Topic 10 -- Abstracts with Biological Entities (English) - 75 Topics / Sub-Topic Model 19 - 15 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 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 0.754803 Morikawa_1992, Hatfield_1990, Lamb_1991, Brierley_1989, Krause_1987 Powell_2011, Napthine_2009, KRISHNAN_1996
2 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 0.753033 Krause_1987, Bencun_2018, Morikawa_1992 Powell_2011, Sasvari_2011
3 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 0.741011 Landry_2009, Lamb_1991, Gendron_2010 Sasvari_2011, Landry_2009, Powell_2011
4 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 0.728531 Stork_2011, Pong_2011 Tzeng_2006
5 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 0.691437 Morikawa_1992, Lamb_1991, Hatfield_1990 Napthine_2009
6 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 0.675914 Stork_2011, Lamb_1991 Tzeng_2006, Sasvari_2011
7 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 0.668595 Somers_2013 Byszewska_2015, Gutiérrez-Escolano_2003
8 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 0.631851 Lamb_1991, Cattaneo_1989, Martínez-Salas_2008
9 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 0.631472 Lamb_1991, Rice_1992 Tzeng_2006, Baric_1985, Nowak_1984
10 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 0.604397 Stork_2011
11 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 0.598308 Stork_2011, Pong_2011, Rice_1992, Chen_2013
12 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 0.594307 Stork_2011, Rice_1992 Chen_2016, Byszewska_2015, Gopinath_2015, Bhullar_2014
13 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 0.589070 Morikawa_1992, Lamb_1991, Hatfield_1990, Jacks_1988, Firth_2009 Powell_2011, Tzeng_2006
14 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 0.559800 Lamb_1991, Landry_2009 Sasvari_2011
15 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 0.532830 Lamb_1991, Hatfield_1990, Morikawa_1992, Firth_2009
16 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 0.509772 Stork_2011, Masaki_2015 Sasvari_2011
17 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 0.504332 Stork_2011, Rice_1992 Sasvari_2009, Chen_2016
18 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 0.499388 Lamb_1991, Morikawa_1992, Farabaugh_1993, Hyde_2015
19 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 0.497227 Cattaneo_1989, Rice_1992, Vennema_1991, Morikawa_1992
20 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 0.477222 Stork_2011, Rice_1992 Chen_2016, Byszewska_2015, Decroly_2011
21 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 0.464079 Morikawa_1992, Firth_2009, Hatfield_1990 Firth_2009, Sekine_1992
22 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 0.462080 Lamb_1991, Morikawa_1992, Firth_2009, Vennema_1991, Hatfield_1990 Nowak_1984, Tzeng_2006
23 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 0.460968 Lamb_1991, Rice_1992, Stork_2011 Bhullar_2014
24 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 0.446646 Krause_1987, Lamb_1991, Bencun_2018 Gutiérrez-Escolano_2003, Nowak_1984
25 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 0.444762 Rice_1992
26 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 0.430537 Lamb_1991, Morikawa_1992, Firth_2009, Hatfield_1990
27 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 0.424094 Stork_2011, Rice_1992, Lamb_1991 Tzeng_2006, Bhullar_2014, Masante_2015
28 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 0.418918 Sarnowska_2007
29 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 0.418189 Lamb_1991, Landry_2009, Rice_1992
30 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 0.417692 Stork_2011 Bhullar_2014
31 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 0.416172 Stork_2011, Rice_1992
32 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 0.409816 Krause_1987 Byszewska_2015, Chen_2016
33 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 0.406883 Martínez-Salas_2008, Stork_2011, Krause_1987 Gopinath_2015, Chen_2016
34 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 0.398795 Martínez-Salas_2008 Gopinath_2015
35 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 0.393122 Morikawa_1992, Krause_1987, Firth_2009, Hatfield_1990 Samal_2013
36 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 0.390972 Rice_1992, Stork_2011, Lamb_1991 Bhullar_2014
37 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 0.380275 Morikawa_1992, Wurch_1991, Firth_2009, Lamb_1991 Goldberg_1991
38 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 0.374489 Rice_1992, Stork_2011, Chen_2013 Tzeng_2006, Garcia_2014
39 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 0.373735 Morikawa_1992, Hatfield_1990, Lamb_1991, Cattaneo_1989 Namy_2006
40 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 0.369138 Martínez-Salas_2008
41 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 0.368079 Lamb_1991, Rice_1992, Payne_2017, Auewarakul_2005 Tzeng_2006
42 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 0.361223 Jendrach_2014, Lamb_1991, Morikawa_1992, Wurch_1991, Vennema_1991
43 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 0.355633 Lamb_1991, Rice_1992, Stork_2011 Firth_2012, Sasvari_2011
44 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 0.353675 Lamb_1991, Rice_1992, Morikawa_1992, Wurch_1991 Nowak_1984, Tzeng_2006
45 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 0.349030 Lamb_1991, Gendron_2010, Rice_1992, Morikawa_1992 Gao_F_2012, Tzeng_2006
46 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 0.341025 Lamb_1991, Morikawa_1992, Firth_2009, Hatfield_1990, Luytjes_1988 Firth_2009
47 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 0.333083 Morikawa_1992, Vennema_1991, Wurch_1991, Luytjes_1988
48 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 0.333006 Lamb_1991, Martínez-Salas_2008 Byszewska_2015, Sarnowska_2007, Sasvari_2011
49 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 0.332474 Kozak_1994, Martínez-Salas_2008 Oh_S_1993, Powell_2011, Caliskan_2014
50 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 0.324987 Firth_2009, Lamb_1991, Payne_2017, Krause_1987, Luytjes_1988 Goldberg_1991
51 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 0.321942 Rice_1992, Stork_2011 Gopinath_2015, Byszewska_2015
52 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 0.319123 Chen_2013, Landry_2009, Morikawa_1992 Fajardo_2012
53 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 0.315382 Rice_1992, Stork_2011
54 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 0.314602 Sasvari_2011
55 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 0.305275 Morikawa_1992, Lamb_1991, Hatfield_1990, Kozak_1994 Caliskan_2015, Caliskan_2014
56 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 0.304531 Gendron_2010, Morikawa_1992 Gendron_2010, Brunelle_1999
57 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 0.303151 Morikawa_1992, Krause_1987, Hatfield_1990, Brierley_1989, Lai_M_2005