara; Belardinelli, Riccardo; Maracci, Cristina; Wohlgemuth, Ingo; Samatova, Ekaterina; Peske, Frank 2020 2020-02-20 NONCOMM N PMC7026636 31511883.0 10.1093/nar/gkz783 il9mz5na 0.466494 Morikawa_1992, Lamb_1991, Hatfield_1990, Kozak_1994 Caliskan_2015, Caliskan_2014
418 Kamitani_2009 A novel two-pronged strategy to suppress host protein synthesis by SARS coronavirus Nsp1 protein Kamitani, Wataru; Huang, Cheng; Narayanan, Krishna; Lokugamage, Kumari G.; Makino, Shinji 2009 2009-10-18 PMC N PMC2784181 19838190.0 10.1038/nsmb.1680 42saxb98 0.465882 Stork_2011, Meyerson_2017, Yasuda-Inoue_2013, Pong_2011, Ivanova_2015 Tzeng_2006
419 Liu_B_2009 Fluorescence Competition Assay Measurements of Free Energy Changes for RNA Pseudoknots Liu, Biao; Shankar, Neelaabh; Turner, Douglas H. 2009 2009-11-18 None N PMC2808147 19921809.0 10.1021/bi901541j zwgnkegf 0.463853 Guo_Y_2013, Dawson_2007, Kierzek_2006, Polverino_2017, Brierley_1991 Cornish_2006, Hori_2016, Theimer_1999
420 Ji_F_2004 Prediction for Target Sites of Small Interfering RNA Duplexes in SARS Coronavirus Ji, Fengmin; Luo, Liaofu 2004 2004-01-16 PMC N PMC7097402 10.1186/gb-2004-5-2-p6 x48huy5f 0.463611 Rice_1992, Stork_2011, Wang_2017, Naito_2007 Kang_2006, Chen_2016
421 Kieft_2020 Identification of a novel base J binding protein complex involved in RNA polymerase II transcription termination in trypanosomes Kieft, Rudo; Zhang, Yang; Marand, Alexandre P.; Moran, Jose Dagoberto; Bridger, Robert; Wells, Lance; Schmitz, Robert J.; Sabatini, Robert 2020 2020-02-21 COMM-USE N PMC7055916 32084124.0 10.1371/journal.pgen.1008390 h2xdkoyq 0.461400 Blank_2017, Yasuda-Inoue_2013, Ivanova_2015, Stork_2011, Abernathy_2015 Kieft_2019, Scrima_2004
422 Zhang_2007 Helper virus-independent trans-replication of hepatitis C virus-derived minigenome Zhang, Jing; Yamada, Osamu; Yoshida, Hiroshi; Sakamoto, Takashi; Araki, Hiromasa; Shimotohno, Kunitada 2007 2007-01-05 PMC N PMC7117360 17112469.0 10.1016/j.bbrc.2006.10.188 xnillpzd 0.461357 Rice_1992, Tallmadge_2008, Stork_2011, Armesto_2007, Bickerton_2017 Tzeng_2006
423 Weiss-Brummer_1995 Mutation of a highly conserved base in the yeast mitochondrial 21S rRNA restricts ribosomal frameshifting Weiss-Brummer, Brigitte; Zollner, Alfred; Haid, Albert; Thomnson, Shahla 1995 1995-01-01 PMC N PMC7087996 7544431.0 10.1007/bf02190802 r70iuoq0 0.461311 Morikawa_1992, Krause_1987, Hatfield_1990, Jacks_1988, Wu_G_2005 Sakai_1991, Marczinke_2000, Powell_2011
424 Landeo-Ríos_2016 The p22 RNA silencing suppressor of the crinivirus Tomato chlorosis virus preferentially binds long dsRNAs preventing them from cleavage Landeo-Ríos, Yazmín; Navas-Castillo, Jesús; Moriones, Enrique; Cañizares, M. Carmen 2016 2016-01-15 PMC N PMC7111720 26629953.0 10.1016/j.virol.2015.11.008 i6os0p47 0.461311 Yasuda-Inoue_2013, Stork_2011, Meyerson_2017, Blank_2017 Valli_2012, Rawlings_2011
425 Park_2008 Identification of novel ligands for the RNA pseudoknot that regulate −1 ribosomal frameshifting Park, So-Jung; Jung, Young Hoon; Kim, Yang-Gyun; Park, Hyun-Ju 2008 2008-04-15 PMC N PMC7125880 18321712.0 10.1016/j.bmc.2008.02.025 a0r9q8ms 0.460537 Stork_2011, Pong_2011, Yasuda-Inoue_2013, Rice_1992, Trobaugh_2017 Xia_H_2015
426 Carrion_2008 Leishmaniaviruses Carrion, R.; Ro, Y.-T.; Patterson, J.L. 2008 2008-12-31 PMC N 10.1016/b978-012374410-4.00566-5 69j32pl9 0.459454 Rice_1992, Ryu_W_2017, den_Boon_2010, Payne_2017, Stork_2011
427 Tuteja_2006 Helicases as molecular motors: An insight Tuteja, Narendra; Tuteja, Renu 2006 2006-12-01 PMC N PMC7127012 10.1016/j.physa.2006.05.014 vcfvpxhq 0.459271 Taschuk_2020, Gorbalenya_1988, Yasuda-Inoue_2013, den_Boon_2010, Stork_2011 Xia_H_2015, Myllykoski_2017, Lehmann_2015
428 Cho_K_2014 Toroviruses (Coronaviridae) Cho, K.-O.; Hoet, A.E. 2014 2014-12-31 PMC N PMC7157456 10.1016/b978-0-12-801238-3.02674-x wuzucvvb 0.459077 Crowe_2014, Ryu_W_2017, Hewson_2007, Wang_2015, Lvov_2015 Stewart_2018, Case_2017, Stewart_2018
429 Cowley_2016 Chapter 32 Nidoviruses of Fish and Crustaceans Cowley, J.A. 2016 2016-12-31 PMC N PMC7150020 10.1016/b978-0-12-801573-5.00032-2 ag5y781z 0.458940 Ryu_W_2017, Wang_2015, Xu_L_2018, Wang_2018, Rice_1992 Walker_2011, Gorbalenya_2006, Wijegoonawardane_2008, Enjuanes_2008
430 Kovalev_2012 A Co-Opted DEAD-Box RNA Helicase Enhances Tombusvirus Plus-Strand Synthesis Kovalev, Nikolay; Pogany, Judit; Nagy, Peter D. 2012 2012-02-16 COMM-USE N PMC3280988 22359508.0 10.1371/journal.ppat.1002537 jhetyd9t 0.458652 Stork_2011, Yasuda-Inoue_2013, Li_Z_2010, den_Boon_2010 Sasvari_2011, Yasuda-Inoue_2013, Li_Z_2009
431 Cameron_2009 Dynamics: the missing link between structure and function of the viral RNA-dependent RNA polymerase? Cameron, Craig E; Moustafa, Ibrahim M; Arnold, Jamie J 2009 2009-12-31 PMC N 19910183.0 10.1016/j.sbi.2009.10.012 fm44fqqb 0.458534 Stork_2011, Trobaugh_2017, den_Boon_2010, Wu_B_2009
432 Wu_B_2013 Global Organization of a Positive-strand RNA Virus Genome Wu, Baodong; Grigull, Jörg; Ore, Moriam O.; Morin, Sylvie; White, K. Andrew 2013 2013-05-23 COMM-USE N PMC3662671 23717202.0 10.1371/journal.ppat.1003363 vx0nc8io 0.457929 Wu_B_2009, Martínez-Salas_2008, Rice_1992, den_Boon_2010 Adams_2003
433 Limanskaya_2013 Potential thermosensitive riboswitches in the genome of Salmonella Limanskaya, O. Yu.; Murtazaeva, L. A.; Limanskii, A. P. 2013 2013-10-11 PMC N PMC7089174 10.3103/s009545271305006x 7fbzbxa2 0.457114 Rice_1992, Staple_2005, Stork_2011, Liu_Y_2009, Gorbalenya_1988 Limanskaya_2013, Singleton_2018, Michalska_2018
434 Moran_2008 The Mechanics of Translocation: A Molecular “Spring-and-Ratchet” System Moran, Stephen J.; Flanagan, John F.; Namy, Olivier; Stuart, David I.; Brierley, Ian; Gilbert, Robert J.C. 2008 2008-05-07 PMC N PMC7119126 18462671.0 10.1016/j.str.2008.04.001 5exkly0l 0.456372 Dubois_2016, Blank_2017, Ivanova_2015, Morikawa_1992, Chan_2016 Olia_2008, Flanagan_2010, Caliskan_2014
435 Mousavizadeh_2020 Genotype and phenotype of COVID-19: Their roles in pathogenesis Mousavizadeh, Leila; Ghasemi, Sorayya 2020 2020-03-31 PMC Y 10.1016/j.jmii.2020.03.022 p3gswh23 0.456372 Rice_1992, Ryu_W_2017, Payne_2017, den_Boon_2010, Auewarakul_2005 Niemeyer_2018, Rockx_2020, Narayanan_2015, Tan_Y_2020
436 Adedeji_2012 Mechanism of Nucleic Acid Unwinding by SARS-CoV Helicase Adedeji, Adeyemi O.; Marchand, Bruno; te Velthuis, Aartjan J. W.; Snijder, Eric J.; Weiss, Susan; Eoff, Robert L.; Singh, Kamalendra; Sarafianos, Stefan G. 2012 2012-05-15 COMM-USE N PMC3352918 22615777.0 10.1371/journal.pone.0036521 1ssh296a 0.456275 Stork_2011, Pong_2011, Meyerson_2017, Yasuda-Inoue_2013, Kang_2009 Adedeji_2016
437 Chetverin_1999 The puzzle of RNA recombination Chetverin, Alexander B 1999 1999-10-22 PMC N 10571050.0 10.1016/s0014-5793(99)01282-x p1qyxmes 0.455515 Gmyl_2005, Rice_1992, den_Boon_2010, Moon_2012
438 Kuo_L_2016 A key role for the carboxy-terminal tail of the murine coronavirus nucleocapsid protein in coordination of genome packaging Kuo, Lili; Koetzner, Cheri A.; Masters, Paul S. 2016 2016-07-31 PMC N PMC4884538 27105451.0 10.1016/j.virol.2016.04.009 pujlr8uf 0.454107 Stork_2011, Kang_2009, Pong_2011, Rice_1992, Narayanan_2003 Masters_1992
439 Fricke_2019 Global importance of RNA secondary structures in protein-coding sequences Fricke, Markus; Gerst, Ruman; Ibrahim, Bashar; Niepmann, Michael; Marz, Manja 2019 2019-02-15 PMC N PMC7109657 30101307.0 10.1093/bioinformatics/bty678 213ly4xo 0.453191 Morikawa_1992, Krause_1987, Firth_2009, Hatfield_1990 Samal_2013
440 Xu_Z_2001 Synthesis of a novel hepatitis C virus protein by ribosomal frameshift Xu, Zhenming; Choi, Jinah; Yen, T.S.Benedict; Lu, Wen; Strohecker, Anne; Govindarajan, Sugantha; Chien, David; Selby, Mark J.; Ou, Jing‐hsiung 2001 2001-07-16 PMC N PMC125543 11447125.0 10.1093/emboj/20.14.3840 wzj2glte 0.453191 Morikawa_1992, Lamb_1991, Rice_1992, Kang_2009, Firth_2009
441 Nibert_2018 A barnavirus sequence mined from a transcriptome of the Antarctic pearlwort Colobanthus quitensis Nibert, Max L.; Manny, Austin R.; Debat, Humberto J.; Firth, Andrew E.; Bertini, Laura; Caruso, Carla 2018 2018-03-07 COMM-USE N PMC5999160 29516246.0 10.1007/s00705-018-3794-x n25wnmq5 0.453014 Firth_2009, Lamb_1991, Payne_2017, Krause_1987, Luytjes_1988 Bhat_2011, Goldberg_1991, Carmo_2012
442 Chen_1995 Detection of related positive-strand RNA virus genomes by reverse transcription/polymerase chain reaction using degenerate primers for common replicase sequences Chen, Zongyu; Plagemann, Peter G.W. 1995 1995-12-31 PMC N PMC7134001 8837898.0 10.1016/0168-1702(95)00093-3 4t8ra5oa 0.452419 Armesto_2007, Bickerton_2017, Keep_2014, Keep_2015, Rice_1992 Nowak_1984
443 UNKNOWN_2012 Family Closteroviridae None 2012 2012-12-31 PMC N 10.1016/b978-0-12-384684-6.00085-9 ymxapsv6 0.450682 Volmer_2010, Auewarakul_2005, Payne_2017, Modrow_2013, Dolja_2006
444 Binns_1985 The use of a random priming procedure to generate cDNA libraries of infectious bronchitis virus, a large RNA virus Binns, M.M.; Boursnell, M.E.G.; Foulds, I.J.; Brown, T.D.K. 1985 1985-07-31 PMC N PMC7119584 2993338.0 10.1016/0166-0934(85)90116-8 48rw5arp 0.450102 Rice_1992, Armesto_2007, Bickerton_2017, Keep_2015 Nowak_1984, Usme-Ciro_2014
445 Bidou_2010 Translational errors: from yeast to new therapeutic targets Bidou, Laure; Rousset, Jean-Pierre; Namy, Olivier 2010 2010-12-01 PMC N PMC7110152 20955199.0 10.1111/j.1567-1364.2010.00684.x y6rye3bp 0.449601 Trobaugh_2017, Haasnoot_2010, Moon_2012, Berkhout_2006, Abernathy_2015 Cassan_1990, de_Breyne_2018
446 Cotelesage_2011 Hepatitis B Virus Genotype G forms core-like particles with unique structural properties Cotelesage, J J H; Osiowy, C; Lawrence, C; deVarennes, S L; Teow, S; Beniac, D R; Booth, T F 2011 2011-06-23 COMM-USE N PMC3116152 20546498.0 10.1111/j.1365-2893.2010.01330.x crolji1q 0.445821 Morikawa_1992, Volmer_2010, UNKNOWN_1987, Kang_2009, Luytjes_1988 Popescu_2011, Effantin_2016
447 Brierley_2007 Viral RNA pseudoknots: versatile motifs in gene expression and replication Brierley, Ian; Pennell, Simon; Gilbert, Robert J. C. 2007 2007-01-01 None N PMC7096944 17632571.0 10.1038/nrmicro1704 ag7b9b00 0.445175 Martínez-Salas_2008, Staple_2005, Liu_Y_2009, den_Boon_2010 Sun_D_2016, Diaz_2012
448 Lyon_2018 Live-cell single RNA imaging reveals bursts of translational frameshifting Kenneth Lyon; Luis U. Aguilera; Tatsuya Morisaki; Brian Munsky; Timothy J. Stasevich 2018 2018-11-24 BioRxiv N 10.1101/478040 4fm1skgh 0.444931 Lamb_1991, Morikawa_1992, Stork_2011, Rice_1992, Trobaugh_2017
449 Marr_2003 Mismatch Extension During Strong Stop Strand Transfer and Minimal Homology Requirements for Replicative Template Switching During Moloney Murine Leukemia Virus Replication Marr, Sharon Fodor; Telesnitsky, Alice 2003 2003-07-18 PMC N 12850138.0 10.1016/s0022-2836(03)00597-7 47okncdw 0.444004 Morikawa_1992, Stork_2011, Masante_2015, Rice_1992
450 de Messieres_2014 Single-Molecule Measurements of the CCR5 mRNA Unfolding Pathways de Messieres, Michel; Chang, Jen-Chien; Belew, Ashton Trey; Meskauskas, Arturas; Dinman, Jonathan D.; La Porta, Arthur 2014 2014-01-01 PMC N PMC3907219 24411256.0 10.1016/j.bpj.2013.09.036 dvnkhgov 0.443935 Morikawa_1992, Brierley_1989, Hatfield_1990, Atkins_1999, Martínez-Salas_2008 Bénard_1996
451 Crescenzo-Chaigne_2014 Chimeric NP Non Coding Regions between Type A and C Influenza Viruses Reveal Their Role in Translation Regulation Crescenzo-Chaigne, Bernadette; Barbezange, Cyril; Frigard, Vianney; Poulain, Damien; van der Werf, Sylvie 2014 2014-09-30 COMM-USE N PMC4182659 25268971.0 10.1371/journal.pone.0109046 b4zcvd04 0.443483 Rice_1992, Volmer_2010, Armesto_2007, Auewarakul_2005, Bickerton_2017 Tzeng_2006
452 Gao_F_2013 Replacement of the heterologous 5′ untranslated region allows preservation of the fully functional activities of type 2 porcine reproductive and respiratory syndrome virus Gao, Fei; Yao, Huochun; Lu, Jiaqi; Wei, Zuzhang; Zheng, Haihong; Zhuang, Jinshan; Tong, Guangzhi; Yuan, Shishan 2013 2013-04-25 PMC N PMC7111940 23453581.0 10.1016/j.virol.2012.12.013 s63clavw 0.442657 Rice_1992, Volmer_2010, Auewarakul_2005, Trobaugh_2017, Armesto_2007 Gao_F_2012, Tzeng_2006
453 Somers_2013 A perspective on mammalian upstream open reading frame function Somers, Joanna; Pöyry, Tuija; Willis, Anne E. 2013 2013-08-31 PMC N 10.1016/j.biocel.2013.04.020 dtnysugh 0.441423 Trobaugh_2017, Haasnoot_2010, Wang_2007, Martínez-Salas_2008
454 Agranovsky_1996 Principles of Molecular Organization, Expression, and Evolution of Closteroviruses: Over The Barriers Agranovsky, A.A. 1996 1996-12-31 PMC N 8895832.0 10.1016/s0065-3527(08)60735-6 0kcujnfa 0.440523 Rice_1992, Ryu_W_2017, den_Boon_2010, Payne_2017, Wang_2018 Walker_2011, Gorbalenya_2006, Sun_D_2016, Wulan_2015
455 Lang_2012 Highly similar structural frames link the template tunnel and NTP entry tunnel to the exterior surface in RNA-dependent RNA polymerases Lang, Dorothy M.; Zemla, A. T.; Zhou, C. L. Ecale 2012 2012-12-25 NONCOMM N PMC3561941 23275546.0 10.1093/nar/gks1251 s90geszi 0.439054 Gorbalenya_1988, Staple_2005, Naito_2007, Payne_2017, Rice_1992
456 Snijder_2003 Unique and Conserved Features of Genome and Proteome of SARS-coronavirus, an Early Split-off From the Coronavirus Group 2 Lineage Snijder, Eric J.; Bredenbeek, Peter J.; Dobbe, Jessika C.; Thiel, Volker; Ziebuhr, John; Poon, Leo L.M.; Guan, Yi; Rozanov, Mikhail; Spaan, Willy J.M.; Gorbalenya, Alexander E. 2003 2003-08-29 PMC N PMC7159028 12927536.0 10.1016/s0022-2836(03)00865-9 kstt07y1 0.437907 Rice_1992, Payne_2017, Lamb_1991, Auewarakul_2005, Naito_2007 Wang_2009, Subissi_2014
457 YU_W_1995 A Conserved Motif at the 3′ End of Mouse Hepatitis Virus Genomic RNA Required for Host Protein Binding and Viral RNA Replication YU, WEI; LEIBOWITZ, JULIAN L. 1995 1995-12-01 PMC N PMC7130855 8525608.0 10.1006/viro.1995.9947 p9dl7whd 0.436679 Stork_2011, Rice_1992, Meyerson_2017, Banerjee_2001, Pong_2011 Bhullar_2014, Nowak_1984
458 Wu_B_2009 A Discontinuous RNA Platform Mediates RNA Virus Replication: Building an Integrated Model for RNA–based Regulation of Viral Processes Wu, Baodong; Pogany, Judit; Na, Hong; Nicholson, Beth L.; Nagy, Peter D.; White, K. Andrew 2009 2009-03-06 COMM-USE N PMC2648310 19266082.0 10.1371/journal.ppat.1000323 tx5ff5gk 0.436342 Rice_1992, Stork_2011, den_Boon_2010, Trobaugh_2017 Bhullar_2014
459 Gorbalenya_2002 The Palm Subdomain-based Active Site is Internally Permuted in Viral RNA-dependent RNA Polymerases of an Ancient Lineage Gorbalenya, Alexander E; Pringle, Fiona M; Zeddam, Jean-Louis; Luke, Brian T; Cameron, Craig E; Kalmakoff, James; Hanzlik, Terry N; Gordon, Karl H.J; Ward, Vernon K 2002 2002-11-15 PMC N PMC7127740 12421558.0 10.1016/s0022-2836(02)01033-1 468kk47s 0.435901 Gorbalenya_1988, Pong_2011, Stork_2011, Morikawa_1992, Imbert_2006 Rozanov_1995, Xia_H_2015
460 Masante_2015 Mutations of the SL2 dimerization sequence of the hepatitis C genome abrogate viral replication Masante, Cyril; Jaubert, Chloé; Palau, William; Plissonneau, Jacqueline; Besnard, Lucie; Ventura, Michel; Di Primo, Carmelo 2015 2015-03-28 PMC N PMC7079775 25822205.0 10.1007/s00018-015-1893-3 d9urjb9e 0.435402 Stork_2011, Rice_1992, Kang_2009, Meyerson_2017
461 Byszewska_2015 RNA methyltransferases involved in 5′ cap biosynthesis Byszewska, Magdalena; Śmietański, Mirosław; Purta, Elżbieta; Bujnicki, Janusz M 2015 2015-01-27 NONCOMM N PMC4615557 25626080.0 10.1080/15476286.2015.1004955 sz2531mv 0.434833 Trobaugh_2017, Martínez-Salas_2008, Stork_2011, Dubois_2016, Krause_1987 Gopinath_2015, Chen_2016
462 Krause_2019 tailfindr: Alignment-free poly(A) length measurement for Oxford Nanopore RNA and DNA sequencing Maximilian Krause; Adnan M. Niazi; Kornel Labun; Yamila N. Torres Cleuren; Florian S. Müller; Eivind Valen 2019 2019-03-25 BioRxiv N 10.1101/588343 cq7g8azh 0.434452 Whiteford_2005, Price_2019, Chang_2011, Wang_2017, Krause_1987 van_Ooij_2006
463 Masters_1999 Reverse Genetics of The Largest RNA Viruses Masters, Paul S. 1999 1999-12-31 PMC N PMC7131607 10582102.0 10.1016/s0065-3527(08)60351-6 dktugixk 0.432642 Rice_1992, Armesto_2007, Stork_2011, Keep_2014, Bickerton_2017 Tzeng_2006
464 Liu_C_2017 Complemented palindrome small RNAs first discovered from SARS coronavirus Chang Liu; Ze Chen; Wenyuan Shen; Deshui Yu; Siyu Li; Yue Hu; Haishuo Ji; Wenjun Bu; Qingsong Wang; Shan Gao 2017 2017-09-07 BioRxiv N 10.1101/185876 g55d5ijx 0.432406 Rice_1992, Trobaugh_2017, Naito_2007, Auewarakul_2005, Krause_1987 Liu_C_2018, Niemeyer_2018, Kumar_2007
465 Tohya_1991 Sequence analysis of the 3′-end of feline calicivirus genome Tohya, Yukinobu; Taniguchi, Yasuko; Takahashi, Eiji; Utagawa, Etsuko; Takeda, Naokazu; Miyamura, Kikuko; Yamazaki, Shudo; Mikami, Takeshi 1991 1991-08-31 PMC N 1853578.0 10.1016/0042-6822(91)91016-a l761o6n3 0.432406 Luytjes_1988, Firth_2009, Morikawa_1992, Toshio_1989
466 Masters_2019 Coronavirus genomic RNA packaging Masters, Paul S. 2019 2019-11-30 PMC N PMC7112113 31505321.0 10.1016/j.virol.2019.08.031 667urmpq 0.432123 Rice_1992, den_Boon_2010, Trobaugh_2017, Berkhout_2006, Rivas_2016 Athmer_2018
467 Plagemann_1991 Hepatitis C virus Plagemann, P. G. W. 1991 1991-01-01 PMC N PMC7087296 1659796.0 10.1007/bf01310473 h9ppa064 0.431576 Volmer_2010, Rice_1992, Auewarakul_2005, Luytjes_1988, Morikawa_1992 Ren_X_2008, Tzeng_2006
468 Wijegoonawardane_2008 Genetic diversity in the yellow head nidovirus complex Wijegoonawardane, Priyanjalie K.M.; Cowley, Jeff A.; Phan, Thuy; Hodgson, Richard A.J.; Nielsen, Linda; Kiatpathomchai, Wansika; Walker, Peter J. 2008 2008-10-25 PMC N PMC7103379 18768192.0 10.1016/j.virol.2008.07.005 g64fmvxs 0.429876 Firth_2009, Luytjes_1988, Morikawa_1992, Lamb_1991, Hatfield_1990 Wijegoonawardane_2009, Goldberg_1991, Ren_X_2008, Zhou_2017
469 He_G_2020 Brome Mosaic Virus (Bromoviridae) ☆ He, Guijuan; Zhang, Zhenlu; Sathanantham, Preethi; Diaz, Arturo; Wang, Xiaofeng 2020 2020-12-31 PMC N 10.1016/b978-0-12-809633-8.21294-6 2qompc3u 0.429389 Ryu_W_2017, Rice_1992, den_Boon_2010, Wang_2015
470 Priet_2015 mRNA maturation in giant viruses: variation on a theme Priet, Stéphane; Lartigue, Audrey; Debart, Françoise; Claverie, Jean-Michel; Abergel, Chantal 2015 2015-04-20 COMM-USE N PMC4402537 25779049.0 10.1093/nar/gkv224 y5ynb738 0.429137 Gorbalenya_1988, Yasuda-Inoue_2013, Stork_2011, Lamb_1991, den_Boon_2010 Tzeng_2006
471 Tsai_2018 Gene Variations in Cis-Acting Elements between the Taiwan and Prototype Strains of Porcine Epidemic Diarrhea Virus Alter Viral Gene Expression Tsai, Tsung-Lin; Su, Chen-Chang; Hsieh, Ching-Chi; Lin, Chao-Nan; Chang, Hui-Wen; Lo, Chen-Yu; Lin, Ching-Houng; Wu, Hung-Yi 2018 2018-11-29 COMM-USE N PMC6316102 30501108.0 10.3390/genes9120591 xge6mah1 0.427873 Auewarakul_2005, Morikawa_1992, Volmer_2010, Luytjes_1988, Firth_2009 Gao_F_2012, Jang_2019, Wang_2010
472 Meulenberg_1997 Molecular characterization of Lelystad virus Meulenberg, J.J.M.; Petersen den Besten, A.; de Kluyver, E.; van Nieuwstadt, A.; Wensvoort, G.; Moormann, R.J.M. 1997 1997-04-30 PMC N PMC7117323 9220614.0 10.1016/s0378-1135(96)01335-1 jcb9w8y9 0.427305 Luytjes_1988, Tohya_1991, Lamb_1991, Ryu_W_2017 Meulenberg_1995, Ren_X_2008
473 Hong_2013 Viral IRES Prediction System - a Web Server for Prediction of the IRES Secondary Structure In Silico Hong, Jun-Jie; Wu, Tzong-Yuan; Chang, Tsair-Yuan; Chen, Chung-Yung 2013 2013-11-05 COMM-USE N PMC3818432 24223923.0 10.1371/journal.pone.0079288 7pdh7alh 0.426933 Martínez-Salas_2008, Morikawa_1992, Wu_T_2009, Landry_2009 Wu_T_2009, Fajardo_2012
474 Willcocks_1993 Identification and sequence determination of the capsid protein gene of human astrovirus serotype 1 Willcocks, Margaret M.; Carter, Michael J. 1993 1993-11-15 PMC N 8293952.0 f2jf7byg 0.426877 Luytjes_1988, Jendrach_2014, Leibowitz_1988, Firth_2009 Carter_1992
475 Luytjes_1988 Sequence of mouse hepatitis virus A59 mRNA 2: Indications for RNA recombination between coronaviruses and influenza C virus Luytjes, Willem; Bredenbeek, Peter J.; Noten, Ans F.H.; Horzinek, Marian C.; Spaan, Willy J.M. 1988 1988-10-31 PMC N PMC7118983 2845655.0 10.1016/0042-6822(88)90512-0 88mgoxz6 0.426078 Morikawa_1992, Firth_2009, Tohya_1991, Toshio_1989 Jouvenne_1992
476 Lehmann_2015 Discovery of an essential nucleotidylating activity associated with a newly delineated conserved domain in the RNA polymerase-containing protein of all nidoviruses Lehmann, Kathleen C.; Gulyaeva, Anastasia; Zevenhoven-Dobbe, Jessika C.; Janssen, George M. C.; Ruben, Mark; Overkleeft, Hermen S.; van Veelen, Peter A.; Samborskiy, Dmitry V.; Kravchenko, Alexander A.; Leontovich, Andrey M.; Sidorov, Igor A.; Snijder, Eric J.; Posthuma, Clara C.; Gorbalenya, Alexander E. 2015 2015-09-30 NONCOMM N PMC4787807 26304538.0 10.1093/nar/gkv838 pda9knvv 0.425756 Stork_2011, Pong_2011, Kang_2009, Yasuda-Inoue_2013, Rice_1992 Xia_H_2015, Masters_1992
477 Shukla_2014 Acquisition of new protein domains by coronaviruses: analysis of overlapping genes coding for proteins N and 9b in SARS coronavirus Shukla, Aditi; Hilgenfeld, Rolf 2014 2014-11-20 PMC N PMC7089080 25410051.0 10.1007/s11262-014-1139-8 sykkypar 0.425600 Lamb_1991, Morikawa_1992, Firth_2009, Hatfield_1990, Luytjes_1988 Firth_2009
478 Pyrc_2004 Genome structure and transcriptional regulation of human coronavirus NL63 Pyrc, Krzysztof; Jebbink, Maarten F; Berkhout, Ben; van der Hoek, Lia 2004 2004-11-17 COMM-USE N PMC538260 15548333.0 10.1186/1743-422x-1-7 qg0fsliy 0.425320 Auewarakul_2005, Rice_1992, Volmer_2010, Payne_2017, Banerjee_2001 Toshio_1989, Salim_2008, Wang_2009
479 Lomonossoff_2008 Cowpea Mosaic Virus Lomonossoff, G.P. 2008 2008-12-31 PMC N PMC7149649 10.1016/b978-012374410-4.00562-8 8yvpr8fc 0.425019 Ryu_W_2017, Rice_1992, den_Boon_2010, Modrow_2013 Goldberg_1991, Walker_2011
480 Lu_H_2009 Cymbidium mosaic potexvirus isolate-dependent host movement systems reveal two movement control determinants and the coat protein is the dominant Lu, Hsiang-Chia; Chen, Cheng-En; Tsai, Meng-Hsiun; Wang, Hsiang-iu; Su, Hong-Ji; Yeh, Hsin-Hung 2009 2009-05-25 PMC N PMC7103407 19345971.0 10.1016/j.virol.2009.02.049 wgu5cd0y 0.424716 Rice_1992, Volmer_2010, Li_Z_2009, Li_Z_2010, Stork_2011 Wu_H_2004, Tamborindeguy_2013
481 Kocherhans_2001 Completion of the Porcine Epidemic Diarrhoea Coronavirus (PEDV) Genome Sequence Kocherhans, Rolf; Bridgen, Anne; Ackermann, Mathias; Tobler, Kurt 2001 2001-01-01 PMC N PMC7089135 11724265.0 10.1023/a:1011831902219 1jgqofbr 0.424553 Luytjes_1988, Morikawa_1992, Firth_2009, Lamb_1991 Ren_X_2008, Goldberg_1991, Zhang_2007
482 Csibra_2014 Modulation of Stop Codon Read-Through Efficiency and Its Effect on the Replication of Murine Leukemia Virus Csibra, Eszter; Brierley, Ian; Irigoyen, Nerea 2014 2014-09-23 COMM-USE N PMC4178896 24991001.0 10.1128/jvi.00898-14 z04xb7uv 0.424464 Rice_1992, Lamb_1991, Stork_2011, Morikawa_1992, Lee_W_2018 Masante_2015
483 Wu_T_2009 IRSS: a web-based tool for automatic layout and analysis of IRES secondary structure prediction and searching system in silico Wu, Tzong-Yuan; Hsieh, Chi-Chun; Hong, Jun-Jie; Chen, Chung-Yung; Tsai, Yuh-Show 2009 2009-05-27 COMM-USE N PMC2698906 19473520.0 10.1186/1471-2105-10-160 wt0lvhfl 0.424409 Martínez-Salas_2008, Cheng_2013, Lamb_1991, Lee_C_2017 Hong_2013, Fajardo_2012, Yang_2015
484 Irigoyen_2016 High-Resolution Analysis of Coronavirus Gene Expression by RNA Sequencing and Ribosome Profiling Irigoyen, Nerea; Firth, Andrew E.; Jones, Joshua D.; Chung, Betty Y.-W.; Siddell, Stuart G.; Brierley, Ian 2016 2016-02-26 COMM-USE N PMC4769073 26919232.0 10.1371/journal.ppat.1005473 c1lykari 0.422578 Rice_1992, Ryu_W_2017, Lamb_1991, Tallmadge_2008, Armesto_2007 Cook_2018
485 Königs_2020 SRSF7 maintains its homeostasis through the expression of Split-ORFs and nuclear body assembly Königs, Vanessa; de Oliveira Freitas Machado, Camila; Arnold, Benjamin; Blümel, Nicole; Solovyeva, Anfisa; Löbbert, Sinah; Schafranek, Michal; Ruiz De Los Mozos, Igor; Wittig, Ilka; McNicoll, Francois; Schulz, Marcel H.; Müller-McNicoll, Michaela 2020 2020-03-02 PMC N PMC7096898 32123389.0 10.1038/s41594-020-0385-9 0dab3c2u 0.422487 Blank_2017, Ivanova_2015, Yasuda-Inoue_2013, Abernathy_2015 Sasvari_2011, Choudhury_2017
486 FENNER_1987 CHAPTER 28 Coronaviridae FENNER, FRANK; BACHMANN, PETER A.; GIBBS, E. PAUL J.; MURPHY, FREDERICK A.; STUDDERT, MICHAEL J.; WHITE, DAVID O. 1987 1987-12-31 PMC N PMC7149976 10.1016/b978-0-12-253055-5.50032-3 smmrl5i6 0.422116 Lu_P_2016, Ryu_W_2017, Rice_1992, Auewarakul_2005, Wang_2015 Park_2007, Valle-Casuso_2020, Jordan_2018
487 Zhang_2005 De novo RNA synthesis and homology modeling of the classical swine fever virus RNA polymerase Zhang, Pengwei; Xie, Jian; Yi, Guanghui; Zhang, Chuyu; Zhou, Rong 2005 2005-09-30 PMC N PMC7126667 16022897.0 10.1016/j.virusres.2005.03.003 13h5aigg 0.421909 Pong_2011, Stork_2011, Kang_2009, Meyerson_2017, Gorbalenya_1988 Tzeng_2006, Zhou_2011, Potisopon_2014
488 Sasvari_2009 Inhibition of RNA Recruitment and Replication of an RNA Virus by Acridine Derivatives with Known Anti-Prion Activities Sasvari, Zsuzsanna; Bach, Stéphane; Blondel, Marc; Nagy, Peter D. 2009 2009-10-13 COMM-USE N PMC2757906 19823675.0 10.1371/journal.pone.0007376 a0df1fhw 0.421704 Stork_2011, Rice_1992, den_Boon_2010, Meyerson_2017, Yasuda-Inoue_2013 Wilde_2019
489 Pantopoulos_1994 The Role of the 5′ Untranslated Region of Eukaryotic Messenger RNAs in Translation and Its Investigation Using Antisense Technologies Pantopoulos, Kostas; Johansson, Hans E.; Hentze, Matthias W. 1994 1994-12-31 PMC N 7938549.0 10.1016/s0079-6603(08)60856-9 h0bwyerl 0.421037 Trobaugh_2017, Moon_2012, Haasnoot_2010, Wang_2007, Somers_2013 Byszewska_2015, Gutiérrez-Escolano_2003
490 Huggett_2007 Influenza A Huggett, Kathryn D.; Knoop, Floyd C. 2007 2007-12-31 PMC N PMC7152446 10.1016/b978-008055232-3.60922-5 zojb3cew 0.420912 Ryu_W_2017, Crowe_2014, Belshan_2014, Belshan_2014 Belshan_2014
491 Garcia_2018 Accounting for Programmed Ribosomal Frameshifting in the Computation of Codon Usage Bias Indices Garcia, Victor; Zoller, Stefan; Anisimova, Maria 2018 2018-08-23 COMM-USE N PMC6169388 30111621.0 10.1534/g3.118.200185 u99o8mde 0.420339 Wu_G_2005, Morikawa_1992, Gu_W_2004, Wang_2007, Plant_2013 Goz_E_2017, Leuven_2020, Cassan_1990
492 Zheng_2010 Recombinant PRRSV expressing porcine circovirus sequence reveals novel aspect of transcriptional control of porcine arterivirus Zheng, Haihong; Sun, Zhi; Zhu, Xing-Quan; Long, Jinxue; Lu, Jiaqi; Lv, Jian; Yuan, Shishan 2010 2010-03-31 PMC N PMC7114387 19951727.0 10.1016/j.virusres.2009.11.014 vvcpfsj2 0.420171 Rice_1992, Armesto_2007, Tallmadge_2008, Bickerton_2017, Keep_2014 Ren_X_2008, Song_2011
493 Bujarski_2013 Genetic recombination in plant-infecting messenger-sense RNA viruses: overview and research perspectives Bujarski, Jozef J. 2013 2013-03-26 COMM-USE N PMC3607795 23533000.0 10.3389/fpls.2013.00068 salby0fu 0.419628 Rice_1992, den_Boon_2010, Stork_2011, Trobaugh_2017, Payne_2017 Adams_2003
494 Makino_1984 Analysis of genomic and intracellular viral RNAs of small plaque mutants of mouse hepatitis virus, JHM strain Makino, Shinji; Taguchi, Fumihiro; Hirano, Norio; Fujiwara, Kosaku 1984 1984-11-30 PMC N PMC7119021 6093379.0 10.1016/0042-6822(84)90335-0 ahxwa34k 0.418156 Rice_1992, Banerjee_2001, Auewarakul_2005, Armesto_2007, Stork_2011
495 Dye_C_2007 Genomic RNA sequence of feline coronavirus strain FCoV C1Je Dye, Charlotte; Siddell, Stuart G. 2007 2007-06-30 PMC N PMC2582377 17363313.0 10.1016/j.jfms.2006.12.002 wkg56xeq 0.418043 Armesto_2007, Keep_2014, Bickerton_2017, Keep_2015, Rice_1992 Ren_X_2008, Di_Martino_2009
496 Payne_2017 Chapter 17 Family Coronaviridae Payne, Susan 2017 2017-12-31 PMC N PMC7149805 10.1016/b978-0-12-803109-4.00017-9 b8gi4m3k 0.417722 Ryu_W_2017, Crowe_2014, Modrow_2013, den_Boon_2010, Payne_2017 Gorbalenya_2006, Enjuanes_2008, Sun_D_2016
497 Meyer_2007 Identification of a novel protein encoded by the latency-related gene of bovine herpesvirus 1 Meyer, Florencia; Perez, Sandra; Jiang, Yunquan; Zhou, You; Henderson, Gail; Jones, Clinton 2007 2007-01-01 PMC N PMC7095411 18097888.0 10.1080/13550280701620754 gjm9dml1 0.417019 Volmer_2010, Tallmadge_2008, Wurch_1991, Armesto_2007 Tzeng_2006, Goldberg_1991
498 Shabman_2013 An Upstream Open Reading Frame Modulates Ebola Virus Polymerase Translation and Virus Replication Shabman, Reed S.; Hoenen, Thomas; Groseth, Allison; Jabado, Omar; Binning, Jennifer M.; Amarasinghe, Gaya K.; Feldmann, Heinz; Basler, Christopher F. 2013 2013-01-31 COMM-USE N PMC3561295 23382680.0 10.1371/journal.ppat.1003147 wncab2qc 0.416056 Lamb_1991, Gendron_2010, Rice_1992, Yasuda-Inoue_2013, Morikawa_1992 Gao_F_2012, Tzeng_2006
499 Oh_S_1993 Gene regulation: translational initiation by internal ribosome binding Oh, Soo-Kyung; Sarnow, Peter 1993 1993-12-31 PMC N 8504255.0 10.1016/0959-437x(93)90037-p siscssho 0.415868 Trobaugh_2017, Martínez-Salas_2008, Dubois_2016, Ivanova_2015 Gopinath_2015, Guerrero_2015
500 Limanskaya_2013 Search for the new potential RNA thermometers in the genome of Salmonella enterica Limanskaya, O. Yu.; Murtazaeva, L. A.; Limanskii, A. P. 2013 2013-02-17 PMC N PMC7089039 10.1134/s0026261713010062 gpz7giuv 0.415432 Rice_1992, Staple_2005, Payne_2017, Stork_2011, Auewarakul_2005 Limanskaya_2013, Singleton_2018
501 Rakauskaitė_2011 A rapid, inexpensive yeast-based dual-fluorescence assay of programmed—1 ribosomal frameshifting for high-throughput screening Rakauskaitė, Rasa; Liao, Pei-Yu; Rhodin, Michael H. J.; Lee, Kelvin; Dinman, Jonathan D. 2011 2011-05-20 NONCOMM N PMC3152369 21602263.0 10.1093/nar/gkr382 mib0dy32 0.415045 Berkhout_2006, Trobaugh_2017, Rice_1992, Haasnoot_2010, Moon_2012 van_der_Linden_2014, Sasvari_2011
502 Price_2019 Novel splicing and open reading frames revealed by long-read direct RNA sequencing of adenovirus transcripts Alexander M. Price; Katharina E. Hayer; Daniel P. Depledge; Angus C. Wilson; Matthew D. Weitzman 2019 2019-12-13 BioRxiv N 10.1101/2019.12.13.876037 2fcl6f4i 0.414457 Lamb_1991, Rice_1992, Trobaugh_2017, Stork_2011 Tzeng_2006, Bhullar_2014
503 Rowley_2016 XRN1 Is a Species-Specific Virus Restriction Factor in Yeasts Rowley, Paul A.; Ho, Brandon; Bushong, Sarah; Johnson, Arlen; Sawyer, Sara L. 2016 2016-10-06 COMM-USE N PMC5053509 27711183.0 10.1371/journal.ppat.1005890 uvvstxf6 0.414141 Yasuda-Inoue_2013, Stork_2011, Rice_1992, den_Boon_2010 Rowley_2016, Case_2017
504 Sun_Z_2010 Identification of dispensable nucleotide sequence in 3′ untranslated region of porcine reproductive and respiratory syndrome virus Sun, Zhi; Liu, Changlong; Tan, Feifei; Gao, Fei; Liu, Ping; Qin, Aijian; Yuan, Shishan 2010 2010-12-31 PMC N PMC7114379 20833212.0 10.1016/j.virusres.2010.08.027 wifkhnkz 0.413947 Rice_1992, Armesto_2007, Morikawa_1992, Bickerton_2017 Gao_F_2012
505 Bratlie_2005 Bioinformatic mapping of AlkB homology domains in viruses Bratlie, Marit S; Drabløs, Finn 2005 2005-01-03 COMM-USE N PMC544882 15627404.0 10.1186/1471-2164-6-1 4k8f7ou1 0.413670 Rice_1992, Gorbalenya_1988, den_Boon_2010, Taschuk_2020, Mushegian_2018 Deng_2019, Zhang_2015
506 Yamanaka_1998 Nucleotide Sequence of the Inter-Structural Gene Region of Feline Infectious Peritonitis Virus Yamanaka, Miles; Crisp, Tracey; Brown, Rhonda; Dale, Beverly 1998 1998-01-01 PMC N PMC7088554 9654687.0 10.1023/a:1008099209942 y8xvh6hs 0.413592 Luytjes_1988, Kocherhans_2001, Morikawa_1992, Firth_2009 Liu_S_2008, Ren_X_2008, De_Groot_1988, O'Connor_1999
507 Moustafa_2011 Molecular Dynamics Simulations of Viral RNA Polymerases Link Conserved and Correlated Motions of Functional Elements to Fidelity Moustafa, Ibrahim M.; Shen, Hujun; Morton, Brandon; Colina, Coray M.; Cameron, Craig E. 2011 2011-07-01 None N PMC3114172 21575642.0 10.1016/j.jmb.2011.04.078 f25vti5y 0.412815 Stork_2011, den_Boon_2010, Pong_2011, Lin_X_2015, Rice_1992 YU_W_1995, Zhou_2011
508 Seemann_2008 Unifying evolutionary and thermodynamic information for RNA folding of multiple alignments Seemann, Stefan E.; Gorodkin, Jan; Backofen, Rolf 2008 2008-10-04 None N PMC2582601 18836192.0 10.1093/nar/gkn544 wtvfow2f 0.412723 Chang_2011, Saw_A_2019, Lee_C_2017, Qi_Z_2018, Dai_Q_2012 Fricke_2019
509 Robertson_1999 Chapter 2 Virus Origins Conjoined RNA Genomes as Precursors to DNA Genomes Robertson, Hugh D.; Neel, Olivia D. 1999 1999-12-31 PMC N PMC7155586 10.1016/b978-012220360-2/50003-9 zqnczjpp 0.412357 Trobaugh_2017, Rice_1992, den_Boon_2010, Wu_B_2009, Stork_2011 Adams_2003, Diaz_2012, Tzeng_2006
510 Li_D_2019 Conserved microsatellites may contribute to stem-loop structures in 5′, 3′ terminals of Ebolavirus genomes Li, Douyue; Zhang, Hongxi; Peng, Shan; Pan, Saichao; Tan, Zhongyang 2019 2019-06-30 PMC N PMC7092875 31078274.0 10.1016/j.bbrc.2019.04.192 n46p8acw 0.411648 Auewarakul_2005, Lamb_1991, Hyde_2015, Rice_1992
511 Lee_C_2011 The solution structure of coronaviral stem-loop 2 (SL2) reveals a canonical CUYG tetraloop fold Lee, Chul Won; Li, Lichun; Giedroc, David P. 2011 2011-04-06 PMC N PMC3086565 21382373.0 10.1016/j.febslet.2011.03.002 ehwdg722 0.411648 Pong_2011, Morikawa_1992, Gorbalenya_1988, Lin_X_2015, Kang_2009 Brandmann_2015, Li_L_2008
512 Grossoehme_2009 Coronavirus N Protein N-Terminal Domain (NTD) Specifically Binds the Transcriptional Regulatory Sequence (TRS) and Melts TRS-cTRS RNA Duplexes Grossoehme, Nicholas E.; Li, Lichun; Keane, Sarah C.; Liu, Pinghua; Dann, Charles E.; Leibowitz, Julian L.; Giedroc, David P. 2009 2009-12-04 None N PMC2783395 19782089.0 10.1016/j.jmb.2009.09.040 62vgvjz0 0.410433 Pong_2011, Stork_2011, Yasuda-Inoue_2013, Kang_2009, Meyerson_2017 Bhullar_2014, Masters_1992
513 Lehmann_2015 What we know but do not understand about nidovirus helicases Lehmann, Kathleen C.; Snijder, Eric J.; Posthuma, Clara C.; Gorbalenya, Alexander E. 2015 2015-04-16 PMC N PMC7114383 25497126.0 10.1016/j.virusres.2014.12.001 av4mt6rg 0.410370 den_Boon_2010, Yasuda-Inoue_2013, Taschuk_2020, Gorbalenya_1988, Stork_2011 Xia_H_2015
514 Zhang_1997 Recombinant Genomic RNA of Coronavirus MHV-A59 after Coreplication with a DI RNA Containing the MHV-RI Spike Gene Zhang, Linong; Homberger, Felix; Spaan, Willy; Luytjes, Willem 1997 1997-03-31 PMC N PMC7130785 9126265.0 10.1006/viro.1997.8460 s3hval1a 0.410110 Rice_1992, Banerjee_2001, Armesto_2007, Stork_2011, Brown_1984 Nowak_1984
515 Kim_H_2019 RNA-dependent RNA polymerase speed and fidelity are not the only determinants of the mechanism or efficiency of recombination Hyejeong Kim; Victor D. Ellis; Andrew Woodman; Yan Zhao; Jamie J. Arnold; Craig E. Cameron 2019 2019-09-14 BioRxiv N 10.1101/769224 ljz7rfny 0.409841 Stork_2011, den_Boon_2010, Volmer_2010, Berkhout_2006, Trobaugh_2017 Kim_H_2019
516 Marquez-Jurado_2015 Identification of a Gamma Interferon-Activated Inhibitor of Translation-Like RNA Motif at the 3′ End of the Transmissible Gastroenteritis Coronavirus Genome Modulating Innate Immune Response Marquez-Jurado, Silvia; Nogales, Aitor; Zuñiga, Sonia; Enjuanes, Luis; Almazán, Fernando 2015 2015-03-10 NONCOMM N PMC4453530 25759500.0 10.1128/mbio.00105-15 9aaxxh07 0.409650 Meyerson_2017, Yasuda-Inoue_2013, Kang_2009, Stork_2011, Pong_2011 YU_W_1995
517 Zirkel_2011 An Insect Nidovirus Emerging from a Primary Tropical Rainforest Zirkel, Florian; Kurth, Andreas; Quan, Phenix-Lan; Briese, Thomas; Ellerbrok, Heinz; Pauli, Georg; Leendertz, Fabian H.; Lipkin, W. Ian; Ziebuhr, John; Drosten, Christian; Junglen, Sandra 2011 2011-06-14 NONCOMM N PMC3111606 21673192.0 10.1128/mbio.00077-11 ulwo6i38 0.409120 Li_D_2019, Auewarakul_2005, Ryu_W_2017, Firth_2009, Dolja_2006 Becker_2019, Wu_Z_2018
518 Lili_1992 Lactate dehydrogenase-elevating virus (LDV): subgenomic mRNAs, mRNA leader and comparison of 3'-terminal sequences of two LDV isolates Lili, Kuo; Zongyu, Chen; Rowland, Raymond R.R.; Faaberg, Kay S.; Plagemann, Peter G.W. 1992 1992-04-30 PMC N PMC7133880 1604932.0 10.1016/0168-1702(92)90067-j kfmbo6gz 0.408209 Luytjes_1988, Firth_2009, Krause_1987, Jendrach_2014, Rott_1991 Godeny_1990, Faaberg_1996, Goldberg_1991
519 Gao_J_2010 Inverse folding of RNA pseudoknot structures Gao, James ZM; Li, Linda YM; Reidys, Christian M 2010 2010-06-23 COMM-USE N PMC2909241 20573197.0 10.1186/1748-7188-5-27 1lojd0xa 0.407500 Dawson_2007, Staple_2005, Chang_2011, Dost_2006, Qi_Z_2018 Guo_Y_2013
520 Okuno_2013 Chapter Two Molecular Biology and Epidemiology of Dianthoviruses Okuno, Tetsuro; Hiruki, Chuji 2013 2013-12-31 PMC N PMC7150339 23809920.0 10.1016/b978-0-12-407698-3.00002-8 pz5hj1r9 0.407143 Rice_1992, den_Boon_2010, Ryu_W_2017, Wang_2018 Sun_D_2016, Walker_2011, Goldberg_1991, Bhat_2011
521 Cheley_1981 Intracellular murine hepatitis virus-specific RNAs contain common sequences Cheley, Steve; Anderson, Robert; Cupples, Margaret J.; Lee Chan, Edwin C.M.; Morris, Vincent L. 1981 1981-07-30 PMC N PMC7131256 6114592.0 10.1016/0042-6822(81)90305-6 lfx2a3qi 0.407143 Stork_2011, Rice_1992, Banerjee_2001, Mizutani_2000, Chen_2013 Nowak_1984
522 Liu_D_1992 Identification of two new polypeptides encoded by mRNA5 of the coronavirus infectious bronchitis virus Liu, D.X.; Inglis, S.C. 1992 1992-01-31 PMC N PMC7130825 1309280.0 10.1016/0042-6822(92)90094-6 3tpyj04y 0.406771 Rice_1992, Lamb_1991, Stork_2011, Shen_2005, Volmer_2010 Tzeng_2006
523 Rangan_2020 De novo 3D models of SARS-CoV-2 RNA elements and small-molecule-binding RNAs to guide drug discovery Ramya Rangan; Andrew M. Watkins; Wipapat Kladwang; Rhiju Das 2020 2020-04-15 BioRxiv Y 10.1101/2020.04.14.041962 7gm92gau 0.403800 Morikawa_1992, Lamb_1991, Staple_2005, Hyde_2015, Naito_2007
524 Meier_2006 The Crystal Structure of ORF-9b, a Lipid Binding Protein from the SARS Coronavirus Meier, Christoph; Aricescu, A. Radu; Assenberg, Rene; Aplin, Robin T.; Gilbert, Robert J.C.; Grimes, Jonathan M.; Stuart, David I. 2006 2006-07-31 None N PMC7126280 16843897.0 10.1016/j.str.2006.05.012 kpnpb0fp 0.402714 UNKNOWN_1987, Morikawa_1992, Volmer_2010, Krause_1987, Lamb_1991
525 Fang_2016 Identification and subcellular localization of porcine deltacoronavirus accessory protein NS6 Fang, Puxian; Fang, Liurong; Liu, Xiaorong; Hong, Yingying; Wang, Yongle; Dong, Nan; Ma, Panpan; Bi, Jing; Wang, Dang; Xiao, Shaobo 2016 2016-12-31 PMC N PMC7111631 27661736.0 10.1016/j.virol.2016.09.015 6sjhbrb1 0.402574 Volmer_2010, Yasuda-Inoue_2013, Pong_2011, Stork_2011, Li_C_2013
526 Gomaa_2008 Complete genomic sequence of turkey coronavirus Gomaa, M.H.; Barta, J.R.; Ojkic, D.; Yoo, D. 2008 2008-08-31 PMC N PMC7114504 18468711.0 10.1016/j.virusres.2008.03.020 sl5zy8nj 0.401891 Yamanaka_1998, Luytjes_1988, Kocherhans_2001, Jendrach_2014, Firth_2009 Firth_2009, De_Groot_1988, Zhang_2007
527 Lulla_2019 A hidden gene in astroviruses encodes a cell-permeabilizing protein involved in virus release Valeria Lulla; Andrew E. Firth 2019 2019-06-06 BioRxiv N 10.1101/661579 avq3zwmc 0.401698 Rice_1992, Ryu_W_2017, Tallmadge_2008, Armesto_2007, den_Boon_2010 Tzeng_2006
528 Ahn_D_2011 Interference of ribosomal frameshifting by antisense peptide nucleic acids suppresses SARS coronavirus replication Ahn, Dae-Gyun; Lee, Wooseong; Choi, Jin-Kyu; Kim, Seong-Jun; Plant, Ewan P.; Almazán, Fernando; Taylor, Deborah R.; Enjuanes, Luis; Oh, Jong-Won 2011 2011-07-31 None N PMC4728714 21549154.0 10.1016/j.antiviral.2011.04.009 9yh8y9ac 0.401698 Stork_2011, Meyerson_2017, Rice_1992, Kang_2009, Pong_2011 Bhullar_2014, Tzeng_2006
529 Zhang_2011 Spliced Leader RNAs, Mitochondrial Gene Frameshifts and Multi-Protein Phylogeny Expand Support for the Genus Perkinsus as a Unique Group of Alveolates Zhang, Huan; Campbell, David A.; Sturm, Nancy R.; Dungan, Christopher F.; Lin, Senjie 2011 2011-05-24 COMM-USE N PMC3101222 21629701.0 10.1371/journal.pone.0019933 ee7lhyzr 0.401590 Jiang_2007, Krause_1987, Li_D_2019, Firth_2009 Milhausen_1984, Firth_2009, Goldberg_1991
530 Salim_2008 Functional Analysis of the 5′ Genomic Sequence of a Bovine Norovirus Salim, Omar; Clarke, Ian N.; Lambden, Paul R. 2008 2008-05-14 COMM-USE N PMC2364642 18478070.0 10.1371/journal.pone.0002169 7jszm1nd 0.401300 Volmer_2010, Kang_2009, Stork_2011, Vennema_1991, Morikawa_1992 Goldberg_1991, Ren_X_2008, Tzeng_2006
531 Harrington_2019 Cotranslational Folding Stimulates Programmed Ribosomal Frameshifting in the Alphavirus Structural Polyprotein Haley R. Harrington; Matthew H. Zimmer; Laura M. Chamness; Veronica Nash; Wesley D. Penn; Thomas F. Miller; Suchetana Mukhopadhyay; Jonathan P. Schlebach 2019 2019-10-02 BioRxiv N 10.1101/790444 4ju3x2bf 0.400396 Dubois_2016, Trobaugh_2017, Stork_2011, Ivarsson_2012, Morikawa_1992
532 Espinosa-Hernández_2014 PTB Binds to the 3’ Untranslated Region of the Human Astrovirus Type 8: A Possible Role in Viral Replication Espinosa-Hernández, Wendy; Velez-Uriza, Dora; Valdés, Jesús; Vélez-Del Valle, Cristina; Salas-Benito, Juan; Martínez-Contreras, Rebeca; García-Espítia, Matilde; Salas-Benito, Mariana; Vega-Almeida, Tania; De Nova-Ocampo, Mónica 2014 2014-11-18 COMM-USE N PMC4236132 25406089.0 10.1371/journal.pone.0113113 apbs2ltb 0.400330 Volmer_2010, Stork_2011, Kang_2009, Meyerson_2017, Yasuda-Inoue_2013 Gutiérrez-Escolano_2003
533 Decroly_2017 Biochemical principles and inhibitors to interfere with viral capping pathways Decroly, Etienne; Canard, Bruno 2017 2017-06-30 PMC N 28527860.0 10.1016/j.coviro.2017.04.003 hj2b1wc4 0.398463 Stork_2011, Trobaugh_2017, Rice_1992, Herbert_2016, Yasuda-Inoue_2013 Chemudupati_2019, Sasvari_2009, Chen_2016
534 Meyers_1991 Viral cytopathogenicity correlated with integration of ubiquitin-coding sequences Meyers, Gregor; Tautz, Norbert; Dubovi, Edward J.; Thiel, Heinz-Jürgen 1991 1991-02-28 PMC N 1846490.0 10.1016/0042-6822(91)90074-l m6bk5li8 0.398069 Rice_1992, Armesto_2007, Payne_2017, Bickerton_2017
535 Bhullar_2014 Cytoplasmic Translocation of Polypyrimidine Tract-Binding Protein and Its Binding to Viral RNA during Japanese Encephalitis Virus Infection Inhibits Virus Replication Bhullar, Deepika; Jalodia, Richa; Kalia, Manjula; Vrati, Sudhanshu 2014 2014-12-29 COMM-USE N PMC4278868 25545659.0 10.1371/journal.pone.0114931 35xqgbut 0.398008 Stork_2011, Meyerson_2017, Yasuda-Inoue_2013, Rice_1992, Pong_2011 YU_W_1995
536 Li_Z_2009 Translation Elongation Factor 1A is a component of the tombusvirus replicase complex and affects the stability of the p33 replication co-factor Li, Zhenghe; Pogany, Judit; Panavas, Tadas; Xu, Kai; Esposito, Anthony M.; Kinzy, Terri Gross; Nagy, Peter D. 2009 2009-03-01 PMC N PMC2785496 19131084.0 10.1016/j.virol.2008.11.041 06qfbvlr 0.397822 Stork_2011, Yasuda-Inoue_2013, Rice_1992, Li_Z_2010 Sasvari_2011, Li_Z_2010
537 Goldsmith_2016 Selective Preference of Parallel DNA Triplexes Is Due to the Disruption of Hoogsteen Hydrogen Bonds Caused by the Severe Nonisostericity between the G*GC and T*AT Triplets Goldsmith, Gunaseelan; Rathinavelan, Thenmalarchelvi; Yathindra, Narayanarao 2016 2016-03-24 COMM-USE N PMC4807104 27010368.0 10.1371/journal.pone.0152102 tqx420oa 0.397752 Kierzek_2006, Fernando_2008, Karaman_2005, Guo_Y_2013, Brierley_1991 Cornish_2006, Rao_T_2018, Scrima_2004
538 Boursnell_1984 Sequence of the membrane protein gene from avian coronavirus IBV Boursnell, M.E.G.; Brown, T.D.K.; Binns, M.M. 1984 1984-12-31 PMC N PMC7134033 6099661.0 10.1016/0168-1702(84)90019-4 f9otvby6 0.396860 Luytjes_1988, Firth_2009, Krause_1987, Morikawa_1992 Raabe_1989, Ling_1995
539 Zhang_2013 Enhancement of accuracy and efficiency for RNA secondary structure prediction by sequence segmentation and MapReduce Zhang, Boyu; Yehdego, Daniel T; Johnson, Kyle L; Leung, Ming-Ying; Taufer, Michela 2013 2013-11-08 COMM-USE N PMC3952952 24564983.0 10.1186/1472-6807-13-s1-s3 p1i7bx94 0.396540 Chang_2011, Saw_A_2019, Lee_C_2017, Dai_Q_2012, Qi_Z_2018 Suresh_2015, Yamasaki_2019, Low_J_2010, Sperschneider_2012
540 Pong_2011 RNA binding property and RNA chaperone activity of dengue virus core protein and other viral RNA-interacting proteins Pong, Wen-Li; Huang, Zhi-Shun; Teoh, Pak-Guan; Wang, Chung-Chun; Wu, Huey-Nan 2011 2011-08-19 None N PMC7164067 21771593.0 10.1016/j.febslet.2011.06.038 rwqxl2yj 0.393026 Stork_2011, Yasuda-Inoue_2013, Meyerson_2017, Kang_2009
541 Hoet_2008 Torovirus Hoet, A.E.; Horzinek, M.C. 2008 2008-12-31 PMC N PMC7148633 10.1016/b978-012374410-4.00516-1 moljceje 0.392956 Crowe_2014, Lu_P_2016, Ryu_W_2017, Lvov_2015, Wang_2015 Stewart_2018, Draker_2006, Stewart_2018, Pignatelli_2009
542 Leibowitz_1981 The virus-specific intracellular RNA species of two murine coronaviruses: MHV-A59 and MHV-JHM Leibowitz, Julian L.; Wilhelmsen, Kirk C.; Bond, Clifford W. 1981 1981-10-15 PMC N PMC7131044 7281517.0 10.1016/0042-6822(81)90250-6 999kewdw 0.392685 Rice_1992, Stork_2011, Banerjee_2001, Mizutani_2000, Payne_2017 Nowak_1984, Baric_1985
543 Gutiérrez-Escolano_2003 La, PTB, and PAB proteins bind to the 3′ untranslated region of Norwalk virus genomic RNA Gutiérrez-Escolano, Ana Lorena; Vázquez-Ochoa, Melina; Escobar-Herrera, Jaime; Hernández-Acosta, Javier 2003 2003-11-21 PMC N PMC7111188 14623338.0 10.1016/j.bbrc.2003.10.066 hm8d42fq 0.391836 Yasuda-Inoue_2013, Stork_2011, Kang_2009, Trobaugh_2017, Blank_2017
544 Belew_2015 Cell cycle control (and more) by programmed −1 ribosomal frameshifting: implications for disease and therapeutics Belew, Ashton T; Dinman, Jonathan D 2015 2015-01-13 NONCOMM N PMC4615106 25584829.0 10.4161/15384101.2014.989123 8xob5edz 0.390244 Trobaugh_2017, Haasnoot_2010, Atianand_2014, Berkhout_2006, Abernathy_2015 Chemudupati_2019
545 Furuichi_2000 Viral and cellular mRNA capping: Past and prospects Furuichi, Yasuhiro; Shatkin, Aaron J 2000 2000-12-31 PMC N 11050942.0 10.1016/s0065-3527(00)55003-9 syu4nnf7 0.390244 Trobaugh_2017, Krause_1987, Moon_2012, Wang_2007, Dubois_2016 Byszewska_2015, Chen_2016
546 Ren_W_2013 Complete genome sequence of acute viral necrosis virus associated with massive mortality outbreaks in the Chinese scallop, Chlamys farreri Ren, Weicheng; Chen, Haixia; Renault, Tristan; Cai, Yuyong; Bai, Changming; Wang, Chongming; Huang, Jie 2013 2013-04-08 COMM-USE N PMC3623871 23566284.0 10.1186/1743-422x-10-110 m1ujexeb 0.389276 Luytjes_1988, Rott_1991, Firth_2009, Tohya_1991, Godeny_1990 Ren_X_2008, Goldberg_1991
547 Adedeji_2016 Biochemical Characterization of Middle East Respiratory Syndrome Coronavirus Helicase Adedeji, Adeyemi O.; Lazarus, Hilary 2016 2016-09-07 COMM-USE Y PMC5014916 27631026.0 10.1128/msphere.00235-16 mr1orklo 0.389160 Stork_2011, Pong_2011, Yasuda-Inoue_2013, Meyerson_2017, den_Boon_2010
548 González_2003 A comparative sequence analysis to revise the current taxonomy of the family Coronaviridae González, J. M.; Gomez-Puertas, P.; Cavanagh, D.; Gorbalenya, A. E.; Enjuanes, Luis 2003 2003-01-01 PMC N PMC7087110 14579179.0 10.1007/s00705-003-0162-1 3ain627u 0.389115 Chieochansin_2010, Zheng_2008, Auewarakul_2005, Gorbalenya_1988, Dolja_2006 Fahmi_2020, Niemeyer_2018
549 Kolchanov_1996 Chemical and Computer Probing of RNA Structure 1 Kolchanov, N.A.; Titov, I.I.; Vlassova, I.E.; Vlassov, V.V. 1996 1996-12-31 PMC N 8650302.0 10.1016/s0079-6603(08)60144-0 xuxlw4c0 0.387974 Staple_2005, Wu_B_2009, Stork_2011, Martínez-Salas_2008, Wang_2017 Myllykoski_2017, Byszewska_2015
550 Hedges_1996 Genetic variation in open reading frame 2 of field isolates and laboratory strains of equine arteritis virus Hedges, Jodi F.; Balasuriya, Udeni B.R.; Timoney, Peter J.; McCollum, William H.; MacLachlan, N.James 1996 1996-06-30 PMC N PMC7133956 8806173.0 10.1016/0168-1702(96)01294-4 6r7d5n3l 0.387620 Si_F_2020, Luytjes_1988, Volmer_2010, Rice_1992, Auewarakul_2005 Ren_X_2008
551 Wu_H_2003 Common RNA replication signals exist among group 2 coronaviruses: evidence for in vivo recombination between animal and human coronavius molecules Wu, Hung-Yi; Guy, James S; Yoo, Dongwan; Vlasak, Reinhard; Urbach, Ena; Brian, David A 2003 2003-10-10 PMC N PMC7126556 14592769.0 10.1016/s0042-6822(03)00511-7 2l4xxu3v 0.386249 Ryu_W_2017, Rice_1992, Crowe_2014, Tallmadge_2008, Armesto_2007 Kazakov_2015
552 Qin_J_2014 Graph-distance distribution of the Boltzmann ensemble of RNA secondary structures Qin, Jing; Fricke, Markus; Marz, Manja; Stadler, Peter F; Backofen, Rolf 2014 2014-09-11 None N PMC4181469 25285153.0 10.1186/1748-7188-9-19 bifebnwt 0.386061 Chang_2011, Qi_Z_2018, Polverino_2017, Kirillova_2009, Dawson_2007 Backofen_2013, Borodavka_2016, Gupta_2019, Fricke_2019
553 UNKNOWN_1991 Isolation, characterization, and expression of cDNAs encoding murine alpha-mannosidase II, a Golgi enzyme that controls conversion of high mannose to complex N-glycans None 1991 1991-12-02 NONCOMM N PMC2289207 1757461.0 qrg1rtzi 0.385603 UNKNOWN_1987, UNKNOWN_1993, Krause_1987, Luytjes_1988, Wurch_1991 Faaberg_1996, UNKNOWN_1995
554 Chen_2016 Molecular mechanisms of coronavirus RNA capping and methylation Chen, Yu; Guo, Deyin 2016 2016-02-02 PMC N PMC7091378 26847650.0 10.1007/s12250-016-3726-4 eljk918r 0.385148 Rice_1992, den_Boon_2010, Trobaugh_2017, Stork_2011, Yasuda-Inoue_2013 Gopinath_2015, Bouvet_2010, Byszewska_2015
555 Cassan_1990 Expression vectors for quatitating in vivo translational ambiguity: Their potential use to analyse frameshifting at the HIV gag-pol junction Cassan, M.; Berteaux, V.; Angrand, P.-O.; Rousset, J.-P. 1990 1990-12-31 PMC N PMC7135639 2087598.0 10.1016/0923-2516(90)90033-f 7elri6u3 0.385030 Morikawa_1992, Lamb_1991, Brake_2008, Gendron_2010, Hatfield_1990 Satyanarayana_2003
556 Majerciak_2018 Detection of Viral RNA Splicing in Diagnostic Virology Majerciak, Vladimir; Zheng, Zhi-Ming 2018 2018-11-10 PMC N PMC7121103 10.1007/978-3-319-95111-9_15 86ptuyn8 0.384902 Rice_1992, Banerjee_2001, Lamb_1991, Stork_2011 Masante_2015, Zambenedetti_2017
557 Baranov_2009 Sequences Promoting Recoding Are Singular Genomic Elements Baranov, Pavel V.; Gurvich, Olga 2009 2009-07-21 PMC N PMC7122551 10.1007/978-0-387-89382-2_14 tzn5y0z2 0.384140 Francis_2016, Li_D_2019, Gardner_2004, Lee_C_2017 Walker_2011, Narra_2008, Firth_2011
558 Brierley_2006 Programmed ribosomal frameshifting in HIV-1 and the SARS–CoV Brierley, Ian; Dos Ramos, Francisco J. 2006 2006-07-31 PMC N PMC7114087 16310880.0 10.1016/j.virusres.2005.10.008 2wuc5yiu 0.384140 Rice_1992, Tallmadge_2008, Potgieter_1986, Trobaugh_2017, Ryu_W_2017 Sun_D_2016, Case_2017
559 Galán_2009 Host cell proteins interacting with the 3′ end of TGEV coronavirus genome influence virus replication Galán, Carmen; Sola, Isabel; Nogales, Aitor; Thomas, Benjamin; Akoulitchev, Alexandre; Enjuanes, Luis; Almazán, Fernando 2009 2009-09-01 PMC N PMC7118768 19580983.0 10.1016/j.virol.2009.06.006 6ghod65y 0.382637 Yasuda-Inoue_2013, Stork_2011, Meyerson_2017, Pong_2011, Kang_2009 Tzeng_2006, Bhullar_2014
560 Ryu_W_2017 Chapter 16 Other Negative-Strand RNA Viruses Ryu, Wang-Shick 2017 2017-12-31 PMC N PMC7150163 10.1016/b978-0-12-800838-6.00016-3 59emvigh 0.380356 Davaro_2013, Crowe_2014, Lu_P_2016, Tallmadge_2008 Wulan_2015
561 Bartas_2020 In-depth Bioinformatic Analyses of Human SARS-CoV-2, SARS-CoV, MERS-CoV, and Other Nidovirales Suggest Important Roles of Noncanonical Nucleic Acid Structures in Their Lifecycles Martin Bartas; Václav Brázda; Natália Bohálová; Alessio Cantara; Adriana Volná; Tereza Stachurová; Kateřina Malachová; Eva B. Jagelská; Otília Porubiaková; Jiří Červeň; Petr Pečinka 2020 2020-04-11 BioRxiv Y 10.1101/2020.04.09.031252 d3q0xel1 0.379107 Hyde_2015, Liu_Y_2009, Gorbalenya_1988, Krause_1987, Trobaugh_2017 Wang_2009, Han_M_2008, Terasaki_2016
562 Muller_2017 Nuclease escape elements protect messenger RNA against cleavage by multiple viral endonucleases Muller, Mandy; Glaunsinger, Britt A. 2017 2017-08-25 COMM-USE N PMC5589255 28841715.0 10.1371/journal.ppat.1006593 3tieiaiq 0.378811 Yasuda-Inoue_2013, Trobaugh_2017, Stork_2011, Herbert_2016, Meyerson_2017 Muller_2017, Mendez_2018, Bhullar_2014
563 te_Velthuis_2011 The SARS-coronavirus nsp7+nsp8 complex is a unique multimeric RNA polymerase capable of both de novo initiation and primer extension te Velthuis, Aartjan J.W.; van den Worm, Sjoerd H. E.; Snijder, Eric J. 2011 2011-10-29 NONCOMM N PMC3287201 22039154.0 10.1093/nar/gkr893 tx0lqgff 0.378331 Stork_2011, Pong_2011, Kang_2009, Meyerson_2017, Yasuda-Inoue_2013 Ahn_D_2012, Subissi_2014
564 Decroly_2011 Conventional and unconventional mechanisms for capping viral mRNA Decroly, Etienne; Ferron, François; Lescar, Julien; Canard, Bruno 2011 2011-12-05 PMC N PMC7097100 22138959.0 10.1038/nrmicro2675 a08rw6bp 0.378311 Stork_2011, Yasuda-Inoue_2013, Rice_1992, Herbert_2016, Trobaugh_2017 Chen_2016, Byszewska_2015, Gopinath_2015, Bhullar_2014
565 Nirwan_2019 Chapter 11 Rhinovirus RNA Polymerase Structure, Function, and Inhibitors Nirwan, Sonam; Kakkar, Rita 2019 2019-12-31 PMC N 10.1016/b978-0-12-815422-9.00011-5 qx0qdjmt 0.378041 Stork_2011, Pong_2011, Rice_1992, Lin_X_2015, Payne_2017
566 Zhang_2019 A Reverse Genetics System for Cypovirus Based on a Bacmid Expressing T7 RNA Polymerase Zhang, Gaobo; Yang, Jian; Qin, Fujun; Xu, Congrui; Wang, Jia; Lei, Chengfeng; Hu, Jia; Sun, Xiulian 2019 2019-04-01 COMM-USE N PMC6521135 30939777.0 10.3390/v11040314 ski6wx48 0.377660 Armesto_2007, Bickerton_2017, Keep_2014, Keep_2015, Rice_1992 Zhang_2010, Tzeng_2006
567 Jia_H_2019 A Structure-Function Diversity Survey of the RNA-Dependent RNA Polymerases From the Positive-Strand RNA Viruses Jia, Hengxia; Gong, Peng 2019 2019-08-22 COMM-USE N PMC6713929 31507560.0 10.3389/fmicb.2019.01945 0bnfugdm 0.377311 Gorbalenya_1988, Stork_2011, Rice_1992, Pong_2011, Payne_2017 Zhou_2011, Xia_H_2015
568 Nallagatla_2013 Native Tertiary Structure and Nucleoside Modifications Suppress tRNA’s Intrinsic Ability to Activate the Innate Immune Sensor PKR Nallagatla, Subba Rao; Jones, Christie N.; Ghosh, Saikat Kumar B.; Sharma, Suresh D.; Cameron, Craig E.; Spremulli, Linda L.; Bevilacqua, Philip C. 2013 2013-03-04 COMM-USE N PMC3587421 23483938.0 10.1371/journal.pone.0057905 d0a8oib4 0.377311 Stork_2011, Yasuda-Inoue_2013, Blank_2017, Meyerson_2017, Herbert_2016 Abbas_2013
569 Lin_D_1991 Evolutionary relatedness of the predicted gene product of RNA segment 2 of the Tick-Borne Dhori virus and the PB1 polymerase gene of influenza viruses Lin, Debby A.; Roychoudhury, Sonali; Palese, Peter; Clay, William C.; Fuller, Frederick J. 1991 1991-05-31 PMC N PMC7131129 2024457.0 10.1016/0042-6822(91)90641-n a647hwu9 0.376586 Luytjes_1988, Tohya_1991, Gorbalenya_1988, Firth_2009, Volmer_2010 Nowak_1984
570 Li_C_2007 A Sabin 1 poliovirus-based vaccine vector transfects Vero cells with high efficiency Li, Changgui; Han, Wei; Zhang, Yingqi; Wang, Junzhi 2007 2007-07-01 PMC N PMC2267503 19003009.0 10.1007/s10616-007-9085-0 aw1g82bc 0.376226 Rice_1992, Armesto_2007, Bickerton_2017, Keep_2015, Keep_2014 Brun_2014, Hao_H_2008
571 Dinman_1998 Translating old drugs into new treatments: ribosomal frameshifting as a target for antiviral agents Dinman, Jonathan D; Ruiz-Echevarria, Maria J; Peltz, Stuart W 1998 1998-04-01 PMC N PMC7127214 9586242.0 10.1016/s0167-7799(97)01167-0 wqi4z0ne 0.373484 Rice_1992, Trobaugh_2017, Stork_2011, Gaucherand_2019 Drappier_2015, Kwong_2005
572 Rice_1992 Examples of expression systems based on animal RNA viruses: Alphaviruses and influenza virus Rice, Charles M. 1992 1992-10-31 PMC N 1369402.0 10.1016/0958-1669(92)90081-s 4ih3d2d1 0.373484 Tallmadge_2008, den_Boon_2010, Stork_2011, Ryu_W_2017 Tzeng_2006, Ahlquist_2005
573 Hewson_2007 Molecular Epidemiology, Genomics, and Phylogeny of Crimean-Congo Hemorrhagic Fever Virus Hewson, Roger 2007 2007-01-01 PMC N PMC7121233 10.1007/978-1-4020-6106-6_5 y3d9ghel 0.373201 Crowe_2014, Ryu_W_2017, Lvov_2015, Davaro_2013 Ikegami_2011, Dowall_2015, Weber_2008, Lachheb_2019
574 Luque_2009 Infectious Bursal Disease Virus: Ribonucleoprotein Complexes of a Double-Stranded RNA Virus Luque, Daniel; Saugar, Irene; Rejas, María Teresa; Carrascosa, José L.; Rodríguez, José F.; Castón, José R. 2009 2009-02-27 PMC N 19063900.0 10.1016/j.jmb.2008.11.029 ax8ybkcr 0.372967 Stork_2011, Rice_1992, Pong_2011, den_Boon_2010, Yasuda-Inoue_2013
575 Hori_2016 Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension Hori, Naoto; Denesyuk, Natalia A.; Thirumalai, D. 2016 2016-07-01 PMC N PMC5590673 27315694.0 10.1016/j.jmb.2016.06.002 x28cxlm3 0.372610 Guo_Y_2013, Chan_2016, Morikawa_1992, Qi_Z_2018, Hatfield_1990 Hori_2016, Cornish_2006
576 Brierley_2003 V, 2.Ribosomal frameshifting in astroviruses Brierley, Ian; Vidakovic, Marijana 2003 2003-12-31 PMC N PMC7133818 10.1016/s0168-7069(03)09035-9 wjcp0asf 0.372108 Trobaugh_2017, Haasnoot_2010, Moon_2012, Berkhout_2006 Sun_D_2016
577 Walker_2015 Evolution of Genome Size and Complexity in the Rhabdoviridae Walker, Peter J.; Firth, Cadhla; Widen, Steven G.; Blasdell, Kim R.; Guzman, Hilda; Wood, Thomas G.; Paradkar, Prasad N.; Holmes, Edward C.; Tesh, Robert B.; Vasilakis, Nikos 2015 2015-02-13 COMM-USE N PMC4334499 25679389.0 10.1371/journal.ppat.1004664 5d64esp4 0.370663 Auewarakul_2005, Li_D_2019, Francis_2016, Rice_1992, Lamb_1991 Walker_2011, Goldberg_1991
578 Chastain_1991 Structural Elements in RNA Chastain, Michael; Tinoco, Ignacio 1991 1991-12-31 PMC N 10.1016/s0079-6603(08)60008-2 4eu9v5d3 0.370438 Staple_2005, Liu_Y_2009, Zúñiga_2009, Martínez-Salas_2008 Kolchanov_1996, Järvelin_2016
579 Brinton_2008 Arteriviruses Brinton, M.A.; Snijder, E.J. 2008 2008-12-31 PMC N PMC7149349 10.1016/b978-012374410-4.00537-9 4spjox0r 0.369446 Ryu_W_2017, Crowe_2014, Lu_P_2016, Tallmadge_2008, Rice_1992 Valle-Casuso_2020, Glaser_1997
580 De_Nova-Ocampo_2018 Human astroviruses: in silico analysis of the untranslated region and putative binding sites of cellular proteins De Nova-Ocampo, Mónica; Soliman, Mayra Cristina; Espinosa-Hernández, Wendy; Velez-del Valle, Cristina; Salas-Benito, Juan; Valdés-Flores, Jesús; García-Morales, Lorena 2018 2018-11-17 PMC N PMC7089336 30448895.0 10.1007/s11033-018-4498-8 e99fw336 0.369446 Hyde_2015, Yasuda-Inoue_2013, Lamb_1991, Trobaugh_2017, Morikawa_1992 Gutiérrez-Escolano_2003
581 Soowannayan_2011 RNA-Binding Domain in the Nucleocapsid Protein of Gill-Associated Nidovirus of Penaeid Shrimp Soowannayan, Chumporn; Cowley, Jeff A.; Michalski, Wojtek P.; Walker, Peter J. 2011 2011-08-03 COMM-USE N PMC3153931 21857914.0 10.1371/journal.pone.0022156 4nhy35xn 0.369330 Pong_2011, Stork_2011, Gorbalenya_1988, Kang_2009, Luytjes_1988 Masters_1992, Bhat_2011, Zhang_2015
582 Tuplin_2011 Replication enhancer elements within the open reading frame of tick-borne encephalitis virus and their evolution within the Flavivirus genus Tuplin, A.; Evans, D. J.; Buckley, A.; Jones, I. M.; Gould, E. A.; Gritsun, T. S. 2011 2011-05-27 NONCOMM N PMC3303483 21622960.0 10.1093/nar/gkr237 0aiaklrn 0.368384 Rice_1992, Volmer_2010, Ryu_W_2017, Tallmadge_2008, den_Boon_2010 Tzeng_2006, Brun_2014
583 Backofen_2013 Distribution of Graph-Distances in Boltzmann Ensembles of RNA Secondary Structures Backofen, Rolf; Fricke, Markus; Marz, Manja; Qin, Jing; Stadler, Peter F. 2013 2013-01-01 PMC N PMC7114971 10.1007/978-3-642-40453-5_10 p46abodr 0.368371 Chang_2011, Kirillova_2009, Qi_Z_2018, Dawson_2007, Polverino_2017 Qin_J_2014, Borodavka_2016, Fricke_2019, Gupta_2019
584 Roux_1991 Effects of Defective Interfering Viruses on Virus Replication and Pathogenesis In Vitro and In Vivo Roux, Laurent; Simon, Anne E.; Holland, John J. 1991 1991-12-31 PMC N 1957718.0 10.1016/s0065-3527(08)60279-1 e4e0jt5s 0.367669 Rice_1992, den_Boon_2010, Auewarakul_2005, Ryu_W_2017, Payne_2017 Makino_1988, Tzeng_2006, Pathak_2009
585 Opuu_2017 Computational design of fully overlapping coding schemes for protein pairs and triplets Opuu, Vaitea; Silvert, Martin; Simonson, Thomas 2017 2017-11-20 COMM-USE N PMC5696523 29158504.0 10.1038/s41598-017-16221-8 d86hnox1 0.366493 Krause_1987, Chang_2011, Morikawa_1992, Lee_C_2017, Firth_2009 Firth_2009, Lin_T_2004, Goldberg_1991
586 Patil_2018 Incorporating uracil and 5-halouracils into short peptide nucleic acids for enhanced recognition of A–U pairs in dsRNAs Patil, Kiran M; Toh, Desiree-Faye Kaixin; Yuan, Zhen; Meng, Zhenyu; Shu, Zhiyu; Zhang, Haiping; Ong, Alan Ann Lerk; Krishna, Manchugondanahalli S; Lu, Lanyuan; Lu, Yunpeng; Chen, Gang 2018 2018-09-06 None N PMC6125629 30011039.0 10.1093/nar/gky631 lm7r3o3n 0.363874 Stork_2011, Kierzek_2006, Fernando_2008, Pong_2011, Guo_Y_2013 Pradeepkumar_2012
587 Jang_2008 Isolation of inhibitory RNA aptamers against severe acute respiratory syndrome (SARS) coronavirus NTPase/Helicase Jang, Kyoung Jin; Lee, Na-Ra; Yeo, Woon-Seok; Jeong, Yong-Joo; Kim, Dong-Eun 2008 2008-02-15 PMC N PMC7092905 18082623.0 10.1016/j.bbrc.2007.12.020 98ebhx0b 0.363206 Stork_2011, Banerjee_2001, Lin_X_2015, Pong_2011, Gorbalenya_1988 Choong_2014
588 Yu_Q_1992 Cloning and sequencing of the matrix protein (M) gene of turkey rhinotracheitis virus reveal a gene order different from that of respiratory syncytial virus Yu, Q.; Davis, P.J.; Li, J.; Cavanagh, D. 1992 1992-02-29 PMC N PMC7131020 1733097.0 10.1016/0042-6822(92)90007-c dgwpwiii 0.362271 Armesto_2007, Firth_2009, Keep_2015, Bickerton_2017, Keep_2014 Ren_X_2008, Zhang_2010
589 Diaz_2011 Bromovirus RNA Replication Compartment Formation Requires Concerted Action of 1a's Self-Interacting RNA Capping and Helicase Domains Diaz, Arturo; Gallei, Andreas; Ahlquist, Paul 2011 2011-11-16 PMC N PMC3255829 22090102.0 10.1128/jvi.05684-11 0mtqlnog 0.359813 Stork_2011, Gomis-Rüth_2003, den_Boon_2010, Pong_2011 Bhullar_2014
590 Zeng_2020 Leveraging mRNAs sequences to express SARS-CoV-2 antigens in vivo Chunxi Zeng; Xucheng Hou; Jingyue Yan; Chengxiang Zhang; Wenqing Li; Weiyu Zhao; Shi Du; Yizhou Dong 2020 2020-04-05 BioRxiv Y 10.1101/2020.04.01.019877 aju2nr9x 0.359573 Lamb_1991, Wang_2007, Trobaugh_2017, Naito_2007, Haasnoot_2010 Wang_2009, Das_D_2006
591 Snijder_2016 Chapter Three The Nonstructural Proteins Directing Coronavirus RNA Synthesis and Processing Snijder, E.J.; Decroly, E.; Ziebuhr, J. 2016 2016-12-31 PMC N PMC7112286 27712628.0 10.1016/bs.aivir.2016.08.008 bh198xgl 0.359561 Rice_1992, den_Boon_2010, Stork_2011, Yasuda-Inoue_2013, Payne_2017 Posthuma_2017
592 te_Velthuis_2009 The RNA polymerase activity of SARS-coronavirus nsp12 is primer dependent te Velthuis, Aartjan J. W.; Arnold, Jamie J.; Cameron, Craig E.; van den Worm, Sjoerd H. E.; Snijder, Eric J. 2009 2009-10-29 NONCOMM N PMC2800238 19875418.0 10.1093/nar/gkp904 oa24d6ic 0.359484 Stork_2011, Pong_2011, Meyerson_2017, Yasuda-Inoue_2013, Rice_1992 Ahn_D_2012
593 Miller_2006 Long-Distance RNA-RNA Interactions in Plant Virus Gene Expression and Replication Miller, W. Allen; White, K. Andrew 2006 2006-09-01 PMC N PMC1894749 16704356.0 10.1146/annurev.phyto.44.070505.143353 avd20f45 0.358386 Trobaugh_2017, Rice_1992, den_Boon_2010, Haasnoot_2010 Bhullar_2014, Wu_B_2009
594 Cotton_2006 The VPgPro protein of Turnip mosaic virus: In vitro inhibition of translation from a ribonuclease activity Cotton, Sophie; Dufresne, Philippe J.; Thivierge, Karine; Ide, Christine; Fortin, Marc G. 2006 2006-07-20 PMC N 16647732.0 10.1016/j.virol.2006.03.019 sxhrkozi 0.358226 Stork_2011, Yasuda-Inoue_2013, Rice_1992, Meyerson_2017, Li_Z_2010
595 Dawson_1990 Regulation of Tobamovirus Gene Expression Dawson, William O.; Lehto, Kirsi M. 1990 1990-12-31 PMC N 2220472.0 10.1016/s0065-3527(08)60865-9 kozzq3h9 0.357618 Rice_1992, Lamb_1991, Trobaugh_2017, Auewarakul_2005, Wang_2007
596 Yin_W_2020 Structural Basis for the Inhibition of the RNA-Dependent RNA Polymerase from SARS-CoV-2 by Remdesivir Wanchao Yin; Chunyou Mao; Xiaodong Luan; Dan-Dan Shen; Qingya Shen; Haixia Su; Xiaoxi Wang; Fulai Zhou; Wenfeng Zhao; Minqi Gao; Shenghai Chang; Yuan-Chao Xie; Guanghui Tian; He-Wei Jiang; Sheng-Ce Tao; Jingshan Shen; Yi Jiang; Hualiang Jiang; Yechun Xu; Shuyang Zhang; Yan Zhang; H. Eric Xu 2020 2020-04-09 BioRxiv Y 10.1101/2020.04.08.032763 7v7pzclb 0.356857 Stork_2011, Pong_2011, Meyerson_2017, Lin_X_2015, den_Boon_2010 Ahn_D_2012, Dinesh_2020, Gao_Y_2020
597 Penzes_2001 Complete Genome Sequence of Transmissible Gastroenteritis Coronavirus PUR46-MAD Clone and Evolution of the Purdue Virus Cluster Penzes, Zoltan; González, Jose M.; Calvo, Enrique; Izeta, Ander; Smerdou, Cristian; Méndez, Ana; Sánchez, Carlos M.; Sola, Isabel; Almazán, Fernando; Enjuanes, Luis 2001 2001-01-01 PMC N PMC7088808 11556396.0 10.1023/a:1011147832586 ay4kqfne 0.355875 Rice_1992, Gorbalenya_1988, Ryu_W_2017, Luytjes_1988, Armesto_2007 Ren_X_2008
598 Achuthan_2015 Alternative divalent cations (Zn(2+), Co(2+), and Mn(2+)) are not mutagenic at conditions optimal for HIV-1 reverse transcriptase activity Achuthan, Vasudevan; DeStefano, Jeffrey J 2015 2015-05-03 COMM-USE N PMC4472245 25934642.0 10.1186/s12858-015-0041-x iexd5qn5 0.355304 David_2013, Abou-Hamdan_2018, Largo_2016, Choudhury_2011, Stork_2011 Pahonțu_2015, Yang_2010, Sticher_2020
599 McDonald_2013 RNA synthetic mechanisms employed by diverse families of RNA viruses McDonald, Sarah M. 2013 2013-04-18 PMC N PMC7169773 23606593.0 10.1002/wrna.1164 cnwfvtfo 0.354724 Stork_2011, Rice_1992, den_Boon_2010, Yasuda-Inoue_2013, Payne_2017
600 Masaki_2015 miR-122 Stimulates Hepatitis C Virus RNA Synthesis by Altering the Balance of Viral RNAs Engaged in Replication versus Translation Masaki, Takahiro; Arend, Kyle C.; Li, You; Yamane, Daisuke; McGivern, David R.; Kato, Takanobu; Wakita, Takaji; Moorman, Nathaniel J.; Lemon, Stanley M. 2015 2015-02-11 None N PMC4326553 25662750.0 10.1016/j.chom.2014.12.014 pmdera3v 0.354696 Yasuda-Inoue_2013, Stork_2011, Liu_H_2009, Meyerson_2017 Masante_2015, Bhullar_2014, Liu_H_2009
601 Khromykh_1996 RNA binding properties of core protein of the flavivirus Kunjin Khromykh, A. A.; Westaway, E. G. 1996 1996-01-01 PMC N PMC7086803 8645104.0 10.1007/bf01718326 66t5fjld 0.354489 Pong_2011, Stork_2011, Luytjes_1988, Banerjee_2001, Vennema_1991 Goldberg_1991, Zhou_2000
602 Murphy_2010 Sequence–function analysis of the Sendai virus L protein domain VI Murphy, Andrea M.; Moerdyk-Schauwecker, Megan; Mushegian, Arcady; Grdzelishvili, Valery Z. 2010 2010-09-30 PMC N PMC2923248 20609457.0 10.1016/j.virol.2010.06.019 l5y3qkde 0.352861 Gorbalenya_1988, Stork_2011, Pong_2011, Kang_2009, Rice_1992 Masante_2015, Godeny_1990, Zhou_2011
603 Auewarakul_2005 Composition bias and genome polarity of RNA viruses Auewarakul, Prasert 2005 2005-04-30 PMC N PMC7114242 15826910.0 10.1016/j.virusres.2004.10.004 je6oe1h4 0.352798 Rice_1992, Banerjee_2001, Payne_2017, den_Boon_2010 Masante_2015
604 Low_J_2010 SHAPE-Directed RNA Secondary Structure Prediction Low, Justin T.; Weeks, Kevin M. 2010 2010-10-01 PMC N PMC2941709 20554050.0 10.1016/j.ymeth.2010.06.007 tv8hi2wy 0.349630 Dawson_2007, Chang_2011, Liou_2013, Dai_Q_2012 Yang_2015, Kolchanov_1996
605 Han_Y_2009 Identification and functional characterization of regions that can be crosslinked to RNA in the helicase-like domain of BaMV replicase Han, Yu-Tsung; Hsu, Yau-Heiu; Lo, Chia-Wen; Meng, Menghsiao 2009 2009-07-05 PMC N PMC7134557 19443005.0 10.1016/j.virol.2009.04.013 k7ujru6t 0.349572 Stork_2011, Volmer_2010, Li_Z_2010, Kang_2009, den_Boon_2010 Someya_2008, Piñón_1997
606 Hatfield_1992 Translational Suppression in Retroviral GENE Expression Hatfield, Dolph L.; Levin, Judith G.; Rein, Alan; Oroszlan, Stephen 1992 1992-12-31 PMC N 1575083.0 10.1016/s0065-3527(08)60037-8 hy8zihx6 0.349491 Rice_1992, den_Boon_2010, Trobaugh_2017, Wang_2018, Berkhout_2006 Nowak_1984, Tzeng_2006, Wulan_2015
607 Sola_2011 RNA-RNA and RNA-protein interactions in coronavirus replication and transcription Sola, Isabel; Mateos-Gomez, Pedro A; Almazan, Fernando; Zuñiga, Sonia; Enjuanes, Luis 2011 2011-03-01 PMC N PMC3230552 21378501.0 10.4161/rna.8.2.14991 kmwncmq8 0.349105 Yasuda-Inoue_2013, Stork_2011, den_Boon_2010, Trobaugh_2017, Ivanova_2015 Bhullar_2014
608 Stewart_2016 Identification of novel RNA secondary structures within the hepatitis C virus genome reveals a cooperative involvement in genome packaging Stewart, H.; Bingham, R.J.; White, S. J.; Dykeman, E. C.; Zothner, C.; Tuplin, A. K.; Stockley, P. G.; Twarock, R.; Harris, M. 2016 2016-03-14 COMM-USE N PMC4789732 26972799.0 10.1038/srep22952 ykog278j 0.348833 Rice_1992, Stork_2011, den_Boon_2010, Pong_2011 Masante_2015, YU_W_1995
609 Xia_H_2015 Human Enterovirus Nonstructural Protein 2C(ATPase) Functions as Both an RNA Helicase and ATP-Independent RNA Chaperone Xia, Hongjie; Wang, Peipei; Wang, Guang-Chuan; Yang, Jie; Sun, Xianlin; Wu, Wenzhe; Qiu, Yang; Shu, Ting; Zhao, Xiaolu; Yin, Lei; Qin, Cheng-Feng; Hu, Yuanyang; Zhou, Xi 2015 2015-07-28 COMM-USE N PMC4517893 26218680.0 10.1371/journal.ppat.1005067 wo462anq 0.348717 Yasuda-Inoue_2013, Stork_2011, den_Boon_2010, Pong_2011, Meyerson_2017
610 Nicolas_2016 POLD1: Central mediator of DNA replication and repair, and implication in cancer and other pathologies Nicolas, Emmanuelle; Golemis, Erica A.; Arora, Sanjeevani 2016 2016-09-15 None N PMC4969162 27320729.0 10.1016/j.gene.2016.06.031 ldblzjzn 0.348573 Blank_2017, Tonzi_2018, Yasuda-Inoue_2013, Stork_2011, Taschuk_2020 Sasvari_2011, Sinigalia_2012, Masante_2015
611 Ferron_2019 Identification of a Nidovirales Orf1a N7-guanine cap Methyltransferase signature-sequence as a genetic marker of large genome Tobaniviridae François Ferron; Humberto Julio Debat; Etienne Decroly; Bruno Canard 2019 2019-05-17 BioRxiv N 10.1101/639369 lnf2mj29 0.347843 Gorbalenya_1988, Stork_2011, Yasuda-Inoue_2013, Pong_2011, Payne_2017
612 Guo_Z_2018 Identification and genomic characterization of a novel CRESS DNA virus from a calf with severe hemorrhagic enteritis in China Guo, Zijing; He, Qifu; Tang, Cheng; Zhang, Bin; Yue, Hua 2018 2018-08-15 PMC N PMC7114660 30040978.0 10.1016/j.virusres.2018.07.015 yr0uxok2 0.347407 Ryu_W_2017, Armesto_2007, Bickerton_2017, Keep_2014, Keep_2015 Ren_X_2008, Lachheb_2019
613 Lawton_2000 Mechanism of genome transcription in segmented dsRNA viruses Lawton, Jeffrey A; Estes, Mary K; Venkataram Prasad, B.V 2000 2000-12-31 PMC N 11050943.0 10.1016/s0065-3527(00)55004-0 bbpmlo3c 0.346989 den_Boon_2010, Rice_1992, Trobaugh_2017, Stork_2011 Wulan_2015, Tzeng_2006
614 Pietilä_2017 Polyprotein Processing as a Determinant for In Vitro Activity of Semliki Forest Virus Replicase Pietilä, Maija K.; Albulescu, Irina C.; van Hemert, Martijn J.; Ahola, Tero 2017 2017-10-07 COMM-USE N PMC5691643 28991178.0 10.3390/v9100292 edpsib9s 0.346818 Stork_2011, Rice_1992, Pong_2011, den_Boon_2010, Banerjee_2001 Tzeng_2006
615 Wada_2018 Interplay between coronavirus, a cytoplasmic RNA virus, and nonsense-mediated mRNA decay pathway Wada, Masami; Lokugamage, Kumari G.; Nakagawa, Keisuke; Narayanan, Krishna; Makino, Shinji 2018 2018-10-08 None N PMC6205489 30297408.0 10.1073/pnas.1811675115 o14tiixx 0.346448 Rice_1992, Yasuda-Inoue_2013, Trobaugh_2017, Meyerson_2017, den_Boon_2010 Case_2017, Thornbrough_2016, Narayanan_2015
616 Strauss_1991 RNA viruses: genome structure and evolution Strauss, Ellen G.; Strauss, James H. 1991 1991-12-31 PMC N PMC7133357 1822281.0 10.1016/s0959-437x(05)80196-0 czmv6itq 0.345179 Rice_1992, Wang_2018, Lamb_1991, Trobaugh_2017 te_Velthuis_2014, Poltronieri_2015
617 Borodavka_2016 Sizes of Long RNA Molecules Are Determined by the Branching Patterns of Their Secondary Structures Borodavka, Alexander; Singaram, Surendra W.; Stockley, Peter G.; Gelbart, William M.; Ben-Shaul, Avinoam; Tuma, Roman 2016 2016-11-15 None N PMC5113152 27851933.0 10.1016/j.bpj.2016.10.014 7jdh882a 0.345143 Staple_2005, Wang_2017, Wu_B_2009, Stork_2011 Baric_1987
618 Castro_2005 Incorporation fidelity of the viral RNA-dependent RNA polymerase: a kinetic, thermodynamic and structural perspective Castro, Christian; Arnold, Jamie J.; Cameron, Craig E. 2005 2005-02-28 PMC N PMC7125856 15649560.0 10.1016/j.virusres.2004.11.004 9c8dj9j7 0.344952 Stork_2011, Rice_1992, den_Boon_2010, Payne_2017, Lin_X_2015 Bhullar_2014
619 Bénard_1996 Pseudoknot and translational control in the expression of the S15 ribosomal protein Bénard, L; Philippe, C; Ehresmann, B; Ehresmann, C; Portier, C 1996 1996-12-31 PMC N PMC7131963 8955900.0 10.1016/s0300-9084(96)80003-4 lds6a5h0 0.344577 Ivanova_2015, Krause_1987, Dubois_2016, Morikawa_1992 Powell_2011, Napthine_2009
620 Diwan_2018 Wobbling Forth and Drifting Back: The Evolutionary History and Impact of Bacterial tRNA Modifications Diwan, Gaurav D; Agashe, Deepa 2018 2018-05-28 NONCOMM N PMC6063277 29846694.0 10.1093/molbev/msy110 igpd93oh 0.344577 Lamb_1991, Wang_2007, Morikawa_1992, Diwan_2018, Krause_1987 Diwan_2018, Belcourt_1990, Popow_2012, van_Weringh_2011
621 Vasquez-Del_Carpio_2006 Histidine Triad-like Motif of the Rotavirus NSP2 Octamer Mediates both RTPase and NTPase Activities Vasquez-Del Carpio, Rodrigo; Gonzalez-Nilo, Fernando D.; Riadi, Gonzalo; Taraporewala, Zenobia F.; Patton, John T. 2006 2006-09-22 None N PMC1924841 16934294.0 10.1016/j.jmb.2006.07.050 3mtfvvfb 0.344240 Stork_2011, Pong_2011, Gorbalenya_1988, Hou_L_2014, Lin_X_2015 Kanitz_2019, Piñón_1997, Someya_2008
622 Hanley_2010 Roles of the respiratory syncytial virus trailer region: Effects of mutations on genome production and stress granule formation Hanley, Laura L.; McGivern, David R.; Teng, Michael N.; Djang, Robin; Collins, Peter L.; Fearns, Rachel 2010 2010-10-01 PMC N PMC2971657 20701943.0 10.1016/j.virol.2010.07.006 gppyv588 0.344226 Rice_1992, Volmer_2010, Meyerson_2017, den_Boon_2010, Stork_2011 Sun_D_2016, Masante_2015
623 Dinan_2019 Comparative analysis of gene expression in virulent and attenuated strains of infectious bronchitis virus at sub-codon resolution Adam M. Dinan; Sarah Keep; Erica Bickerton; Paul Britton; Andrew E. Firth; Ian Brierley 2019 2019-04-18 BioRxiv N 10.1101/612614 yv9or7cu 0.342699 Rice_1992, Trobaugh_2017, Lamb_1991, Auewarakul_2005, Armesto_2007 Ren_X_2008, Dinan_2019
624 Wehrfritz_2007 Reconstitution of bluetongue virus polymerase activity from isolated domains based on a three‐dimensional structural model Wehrfritz, Josa‐marie; Boyce, Mark; Mirza, Sahdia; Roy, Polly 2007 2007-02-23 PMC N PMC7161780 17323325.0 10.1002/bip.20706 nb4uryxk 0.342405 Stork_2011, Pong_2011, Kang_2009, Gorbalenya_1988, Meyerson_2017
625 Keck_1988 Temporal regulation of bovine coronavirus RNA synthesis Keck, James G.; Hogue, Brenda G.; Brian, David A.; Lai, Michael M.C. 1988 1988-03-31 PMC N PMC7134124 3376552.0 10.1016/0168-1702(88)90093-7 fl6h1lrn 0.342205 Banerjee_2001, Stork_2011, Rice_1992, Masaki_2015, Payne_2017 Baric_1987
626 Tchesnokov_2019 Mechanism of Inhibition of Ebola Virus RNA-Dependent RNA Polymerase by Remdesivir Tchesnokov, Egor P.; Feng, Joy Y.; Porter, Danielle P.; Götte, Matthias 2019 2019-04-04 COMM-USE N PMC6520719 30987343.0 10.3390/v11040326 rn3bjc9d 0.342069 Stork_2011, Meyerson_2017, Kang_2009, Pong_2011, Masante_2015 Valle-Casuso_2020, Sidhu_1996, McDonagh_2011
627 Lee_C_2000 Evidence of genetic diversity generated by recombination among avian coronavirus IBV Lee, C.-W.; Jackwood, M. W. 2000 2000-01-01 PMC N PMC7087113 11087096.0 10.1007/s007050070044 msk9p1yy 0.341631 Krause_1987, Auewarakul_2005, Luytjes_1988, Firth_2009 Ren_X_2008, Liu_S_2008, Weiwei_2014
628 Yang_2018 Molecular identification and transcriptional regulation of porcine IFIT2 gene Yang, Xiuqin; Jing, Xiaoyan; Song, Yanfang; Zhang, Caixia; Liu, Di 2018 2018-04-06 PMC N PMC7088635 29623507.0 10.1007/s11033-018-4179-7 91t8f7o1 0.341590 Morikawa_1992, Jendrach_2014, Krause_1987, Luytjes_1988, Firth_2009 Levy_2000, Levy_2000, Ren_X_2008
629 King_1985 Multiple sites of recombination within the RNA genome of foot-and-mouth disease virus King, Andrew M.Q.; McCahon, David; Saunders, Keith; Newman, John W.I.; Slade, William R. 1985 1985-11-30 PMC N 3000107.0 10.1016/0168-1702(85)90437-x 6y452g44 0.341426 Rice_1992, Auewarakul_2005, Volmer_2010, Hao_W_2011
630 Weiss_1993 The ns 4 gene of mouse hepatitis virus (MHV), strain A 59 contains two ORFs and thus differs from ns 4 of the JHM and S strains Weiss, Susan R.; Zoltick, P. W.; Leibowitz, J. L. 1993 1993-01-01 PMC N PMC7087012 8385918.0 10.1007/bf01316905 xh66h2yd 0.341426 Luytjes_1988, Jendrach_2014, Wurch_1991, Firth_2009 O'Connor_1999
631 Britton_1991 The cloning and sequencing of the virion protein genes from a British isolate of porcine respiratory coronavirus: comparison with transmissible gastroenteritis virus genes Britton, Paul; Mawditt, Karen L.; Page, Kevin W. 1991 1991-11-30 PMC N PMC7133898 1662846.0 10.1016/0168-1702(91)90032-q lqbj0lrf 0.338243 Luytjes_1988, Kocherhans_2001, Yamanaka_1998, Tohya_1991, Britton_1990 Yin_J_2005, Nowak_1984, Ren_X_2008
632 Agol_1991 The 5′-Untranslated Region of Picornaviral Genomes Agol, Vadim I. 1991 1991-12-31 PMC N PMC7130636 1957717.0 10.1016/s0065-3527(08)60278-x 8xbl2qtp 0.338048 Ryu_W_2017, Rice_1992, den_Boon_2010, Payne_2017, Auewarakul_2005 Sun_D_2016
633 Lehmann_2015 Arterivirus nsp12 versus the coronavirus nsp16 2′-O-methyltransferase: comparison of the C-terminal cleavage products of two nidovirus pp1ab polyproteins Lehmann, Kathleen C.; Hooghiemstra, Lisa; Gulyaeva, Anastasia; Samborskiy, Dmitry V.; Zevenhoven-Dobbe, Jessika C.; Snijder, Eric J.; Gorbalenya, Alexander E.; Posthuma, Clara C. 2015 2015-09-01 COMM-USE N PMC7081073 26041874.0 10.1099/vir.0.000209 qcezqpze 0.337868 Gorbalenya_1988, Yasuda-Inoue_2013, Pong_2011, Stork_2011, Volmer_2010
634 Laude_1990 Molecular biology of transmissible gastroenteritis virus Laude, Hubert; Rasschaert, Denis; Delmas, Bernard; Godet, Murielle; Gelfi, Jacqueline; Charley, Bernard 1990 1990-06-30 PMC N PMC7117338 2169670.0 10.1016/0378-1135(90)90144-k orlqn5em 0.337546 Rice_1992, Gorbalenya_1988, Volmer_2010, UNKNOWN_1987, Kang_2009 Ren_X_2008, O'Connor_1999
635 Athmer_2018 Selective Packaging in Murine Coronavirus Promotes Virulence by Limiting Type I Interferon Responses Athmer, Jeremiah; Fehr, Anthony R.; Grunewald, Matthew E.; Qu, Wen; Wheeler, D. Lori; Graepel, Kevin W.; Channappanavar, Rudragouda; Sekine, Aimee; Aldabeeb, Dana Saud; Gale, Michael; Denison, Mark R.; Perlman, Stanley 2018 2018-05-01 COMM-USE N PMC5930304 29717007.0 10.1128/mbio.00272-18 geesc6xx 0.337202 Rice_1992, Meyerson_2017, Tallmadge_2008, Stork_2011, den_Boon_2010 Masante_2015, Case_2017
636 Robertson_2004 The Structure of a Rigorously Conserved RNA Element within the SARS Virus Genome Robertson, Michael P; Igel, Haller; Baertsch, Robert; Haussler, David; Ares, Manuel; Scott, William G 2004 2004-12-28 COMM-USE N PMC539059 15630477.0 10.1371/journal.pbio.0030005 p7um7o87 0.335447 Pong_2011, Gorbalenya_1988, Wu_B_2009, Stork_2011, Rice_1992
637 Jarvis_1991 The polymerase in its labyrinth: mechanisms and implications of RNA recombination Jarvis, Thale C.; Kirkegaard, Karla 1991 1991-06-30 PMC N 1712518.0 10.1016/0168-9525(91)90434-r 8guwbmzo 0.335001 Wang_2018, Denison_2008, Trobaugh_2017, den_Boon_2010 te_Velthuis_2014, Gopinath_2015
638 Masters_2005 Coronavirus Reverse Genetics by Targeted RNA Recombination Masters, P. S.; Rottier, P. J. M. 2005 2005-01-01 PMC N PMC7122231 15609511.0 10.1007/3-540-26765-4_5 eh4dij8h 0.334015 Rice_1992, Armesto_2007, Trobaugh_2017, Naito_2007, Keep_2014 Almazán_2007, Tzeng_2006
639 Xie_M_2009 A phage RNA-binding protein binds to a non-cognate structured RNA and stabilizes its core structure Xie, Mao-Hua; Wu, Qi-Jia; Jiang, Yan-Fei; Bao, Penghui; Zhang, Yi 2009 2009-01-09 PMC N PMC7117394 19000653.0 10.1016/j.bbrc.2008.10.160 job4854r 0.333910 Stork_2011, Pong_2011, Blank_2017, Gorbalenya_1988, Hou_L_2014 Masters_1992, Gopinath_2015
640 Puglisi_1990 Conformation of an RNA pseudoknot Puglisi, Joseph D.; Wyatt, Jacqueline R.; Tinoco, Ignacio 1990 1990-07-20 PMC N 1696318.0 10.1016/0022-2836(90)90192-o ps4y6kri 0.333888 Kierzek_2006, Guo_Y_2013, Atkins_1999, Fernando_2008 Cornish_2006, Myllykoski_2017
641 Han_M_2014 Engineering the PRRS virus genome: Updates and perspectives Han, Mingyuan; Yoo, Dongwan 2014 2014-12-05 PMC N 25458419.0 10.1016/j.vetmic.2014.10.007 wkisfz1m 0.333750 Rice_1992, Armesto_2007, Bickerton_2017, Keep_2014, Keep_2015
642 Shu_T_2019 Ebola virus VP35 has novel NTPase and helicase-like activities Shu, Ting; Gan, Tianyu; Bai, Peng; Wang, Xiaotong; Qian, Qi; Zhou, Hui; Cheng, Qi; Qiu, Yang; Yin, Lei; Zhong, Jin; Zhou, Xi 2019 2019-06-20 NONCOMM N PMC6582406 31066445.0 10.1093/nar/gkz340 u3pxycqh 0.333728 Yasuda-Inoue_2013, Stork_2011, Meyerson_2017, Pong_2011, den_Boon_2010 Xia_H_2015
643 Zhang_2007 Genomic characterization of equine coronavirus Zhang, Jianqiang; Guy, James S.; Snijder, Eric J.; Denniston, Doug A.; Timoney, Peter J.; Balasuriya, Udeni B.R. 2007 2007-12-05 PMC N PMC7103287 17706262.0 10.1016/j.virol.2007.06.035 rqfxe0x1 0.333717 Rice_1992, Ryu_W_2017, Armesto_2007, Tallmadge_2008, Lamb_1991 Ren_X_2008
644 Gorbalenya_1989 An NTP-binding motif is the most conserved sequence in a highly diverged monophyletic group of proteins involved in positive strand RNA viral replication Gorbalenya, Alexander E.; Blinov, Vladimir M.; Donchenko, Alexei P.; Koonin, Eugene V. 1989 1989-01-01 PMC N PMC7087505 2522556.0 10.1007/bf02102483 vqjhiv7p 0.333645 Gorbalenya_1988, Volmer_2010, Dolja_2006, Auewarakul_2005, Li_D_2019 Rozanov_1995, Gorbalenya_1991
645 Olia_2008 A shifty stop for a hairy tail Olia, Adam S.; Cingolani, Gino 2008 2008-11-01 PMC N PMC2779026 18826406.0 10.1111/j.1365-2958.2008.06434.x o2zjszj1 0.331257 Morikawa_1992, UNKNOWN_1987, Hatfield_1990, Volmer_2010, Firth_2009 Piñón_1997, Olia_2009
646 Cooper_2014 Ribonuclease L and metal-ion–independent endoribonuclease cleavage sites in host and viral RNAs Cooper, Daphne A.; Jha, Babal K.; Silverman, Robert H.; Hesselberth, Jay R.; Barton, David J. 2014 2014-02-05 None N PMC4005677 24500209.0 10.1093/nar/gku118 btbv4rq0 0.331257 Stork_2011, Pong_2011, Rice_1992, Lin_X_2015, Chen_2013 YU_W_1995, Bhullar_2014
647 Kwak_2011 Annexin A2 Binds RNA and Reduces the Frameshifting Efficiency of Infectious Bronchitis Virus Kwak, Hoyun; Park, Min Woo; Jeong, Sunjoo 2011 2011-08-30 COMM-USE N PMC3168876 21918681.0 10.1371/journal.pone.0024067 uqrwq5qk 0.330948 Yasuda-Inoue_2013, Stork_2011, Meyerson_2017, Pong_2011, Liu_H_2009 Zhang_2015
648 Deng_2013 Structural basis for the regulatory function of a complex zinc-binding domain in a replicative arterivirus helicase resembling a nonsense-mediated mRNA decay helicase Deng, Zengqin; Lehmann, Kathleen C.; Li, Xiaorong; Feng, Chong; Wang, Guoqiang; Zhang, Qi; Qi, Xiaoxuan; Yu, Lin; Zhang, Xingliang; Feng, Wenhai; Wu, Wei; Gong, Peng; Tao, Ye; Posthuma, Clara C.; Snijder, Eric J.; Gorbalenya, Alexander E.; Chen, Zhongzhou 2013 2013-12-24 NONCOMM N PMC3950703 24369429.0 10.1093/nar/gkt1310 471zei5o 0.330824 Gorbalenya_1988, Yasuda-Inoue_2013, Pong_2011, Stork_2011, Hao_W_2017 Xia_H_2015, Kanitz_2019
649 Britton_2006 Sequence of the nucleoprotein gene from a virulent British field isolate of transmissible gastroenteritis virus and its expression in Saccharomyces cerevisiae Britton, P.; Cármenes, R. S.; Page, K. W.; Garwes, D. J.; Parral, F. 2006 2006-10-27 PMC N PMC7168467 28776791.0 10.1111/j.1365-2958.1988.tb00010.x eqzs01au 0.330263 Wurch_1991, Vennema_1991, Luytjes_1988, Armesto_2007, Leibowitz_1988
650 Tuteja_2006 Unraveling the ‘DEAD-box’ helicases of Plasmodium falciparum Tuteja, Renu; Pradhan, Arun 2006 2006-07-05 PMC N PMC7127577 16713133.0 10.1016/j.gene.2006.03.007 rzev5kko 0.330176 Taschuk_2020, Yasuda-Inoue_2013, Gorbalenya_1988, Volmer_2010, Stork_2011 Xu_Z_2012, van_der_Linden_2014
651 Arif_2017 The GAIT Translational Control System Arif, Abul; Yao, Peng; Terenzi, Fulvia; Jia, Jie; Ray, Partho Sarothi; Fox, Paul L. 2017 2017-11-20 PMC N PMC5815886 29152905.0 10.1002/wrna.1441 2tmsxja8 0.329971 Blank_2017, Ivanova_2015, Yasuda-Inoue_2013, Siu_Y_2008, Shi_S_2000 Marquez-Jurado_2015, Ezelle_2016
652 Meulenberg_1995 Characterization of proteins encoded by ORFs 2 to 7 of Lelystad virus Meulenberg, Janneke J.M.; Petersen-Den Besten, Annelien; De Kluyver, Eric P.; Moormann, Rob J.M.; Schaaper, Wim M.M.; Wensvoort, Gert 1995 1995-01-10 PMC N PMC7130653 7831770.0 10.1016/s0042-6822(95)80030-1 27fd59qe 0.329738 Luytjes_1988, Rice_1992, Vennema_1991, Wurch_1991, Nagesha_2001 Nowak_1984, Goldberg_1991
653 Hsin_2018 Nucleocapsid protein-dependent assembly of the RNA packaging signal of Middle East respiratory syndrome coronavirus Hsin, Wei-Chen; Chang, Chan-Hua; Chang, Chi-You; Peng, Wei-Hao; Chien, Chung-Liang; Chang, Ming-Fu; Chang, Shin C. 2018 2018-05-24 COMM-USE N PMC5966903 29793506.0 10.1186/s12929-018-0449-x lcu1mgno 0.329470 Tallmadge_2008, Rice_1992, Pong_2011, Stork_2011, Meyerson_2017 Bhullar_2014, Neufeldt_2016
654 Haimovich_2020 Identification and enrichment of SECReTE cis-acting RNA elements in the Coronaviridae and other (+) single-strand RNA viruses Gal Haimovich; Tsviya Olender; Camila Baez; Jeffrey E Gerst 2020 2020-04-20 BioRxiv Y 10.1101/2020.04.20.050088 2bh5j5p0 0.328508 Yasuda-Inoue_2013, Volmer_2010, Rice_1992, Stork_2011, den_Boon_2010
655 Ortego_2003 Transmissible gastroenteritis coronavirus gene 7 is not essential but influences in vivo virus replication and virulence Ortego, Javier; Sola, Isabel; Almazán, Fernando; Ceriani, Juan E; Riquelme, Cristina; Balasch, Monica; Plana, Juan; Enjuanes, Luis 2003 2003-03-30 PMC N PMC7126239 12706086.0 10.1016/s0042-6822(02)00096-x oxyzndsj 0.327678 Rice_1992, Armesto_2007, Bickerton_2017, Keep_2015, Keep_2014 Tzeng_2006
656 Tonzi_2018 Translesion polymerase kappa-dependent DNA synthesis underlies replication fork recovery Tonzi, Peter; Yin, Yandong; Lee, Chelsea Wei Ting; Rothenberg, Eli; Huang, Tony T 2018 2018-11-13 COMM-USE N PMC6251625 30422114.0 10.7554/elife.41426 ivl1e9vd 0.327678 Blank_2017, Stork_2011, den_Boon_2010, Meyerson_2017 Sasvari_2011
657 Garcia_2014 Nonsense-Mediated Decay Serves as a General Viral Restriction Mechanism in Plants Garcia, Damien; Garcia, Shahinez; Voinnet, Olivier 2014 2014-09-10 PMC N 25155460.0 10.1016/j.chom.2014.08.001 xkcqo86y 0.327519 Rice_1992, Trobaugh_2017, Herbert_2016, Berkhout_2006, Stork_2011 Case_2017, Chemudupati_2019, Sasvari_2009
658 Kai_Z_2019 An efficient simulated annealing algorithm for the RNA secondary structure prediction with Pseudoknots Kai, Zhang; Yuting, Wang; Yulin, Lv; Jun, Liu; Juanjuan, He 2019 2019-12-27 COMM-USE N PMC6933665 31881969.0 10.1186/s12864-019-6300-2 9z8z03rp 0.327519 Polverino_2017, Saw_A_2019, Chang_2011, Qi_Z_2018 Kai_Z_2018, Sperschneider_2012
659 Ryu_W_2017 Chapter 13 Other Positive-Strand RNA Viruses Ryu, Wang-Shick 2017 2017-12-31 PMC N PMC7149767 10.1016/b978-0-12-800838-6.00013-8 8m3vrjyr 0.327519 Lu_P_2016, Ryu_W_2017, Crowe_2014, Davaro_2013, Lvov_2015 Wulan_2015, Bhullar_2014
660 Sakai_1991 Mitochondrial mutations restricting spontaneous translational frameshift suppression in the yeast Saccharomyces cerevisiae Sakai, Hajime; Stiess, Renate; Weiss-Brummer, Brigitte 1991 1991-01-01 PMC N PMC7088400 1648170.0 10.1007/bf00259684 p4mhvogk 0.326409 Morikawa_1992, Wang_2007, Krause_1987, Volmer_2010, Wu_G_2005 Weiss-Brummer_1995, Satyanarayana_2003
661 Monceyron_2014 Molecular characterisation of the 3′-end of the astrovirus genome Monceyron, C.; Grinde, B.; Jonassen, T. Ø. 2014 2014-04-02 PMC N PMC7087294 9170498.0 10.1007/s007050050112 a8g3hba9 0.325749 Luytjes_1988, Callison_1999, Auewarakul_2005, Rice_1992, Gorbalenya_1988 Godeny_1990, Lapps_1987, Goldberg_1991, Lin_T_2004
662 Väre_2017 Chemical and Conformational Diversity of Modified Nucleosides Affects tRNA Structure and Function Väre, Ville Y. P.; Eruysal, Emily R.; Narendran, Amithi; Sarachan, Kathryn L.; Agris, Paul F. 2017 2017-03-16 COMM-USE N PMC5372741 28300792.0 10.3390/biom7010029 xva1qkrd 0.325749 Staple_2005, Trobaugh_2017, Martínez-Salas_2008, Zúñiga_2009, Stork_2011 Byszewska_2015, Scrima_2004, Kolchanov_1996
663 Mondal_2004 Comparison of four regions in the replicase gene of heterologous infectious bronchitis virus strains Mondal, Shankar P; Cardona, Carol J 2004 2004-06-20 PMC N PMC7125564 15183070.0 10.1016/j.virol.2004.03.032 78m8ylz5 0.325342 Rice_1992, Luytjes_1988, Gorbalenya_1988, Zhou_2011, Armesto_2007 Tzeng_2006
664 Sarnowska_2007 Hairpin structure within the 3′UTR of DNA polymerase β mRNA acts as a post-transcriptional regulatory element and interacts with Hax-1 Sarnowska, Elżbieta; Grzybowska, Ewa A.; Sobczak, Krzysztof; Konopiński, Ryszard; Wilczyńska, Anna; Szwarc, Maria; Sarnowski, Tomasz J.; Krzyżosiak, Włodzimierz J.; Siedlecki, Janusz A. 2007 2007-08-17 NONCOMM N PMC2018635 17704138.0 10.1093/nar/gkm502 l92nlegt 0.325165 Blank_2017, Ivanova_2015, Yasuda-Inoue_2013, Trobaugh_2017, Abernathy_2015
665 Mishra_2014 Unfolding of in planta activity of anti‐rep ribozyme in presence of a RNA silencing suppressor Mishra, Sumona Karjee; Chilakamarthi, Ushasri; Deb, J.K.; Mukherjee, Sunil Kumar 2014 2014-05-21 PMC N PMC7164126 24735726.0 10.1016/j.febslet.2014.04.006 pa65xxt2 0.324924 Stork_2011, Yasuda-Inoue_2013, Pong_2011, Landeo-Ríos_2016, Berkhout_2006
666 Taiaroa_2020 Direct RNA sequencing and early evolution of SARS-CoV-2 George Taiaroa; Daniel Rawlinson; Leo Featherstone; Miranda Pitt; Leon Caly; Julian Druce; Damian Purcell; Leigh Harty; Thomas Tran; Jason Roberts; Mike Catton; Deborah Williamson; Lachlan Coin; Sebastian Duchene 2020 2020-03-07 BioRxiv Y 10.1101/2020.03.05.976167 x3hr1y6o 0.324833 Chang_2011, Cheng_2012, Brister_2015, Johnson_2018 Niemeyer_2018, Tan_T_2005, Phan_2020
667 Gibbs_2004 The phylogeny of SARS coronavirus Gibbs, A. J.; Gibbs, M. J.; Armstrong, J. S. 2004 2004-01-05 PMC N PMC7086792 14991447.0 10.1007/s00705-003-0244-0 wr7vrild 0.324833 Rice_1992, Wang_2013, Chang_2011, Lee_C_2017 Niemeyer_2018, Yu_P_2019, Boni_2020, Beniac_2006
668 Jia_Z_2019 Delicate structural coordination of the Severe Acute Respiratory Syndrome coronavirus Nsp13 upon ATP hydrolysis Jia, Zhihui; Yan, Liming; Ren, Zhilin; Wu, Lijie; Wang, Jin; Guo, Jing; Zheng, Litao; Ming, Zhenhua; Zhang, Lianqi; Lou, Zhiyong; Rao, Zihe 2019 2019-07-09 NONCOMM N PMC6614802 31131400.0 10.1093/nar/gkz409 m2tqzc4u 0.323679 Yasuda-Inoue_2013, Stork_2011, Gorbalenya_1988, Volmer_2010, Kang_2009
669 Liu_W_2018 A unique intra-molecular fidelity-modulating mechanism identified in a viral RNA-dependent RNA polymerase Liu, Weichi; Shi, Xiaoling; Gong, Peng 2018 2018-11-16 COMM-USE N PMC6237809 30239956.0 10.1093/nar/gky848 ya0siivm 0.323183 Stork_2011, Pong_2011, Yasuda-Inoue_2013, den_Boon_2010, Kang_2009
670 Jonassen_2007 Detection and Sequence Characterization of the 3′-End of Coronavirus Genomes Harboring the Highly Conserved RNA Motif s2m Jonassen, Christine Monceyron 2007 2007-11-28 PMC N PMC7122199 19057866.0 10.1007/978-1-59745-181-9_3 xl4u7n6r 0.322783 Rice_1992, Firth_2009, Lamb_1991, Armesto_2007 Goldberg_1991, Lin_T_2004, Monceyron_2014
671 Yu_D_2009 Reverse genetic manipulation of the overlapping coding regions for structural proteins of the type II porcine reproductive and respiratory syndrome virus Yu, Dandan; Lv, Jian; Sun, Zhi; Zheng, Haihong; Lu, Jiaqi; Yuan, Shishan 2009 2009-01-05 PMC N 18977502.0 10.1016/j.virol.2008.09.013 t6v85tcm 0.321823 Rice_1992, Armesto_2007, Bickerton_2017, Keep_2014, Keep_2015
672 Longhini_2016 Chemo-enzymatic synthesis of site-specific isotopically labeled nucleotides for use in NMR resonance assignment, dynamics and structural characterizations Longhini, Andrew P.; LeBlanc, Regan M.; Becette, Owen; Salguero, Carolina; Wunderlich, Christoph H.; Johnson, Bruce A.; D'Souza, Victoria M.; Kreutz, Christoph; Dayie, T. Kwaku 2016 2016-04-07 NONCOMM N PMC4824079 26657632.0 10.1093/nar/gkv1333 uhhtvdif 0.321744 Lamb_1991, Morikawa_1992, Karaman_2005, Wu_G_2005, Krause_1987 Scrima_2004, Myllykoski_2017
673 Hori_2016 Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension Naoto Hori; Natalia A. Denesyuk; D. Thirumalai 2016 2016-04-15 BioRxiv N 10.1101/048801 08mep8hm 0.321744 Guo_Y_2013, Morikawa_1992, Chan_2016, Hatfield_1990, Qi_Z_2018 Hori_2016, Cornish_2006
674 Popow_2012 Diversity and roles of (t)RNA ligases Popow, Johannes; Schleiffer, Alexander; Martinez, Javier 2012 2012-03-17 PMC N PMC3400036 22426497.0 10.1007/s00018-012-0944-2 clyc1va2 0.321506 Dubois_2016, Blank_2017, Wang_2017, Stork_2011, Trobaugh_2017 Ogando_2019, Singleton_2018, Xia_H_2015
675 Sipley_1991 Bacteriophage T7 morphogenesis and gene 10 frameshifting in Escherichia coli showing different degrees of ribosomal fidelity Sipley, John; Dunn, John; Goldman, Emanuel 1991 1991-01-01 PMC N PMC7088377 1766436.0 10.1007/bf00280294 7flxo83l 0.319697 Plant_2013, Stork_2011, Volmer_2010, Auewarakul_2005 Nowak_1984, Satyanarayana_2003, Tzeng_2006
676 Yang_2019 G-Quadruplex DNA and RNA Yang, Danzhou 2019 2019-08-23 PMC N PMC7121297 31444741.0 10.1007/978-1-4939-9666-7_1 9yj7j4ba 0.319461 Staple_2005, Pleij_1994, Liu_Y_2009, den_Boon_2010, Stork_2011 Masante_2015
677 Tengs_2013 A mobile genetic element with unknown function found in distantly related viruses Tengs, Torstein; Kristoffersen, Anja Bråthen; Bachvaroff, Tsvetan R; Jonassen, Christine Monceyron 2013 2013-04-25 COMM-USE N PMC3653767 23618040.0 10.1186/1743-422x-10-132 zk18gi8x 0.317729 Zheng_2008, Chang_2011, Lee_C_2017, Francis_2016, Gardner_2004 Walker_2011
678 Kumar_2013 Inhibition of translation by IFIT family members is determined by their ability to interact selectively with the 5′-terminal regions of cap0-, cap1- and 5′ppp- mRNAs Kumar, Parimal; Sweeney, Trevor R.; Skabkin, Maxim A.; Skabkina, Olga V.; Hellen, Christopher U. T.; Pestova, Tatyana V. 2013 2013-12-25 NONCOMM N PMC3950709 24371270.0 10.1093/nar/gkt1321 7wvp6zq7 0.317210 Yasuda-Inoue_2013, Ivanova_2015, Blank_2017, Meyerson_2017, Ban_J_2018 Daffis_2010, Habjan_2013
679 Czech_2019 Octa-repeat domain of the mammalian prion protein mRNA forms stable A-helical hairpin structure rather than G-quadruplexes Czech, Andreas; Konarev, Petr V.; Goebel, Ingrid; Svergun, Dmitri I.; Wills, Peter R.; Ignatova, Zoya 2019 2019-02-21 None N PMC6384910 30792490.0 10.1038/s41598-019-39213-2 xmgkpk0b 0.316862 Morikawa_1992, Atkins_1999, Pong_2011, Krause_1987, Guo_Y_2013 Marcheschi_2007, Marczinke_1998, Scrima_2004
680 Sevajol_2014 Insights into RNA synthesis, capping, and proofreading mechanisms of SARS-coronavirus Sevajol, Marion; Subissi, Lorenzo; Decroly, Etienne; Canard, Bruno; Imbert, Isabelle 2014 2014-12-19 PMC N PMC7114481 25451065.0 10.1016/j.virusres.2014.10.008 i2f5ksux 0.316773 den_Boon_2010, Stork_2011, Yasuda-Inoue_2013, Rice_1992, Ryu_W_2017 Ogando_2019, Chen_2016
681 UNKNOWN_1988 Integration of membrane proteins into the endoplasmic reticulum requires GTP None 1988 1988-07-01 NONCOMM N PMC2115162 2839521.0 inlq9ee8 0.315416 UNKNOWN_1993, UNKNOWN_1987, UNKNOWN_1986, UNKNOWN_1993, Wang_2013 Faaberg_1996, UNKNOWN_1991
682 Liu_L_2009 An Amphipathic α-Helix Controls Multiple Roles of Brome Mosaic Virus Protein 1a in RNA Replication Complex Assembly and Function Liu, Ling; Westler, William M.; den Boon, Johan A.; Wang, Xiaofeng; Diaz, Arturo; Steinberg, H. Adam; Ahlquist, Paul 2009 2009-03-27 COMM-USE N PMC2654722 19325881.0 10.1371/journal.ppat.1000351 ue15waq7 0.315218 Stork_2011, Yasuda-Inoue_2013, Diaz_2011, Kang_2009, Meyerson_2017 Xia_H_2015
683 Wolf_2018 Origins and Evolution of the Global RNA Virome Wolf, Yuri I.; Kazlauskas, Darius; Iranzo, Jaime; Lucía-Sanz, Adriana; Kuhn, Jens H.; Krupovic, Mart; Dolja, Valerian V.; Koonin, Eugene V. 2018 2018-11-27 PMC N PMC6282212 30482837.0 10.1128/mbio.02329-18 p1b07b4t 0.314062 Rice_1992, den_Boon_2010, Payne_2017, Ryu_W_2017 Wolf_2018, Wulan_2015
684 Ju_J_2020 Nucleotide Analogues as Inhibitors of SARS-CoV Polymerase Jingyue Ju; Xiaoxu Li; Shiv Kumar; Steffen Jockusch; Minchen Chien; Chuanjuan Tao; Irina Morozova; Sergey Kalachikov; Robert N. Kirchdoerfer; James J. Russo 2020 2020-03-14 BioRxiv Y 10.1101/2020.03.12.989186 hj675z1b 0.313758 Stork_2011, Meyerson_2017, Pong_2011, Kang_2009, Yasuda-Inoue_2013 Chien_2020, Yamamoto_2004, Zhou_2011, Veiga_2006
685 Ling_1995 Sequence and in vitro expression of the phosphoprotein gene of avian pneumovirus Ling, Roger; Davis, Philip J.; Qingzhong, Yu; Wood, Carla M.; Pringle, Craig R.; Cavanagh, David; Easton, Andrew J. 1995 1995-05-31 PMC N 7653102.0 10.1016/0168-1702(95)00008-e cefl4zot 0.313180 Luytjes_1988, Firth_2009, Tohya_1991, Parker_1990 Goldberg_1991, Nowak_1984
686 Chen_2015 Nuclear Magnetic Resonance-Assisted Prediction of Secondary Structure for RNA: Incorporation of Direction-Dependent Chemical Shift Constraints Chen, Jonathan\nL.; Bellaousov, Stanislav; Tubbs, Jason D.; Kennedy, Scott D.; Lopez, Michael J.; Mathews, David H.; Turner, Douglas H. 2015 2015-10-09 None N PMC4666457 26451676.0 10.1021/acs.biochem.5b00833 6mb9w76f 0.312325 Liao_2006, Chang_2011, Polverino_2017, Dai_Q_2012, Dawson_2007 Cornish_2006, Low_J_2010
687 Kazakov_2015 Hepatitis C Virus RNA Replication Depends on Specific Cis- and Trans-Acting Activities of Viral Nonstructural Proteins Kazakov, Teymur; Yang, Feng; Ramanathan, Harish N.; Kohlway, Andrew; Diamond, Michael S.; Lindenbach, Brett D. 2015 2015-04-13 COMM-USE N PMC4395149 25875808.0 10.1371/journal.ppat.1004817 gqrsogqf 0.312062 Yasuda-Inoue_2013, Stork_2011, Pong_2011, Rice_1992, Kang_2009 Brockway_2005
688 Lapps_1987 Sequence analysis of the bovine coronavirus nucleocapsid and matrix protein genes Lapps, William; Hogue, Brenda G.; Brian, David A. 1987 1987-03-31 PMC N PMC7130558 3029965.0 10.1016/0042-6822(87)90312-6 mj9ea464 0.311832 Luytjes_1988, Firth_2009, Morikawa_1992, Tohya_1991, Toshio_1989 Goldberg_1991, Kapke_1986
689 Burton_2016 The elusive quest for RNA knots Burton, Aaron S.; Di Stefano, Marco; Lehman, Niles; Orland, Henri; Micheletti, Cristian 2016 2016-02-01 NONCOMM N PMC4829277 26828280.0 10.1080/15476286.2015.1132069 s3tdllby 0.311397 Staple_2005, Denison_2008, Liu_Y_2009, Pleij_1994, Zúñiga_2009 Borodavka_2016, Ding_2012, Diaz_2012
690 Mikl_2018 High-throughput interrogation of programmed ribosomal frameshifting in human cells Martin Mikl; Yitzhak Pilpel; Eran Segal 2018 2018-11-14 BioRxiv N 10.1101/469692 5zjnzsik 0.310935 Trobaugh_2017, Lamb_1991, Rice_1992, Morikawa_1992, Naito_2007
691 Pavesi_2020 New insights into the evolutionary features of viral overlapping genes by discriminant analysis Pavesi, Angelo 2020 2020-04-02 PMC Y 10.1016/j.virol.2020.03.007 abgti7jh 0.310433 Krause_1987, Luytjes_1988, Firth_2009, Xu_J_2016, Wang_2007 Sabath_2012, Godeny_1990, Pavesi_2018
692 Cao_J_2008 Complete nucleotide sequence of polyprotein gene 1 and genome organization of turkey coronavirus Cao, Jianzhong; Wu, Ching-Ching; Lin, Tsang Long 2008 2008-09-30 PMC N PMC7114415 18514348.0 10.1016/j.virusres.2008.04.015 momzoghp 0.310118 Luytjes_1988, Kocherhans_2001, Tohya_1991, Chieochansin_2010 Lin_T_2004, Grötzinger_1996
693 Rappe_2018 Antiviral activity of K22 against members of the order Nidovirales Rappe, Julie Christiane Françoise; de Wilde, Adriaan; Di, Han; Müller, Christin; Stalder, Hanspeter; V’kovski, Philip; Snijder, Eric; Brinton, Margo A.; Ziebuhr, John; Ruggli, Nicolas; Thiel, Volker 2018 2018-02-15 PMC N PMC7114538 29337162.0 10.1016/j.virusres.2018.01.002 yxc31cbj 0.309868 Tallmadge_2008, Ryu_W_2017, Crowe_2014, Lu_P_2016, Yasui_2016 Valle-Casuso_2020, Sidhu_1996
694 LeDesma_2019 Hepatitis E Virus Replication LeDesma, Robert; Nimgaonkar, Ila; Ploss, Alexander 2019 2019-08-06 COMM-USE N PMC6723718 31390784.0 10.3390/v11080719 3jprs5q2 0.309664 Ryu_W_2017, Rice_1992, Payne_2017, Yasuda-Inoue_2013, den_Boon_2010 Valle-Casuso_2020
695 Dinan_2019 Comparative Analysis of Gene Expression in Virulent and Attenuated Strains of Infectious Bronchitis Virus at Subcodon Resolution Dinan, Adam M.; Keep, Sarah; Bickerton, Erica; Britton, Paul; Firth, Andrew E.; Brierley, Ian 2019 2019-08-28 None N PMC6714804 31243124.0 10.1128/jvi.00714-19 xsuq2np8 0.308924 Rice_1992, Trobaugh_2017, Lamb_1991, Auewarakul_2005, Armesto_2007 Ren_X_2008, Tzeng_2006, Dinan_2019
696 Muñoz-Chimeno_2016 Full coding hepatitis E virus genotype 3 genome amplification method Muñoz-Chimeno, M.; Forero, J.E.; Echevarría, J.M.; Muñoz-Bellido, J.L.; Vázquez-López, L.; Morago, L.; García-Galera, M.C.; Avellón, A. 2016 2016-04-30 PMC N 26784284.0 10.1016/j.jviromet.2016.01.004 07u2kpe5 0.307994 Luytjes_1988, Firth_2009, Yamanaka_1998, Wurch_1991, Lee_H_1991
697 Hastie_2012 Structural Basis for the dsRNA Specificity of the Lassa Virus NP Exonuclease Hastie, Kathryn M.; King, Liam B.; Zandonatti, Michelle A.; Saphire, Erica Ollmann 2012 2012-08-28 COMM-USE N PMC3429428 22937163.0 10.1371/journal.pone.0044211 x5tlnv6i 0.307472 Stork_2011, Pong_2011, Meyerson_2017, Yasuda-Inoue_2013, den_Boon_2010 Case_2017, Hastie_2011
698 Bruce_1989 Detection of enteroviruses using cDNA and synthetic oligonucleotide probes Bruce, C.; Al-Nakib, W.; Forsyth, M.; Stanway, G.; Almond, J.W. 1989 1989-08-31 PMC N 2550504.0 10.1016/0166-0934(89)90035-9 nw8zwv51 0.307308 Rice_1992, Auewarakul_2005, Armesto_2007, Majerciak_2018 Benfield_1991, Nowak_1984
699 Piotrowski_2007 Production of Coronavirus Nonstructural Proteins in Soluble Form for Crystallization Piotrowski, Yvonne; Ponnusamy, Rajesh; Glaser, Stephanie; Daabach, Anniken; Moll, Ralf; Hilgenfeld, Rolf 2007 2007-11-28 PMC N PMC7121525 19057878.0 10.1007/978-1-59745-181-9_13 0hfku8o4 0.307002 Rice_1992, Volmer_2010, Stork_2011, Trobaugh_2017 Eshaghi_2005
700 Woo_J_2019 An in vivo cell-based assay for investigating the specific interaction between the SARS-CoV N-protein and its viral RNA packaging sequence Woo, Jiwon; Lee, Eunice Yoojin; Lee, Mirae; Kim, Taeyeon; Cho, Yong-Eun 2019 2019-12-10 PMC N PMC7092827 31594639.0 10.1016/j.bbrc.2019.09.115 i1rhuwvo 0.306292 Rice_1992, Stork_2011, Pong_2011, Volmer_2010, Kang_2009 Wang_2009, Shi_S_2006, van_der_Linden_2014
701 Comas-Garcia_2019 Packaging of Genomic RNA in Positive-Sense Single-Stranded RNA Viruses: A Complex Story Comas-Garcia, Mauricio 2019 2019-03-13 COMM-USE N PMC6466141 30871184.0 10.3390/v11030253 koo0d6g9 0.305716 den_Boon_2010, Stork_2011, Rice_1992, Trobaugh_2017, Payne_2017 Bhullar_2014
702 Shi_W_2020 A nucleobase-binding pocket in a viral RNA-dependent RNA polymerase contributes to elongation complex stability Shi, Wei; Ye, Han-Qing; Deng, Cheng-Lin; Li, Rui; Zhang, Bo; Gong, Peng 2020 2020-02-20 COMM-USE N PMC7026628 31863580.0 10.1093/nar/gkz1170 wgwom8cd 0.304659 Stork_2011, Pong_2011, Kang_2009, Yasuda-Inoue_2013, Meyerson_2017 Bhullar_2014, Xia_H_2015
703 Lin_T_2004 Complete sequences of 3′ end coding region for structural protein genes of turkey coronavirus Lin, Tsang Long; Loa, Chien Chang; Wu, Ching Ching 2004 2004-11-30 PMC N PMC7114097 15522448.0 10.1016/j.virusres.2004.06.003 7bp0ujqn 0.304345 Luytjes_1988, Brown_1984, Tohya_1991, Kocherhans_2001 Goldberg_1991, Lapps_1987
704 Picard-Jean_2013 The Immunosuppressive Agent Mizoribine Monophosphate Is an Inhibitor of the Human RNA Capping Enzyme Picard-Jean, Frédéric; Bougie, Isabelle; Shuto, Satoshi; Bisaillon, Martin 2013 2013-01-17 COMM-USE N PMC3547949 23349942.0 10.1371/journal.pone.0054621 dr2uow4m 0.304069 Blank_2017, Ivanova_2015, Stork_2011, Kang_2009, Yasuda-Inoue_2013 Tremblay-Létourneau_2011, Sticher_2020, Wilde_2019
705 Wang_2012 The R-rich motif of Beet black scorch virus P7a movement protein is important for the nuclear localization, nucleolar targeting and viral infectivity Wang, Xiaohui; Zhang, Yanjing; Xu, Jin; Shi, Lindan; Fan, Huiyan; Han, Chenggui; Li, Dawei; Yu, Jialin 2012 2012-08-31 PMC N 10.1016/j.virusres.2012.05.001 p9kwqle8 0.303954 Yasuda-Inoue_2013, Volmer_2010, Greene_2012, Shi_S_2000
706 Eun_A_2000 Simultaneous quantitation of two orchid viruses by the TaqMan® real-time RT-PCR Eun, Alvin Jin-Cherng; Seoh, Mui-Leng; Wong, Sek-Man 2000 2000-06-30 PMC N 10856762.0 10.1016/s0166-0934(00)00161-0 sdgiyrzm 0.303630 Borja_1992, Armesto_2007, Majerciak_2018, Chen_2013, Endoh_2005
707 Hilimire_2015 N-Methylation as a Strategy for Enhancing the Affinity and Selectivity of RNA-binding Peptides: Application to the HIV-1 Frameshift-Stimulating RNA Hilimire, Thomas\nA.; Bennett, Ryan P.; Stewart, Ryan A.; Garcia-Miranda, Pablo; Blume, Alex; Becker, Jordan; Sherer, Nathan; Helms, Eric D.; Butcher, Samuel E.; Smith, Harold C.; Miller, Benjamin L. 2015 2015-10-23 None N PMC4720131 26496521.0 10.1021/acschembio.5b00682 rx90f66k 0.303355 Stork_2011, Rice_1992, Kang_2009, Meyerson_2017, Volmer_2010 Ofori_2014, Bhullar_2014
708 Gibson_2011 Chapter fifteen Enzymatic Assembly of Overlapping DNA Fragments Gibson, Daniel G. 2011 2011-12-31 PMC N PMC7149801 21601685.0 10.1016/b978-0-12-385120-8.00015-2 1w54xw02 0.303145 Stork_2011, Thiel_2002, Otsuka_1999, Lee_J_2019 Pradeepkumar_2012, Moser_2012, Kutyavin_2006
709 Fan_Z_2012 An alternative −1/+2 open reading frame exists within viral Npro(1–19) region of bovine viral diarrhea virus SD-1 Fan, Zhen-Chuan; Bird, R. Curtis 2012 2012-01-31 PMC N 22079882.0 10.1016/j.virusres.2011.10.022 xlw4b8fy 0.302529 Rice_1992, Volmer_2010, Armesto_2007, Tallmadge_2008, Bickerton_2017
710 Banner_1991 Random nature of coronavirus RNA recombination in the absence of selection pressure Banner, Lisa R.; Mc Lai, Michael 1991 1991-11-30 PMC N PMC7131166 1656597.0 10.1016/0042-6822(91)90795-d ao29zx1u 0.302093 Rice_1992, Auewarakul_2005, Volmer_2010, Armesto_2007, den_Boon_2010 Banner_1990
711 Yun_S_2015 Bacterial Artificial Chromosomes: A Functional Genomics Tool for the Study of Positive-strand RNA Viruses Yun, Sang-Im; Song, Byung-Hak; Kim, Jin-Kyoung; Lee, Young-Min 2015 2015-12-29 NONCOMM N PMC4780872 26780115.0 10.3791/53164 2se4d1yp 0.301556 Rice_1992, Armesto_2007, Keep_2014, Bickerton_2017, Keep_2015 Usme-Ciro_2014, Nowak_1984, Satyanarayana_2003
712 Müller_2020 Comparison of broad-spectrum antiviral activities of the synthetic rocaglate CR-31-B (−) and the eIF4A-inhibitor Silvestrol Müller, Christin; Obermann, Wiebke; Schulte, Falk W.; Lange-Grünweller, Kerstin; Oestereich, Lisa; Elgner, Fabian; Glitscher, Mirco; Hildt, Eberhard; Singh, Kamini; Wendel, Hans-Guido; Hartmann, Roland K.; Ziebuhr, John; Grünweller, Arnold 2020 2020-03-31 None N PMC7114339 31931103.0 10.1016/j.antiviral.2020.104706 uztke3jt 0.300875 Stork_2011, Meyerson_2017, Kang_2009, Berkhout_2006, Yasuda-Inoue_2013 Grazioso_2012, Liu_Q_2020, Sidhu_1996, Müller_2018
713 Bujarski_2008 Recombination Bujarski, J.J. 2008 2008-12-31 PMC N PMC7148591 10.1016/b978-012374410-4.00545-8 31xmue1g 0.300854 Rice_1992, den_Boon_2010, Payne_2017, Trobaugh_2017, Wang_2018 Simon-Loriere_2011