Topic 03 -- Abstracts with Biological Entities (English) - 75 Topics / Sub-Topic Model 47 - 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 Zhao_2008 Analysis of synonymous codon usage in 11 Human Bocavirus isolates Zhao, Sheng; Zhang, Qin; Liu, Xiaolin; Wang, Xuemin; Zhang, Huilin; Wu, Yan; Jiang, Fei 2008 2008-06-30 PMC N PMC7116908 18378386.0 10.1016/j.biosystems.2008.01.006 o1k0q78x 0.993742 Gu_W_2004, Zhang_2014, Xu_X_2019, Liu_Y_2010, Zhang_2012 Gu_W_2004, Liu_Y_2010
2 Wang_2011 Analysis of codon usage in type 1 and the new genotypes of duck hepatitis virus Wang, Meng; Zhang, Jie; Zhou, Jian-hua; Chen, Hao-tai; Ma, Li-na; Ding, Yao-zhong; Liu, Wen-qian; Gu, Yuan-xing; Zhao, Feng; Liu, Yong-sheng 2011 2011-10-31 PMC N PMC7117032 21708221.0 10.1016/j.biosystems.2011.06.005 80eurxt6 0.985216 Gu_W_2004, Zhang_2014, Liu_Y_2010
3 Wang_2018 Genome-wide analysis of codon usage bias in four sequenced cotton species Wang, Liyuan; Xing, Huixian; Yuan, Yanchao; Wang, Xianlin; Saeed, Muhammad; Tao, Jincai; Feng, Wei; Zhang, Guihua; Song, Xianliang; Sun, Xuezhen 2018 2018-03-27 COMM-USE N PMC5870960 29584741.0 10.1371/journal.pone.0194372 zi7m3eto 0.983034 Gu_W_2004, Liu_Y_2010, Zhang_2014, Hassan_2010, Zhang_2012 Li_X_2016, Sheikh_2020, Yi_Y_2012, He_Q_2012
4 Zhang_2011 Analysis of synonymous codon usage in Hepatitis A virus Zhang, Yiqiang; Liu, Yongsheng; Liu, Wenqian; Zhou, Jianhua; Chen, Haotai; Wang, Yin; Ma, Lina; Ding, Yaozhong; Zhang, Jie 2011 2011-04-16 COMM-USE N PMC3087699 21496278.0 10.1186/1743-422x-8-174 a11ztdpg 0.973006 Gu_W_2004, Zhang_2014, Xu_X_2019, Liu_Y_2010 Gu_W_2004, Zhao_2008, Liu_Y_2010, LIU_X_2012
5 Zhang_2012 Analysis of synonymous codon usage patterns in torque teno sus virus 1 (TTSuV1) Zhang, Zhicheng; Dai, Wei; Wang, Yang; Lu, Chengping; Fan, Hongjie 2012 2012-09-26 PMC N PMC7086873 23011310.0 10.1007/s00705-012-1480-y 1czjl0hz 0.971893 Gu_W_2004, Liu_Y_2010, Zhang_2014, Xu_X_2019 Liu_Y_2010, Gu_W_2004, Zhang_2013, He_Q_2012
6 Shi_Y_2012 Characterization of Codon Usage Bias in UL21gene from Duck Enteritis Virus Shi, Yong; Cheng, Anchun; Wang, Mingshu 2012 2012-12-31 PMC N 10.1016/j.aasri.2012.06.020 89lryb7f 0.970950 Gu_W_2004, Liu_Y_2010, Xu_X_2019 He_Q_2012, Yi_Y_2012, Gu_W_2004
7 Hassan_2010 Synonymous Codon Usage Analysis of Thirty Two Mycobacteriophage Genomes Hassan, Sameer; Mahalingam, Vasantha; Kumar, Vanaja 2010 2010-02-01 COMM-USE N PMC2817497 20150956.0 10.1155/2009/316936 wncp60xy 0.970162 Gu_W_2004, Liu_Y_2010, Xu_X_2019 Gu_W_2004, Liu_Y_2010, Sheikh_2020, He_Q_2012
8 Zhang_2014 Analysis of synonymous codon usage in enterovirus 71 Zhang, Hua; Cao, Hong-wei; Li, Feng-qi; Pan, Zi-ye; Wu, Zhi-jun; Wang, Yan-hong; Cui, Yu-dong 2014 2014-05-21 PMC N PMC4188181 25674591.0 10.1007/s13337-014-0215-y rhya2tgn 0.969519 Gu_W_2004, Xu_X_2019, Liu_Y_2010, Liu_Y_2011 Zhao_2008, Gu_W_2004, Sheikh_2020, Liu_Y_2010
9 LIU_X_2012 Patterns and influencing factor of synonymous codon usage in porcine circovirus LIU, Xin-sheng; Zhang, Yong-guang; Fang, Yu-zhen; Wang, Yong-lu 2012 2012-03-15 COMM-USE N PMC3341187 22416942.0 10.1186/1743-422x-9-68 a93brk5n 0.968357 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019 Liu_Y_2011, Liu_Y_2010, Gu_W_2004, Sheikh_2020
10 Chen_2014 Characterization of the porcine epidemic diarrhea virus codon usage bias Chen, Ye; Shi, Yuzhen; Deng, Hongjuan; Gu, Ting; Xu, Jian; Ou, Jinxin; Jiang, Zhiguo; Jiao, Yiren; Zou, Tan; Wang, Chong 2014 2014-12-31 PMC N 25239728.0 10.1016/j.meegid.2014.09.004 w449hj3l 0.959754 Gu_W_2004, Xu_X_2019, Zhang_2014, Liu_Y_2010, Liu_Y_2011 Liu_Y_2010, Gu_W_2004
11 Xu_X_2019 Comprehensive analysis of synonymous codon usage patterns in orf3 gene of porcine epidemic diarrhea virus in China Xu, Xin; Li, Pengfei; Zhang, Yating; Wang, Xianhe; Xu, Jiaxin; Wu, Xuening; Shen, Yujiang; Guo, Dexuan; Li, Yuchang; Yao, Lili; Li, Liyang; Song, Baifen; Ma, Jinzhu; Liu, Xinyang; Xu, Shuyan; Zhang, Hua; Wu, Zhijun; Cao, Hongwei 2019 2019-12-31 PMC N 31677415.0 10.1016/j.rvsc.2019.09.012 w7pz83s1 0.958016 Gu_W_2004, Liu_Y_2010, Zhang_2014, Zhang_2012
12 Liu_Y_2010 Analysis of synonymous codon usage in porcine reproductive and respiratory syndrome virus Liu, Yong-sheng; Zhou, Jian-hua; Chen, Hao-tai; Ma, Li-na; Ding, Yao-zhong; Wang, Meng; Zhang, Jie 2010 2010-08-31 PMC N PMC7106271 20438864.0 10.1016/j.meegid.2010.04.010 8790q2in 0.948443 Gu_W_2004, Xu_X_2019, Zhang_2014 Gu_W_2004, Sheikh_2020, LIU_X_2012
13 Jiang_2007 Analysis of Synonymous Codon Usage in Aeropyrum pernix K1 and Other Crenarchaeota Microorganisms Jiang, Peng; Sun, Xiao; Lu, Zuhong 2007 2007-03-31 PMC N PMC7129909 17498625.0 10.1016/s1673-8527(07)60029-0 3odqx06m 0.946450 Gu_W_2004, Liu_Y_2010, Li_X_2016, Xu_X_2019 Gu_W_2004, Yi_Y_2012, Guan_2018
14 Zhang_2013 Synonymous Codon Usage in TTSuV2: Analysis and Comparison with TTSuV1 Zhang, Zhicheng; Dai, Wei; Dai, Dingzhen 2013 2013-11-26 COMM-USE N PMC3841265 24303050.0 10.1371/journal.pone.0081469 uqr00nzd 0.946322 Gu_W_2004, Liu_Y_2010, Zhang_2012, Zhang_2014 Zhang_2012, Liu_Y_2010, Gu_W_2004, He_Q_2012
15 Yi_Y_2012 Analysis of Codon Usage Bias in Interferon Alpha Gene of the Giant Panda (Ailuropoda Melanoleuca) Yi, Yue; Wang, Chengdong; Xu, Zhiwen; Li, Desheng; Zhu, Ling; Li, Fengqin; Qi, Xinqiao; Guo, Wanzhu 2012 2012-01-01 PMC N PMC7123504 10.1007/978-3-642-27537-1_37 y45y5svy 0.935847 Gu_W_2004, Liu_Y_2010, Zhang_2014, Li_X_2016, Xu_X_2019 Sheikh_2020, Gu_W_2004
16 Wang_2016 Analysis of Synonymous Codon Usage Bias of Zika Virus and Its Adaption to the Hosts Wang, Hongju; Liu, Siqing; Zhang, Bo; Wei, Wenqiang 2016 2016-11-28 COMM-USE N PMC5125587 27893824.0 10.1371/journal.pone.0166260 s9gpxpf0 0.931403 Gu_W_2004, Butt_2014, Zhang_2014, Liu_Y_2011, Liu_Y_2010 Butt_2016, Gu_W_2004, Yi_Y_2012, Zhao_2008
17 Chen_2017 Genomic analysis of codon usage shows influence of mutation pressure, natural selection, and host features on Senecavirus A evolution Chen, Ye; Xu, Quanming; Tan, Chen; Li, Xinxin; Chi, Xiaojuan; Cai, Binxiang; Yu, Ziding; Ma, Yanmei; Chen, Ji-Long 2017 2017-11-30 PMC N 28943149.0 10.1016/j.micpath.2017.09.040 w46gv23d 0.925664 Zhang_2014, Gu_W_2004, Xu_X_2019, Liu_Y_2011, Liu_Y_2010
18 Gu_W_2004 Analysis of synonymous codon usage in SARS Coronavirus and other viruses in the Nidovirales Gu, Wanjun; Zhou, Tong; Ma, Jianmin; Sun, Xiao; Lu, Zuhong 2004 2004-05-31 PMC N PMC7127446 15041183.0 10.1016/j.virusres.2004.01.006 3mj670c2 0.923801 Liu_Y_2010, Xu_X_2019, Zhang_2014, Zhang_2012 Liu_Y_2010, Sheikh_2020, Zhao_2008, Tort_2020
19 Li_X_2016 Genome-Wide Analysis of Codon Usage Bias in Epichloë festucae Li, Xiuzhang; Song, Hui; Kuang, Yu; Chen, Shuihong; Tian, Pei; Li, Chunjie; Nan, Zhibiao 2016 2016-07-15 COMM-USE N PMC4964511 27428961.0 10.3390/ijms17071138 5vpzgzvz 0.922619 Gu_W_2004, Liu_Y_2010, Xu_X_2019, Zhang_2014 Yi_Y_2012, Jiang_2007, LIU_X_2012, Chakraborty_2019
20 Zhang_2011 Analysis of codon usage and nucleotide composition bias in polioviruses Zhang, Jie; Wang, Meng; Liu, Wen-qian; Zhou, Jian-hua; Chen, Hao-tai; Ma, Li-na; Ding, Yao-zhong; Gu, Yuan-xing; Liu, Yong-sheng 2011 2011-03-30 COMM-USE N PMC3079669 21450075.0 10.1186/1743-422x-8-146 tg0tczni 0.918909 Gu_W_2004, Zhang_2014, Liu_Y_2010, Zhang_2011, Liu_Y_2011 Zhang_2011, Sheikh_2020, LIU_X_2012, Gu_W_2004
21 Liu_W_2011 Compare the differences of synonymous codon usage between the two species within cardiovirus Liu, Wen-qian; Zhang, Jie; Zhang, Yi-qiang; Zhou, Jian-hua; Chen, Hao-tai; Ma, Li-na; Ding, Yao-zhong; Liu, Yongsheng 2011 2011-06-27 COMM-USE N PMC3148564 21708006.0 10.1186/1743-422x-8-325 jrbyxc2o 0.918013 Gu_W_2004, Liu_Y_2010, Zhang_2014, Zhang_2012, Xu_X_2019
22 Zhong_2007 Mutation pressure shapes codon usage in the GC-Rich genome of foot-and-mouth disease virus Zhong, Jincheng; Li, Yanmin; Zhao, Sheng; Liu, Shenggang; Zhang, Zhidong 2007 2007-09-01 PMC N PMC7089325 17768673.0 10.1007/s11262-007-0159-z e2wobz55 0.917881 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019 Liu_Y_2010, Zhao_2008, Ahn_I_2011, Yi_Y_2012
23 He_Q_2012 Characterization of Synonymous Codon Usage in the Newly Identified Duck Plague Virus UL16 Gene He, Qin; Wang, Mingshu; Cheng, Anchun; Zhu, Dekang; Chen, Xiaoyue; Jia, Renyong; Luo, Qihui; Zhou, Yi; Chen, Zhengli 2012 2012-01-01 PMC N PMC7122970 10.1007/978-3-642-27537-1_89 m6ubkutm 0.898082 Gu_W_2004, Liu_Y_2010, Xu_X_2019 Shi_Y_2012, Sheikh_2020, Liu_Y_2010, Gu_W_2004
24 Butt_2014 Genome-Wide Analysis of Codon Usage and Influencing Factors in Chikungunya Viruses Butt, Azeem Mehmood; Nasrullah, Izza; Tong, Yigang 2014 2014-03-04 COMM-USE N PMC3942501 24595095.0 10.1371/journal.pone.0090905 gxqufddb 0.889983 Gu_W_2004, Zhang_2014, Liu_Y_2010, Liu_Y_2011 Gu_W_2004, Chakraborty_2019, Yi_Y_2012, Sheikh_2020
25 Liu_Y_2011 The characteristics of the synonymous codon usage in enterovirus 71 virus and the effects of host on the virus in codon usage pattern Liu, Yong-sheng; Zhou, Jian-hua; Chen, Hao-tai; Ma, Li-na; Pejsak, Zygmunt; Ding, Yao-zhong; Zhang, Jie 2011 2011-07-31 PMC N 21382519.0 10.1016/j.meegid.2011.02.018 190jmgcq 0.871418 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019 LIU_X_2012, Sheikh_2020, Liu_Y_2010, Gu_W_2004
26 Li_S_2014 System analysis of synonymous codon usage biases in archaeal virus genomes Li, Sen; Yang, Jie 2014 2014-08-21 PMC N PMC7094158 24685889.0 10.1016/j.jtbi.2014.03.022 kg53pbyw 0.867291 Gu_W_2004 Sheikh_2020, Gu_W_2004, Tibayrenc_2015
27 Woo_P_2007 Cytosine deamination and selection of CpG suppressed clones are the two major independent biological forces that shape codon usage bias in coronaviruses Woo, Patrick C.Y.; Wong, Beatrice H.L.; Huang, Yi; Lau, Susanna K.P.; Yuen, Kwok-Yung 2007 2007-12-20 PMC N PMC7103290 17881030.0 10.1016/j.virol.2007.08.010 qybhe5hm 0.831519 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019 Sheikh_2020, Gu_W_2004, Yi_Y_2012
28 Shi_S_2016 Codon usage in Alphabaculovirus and Betabaculovirus hosted by the same insect species is weak, selection dominated and exhibits no more similar patterns than expected Shi, Sheng-Lin; Jiang, Yi-Ren; Yang, Rui-Sheng; Wang, Yong; Qin, Li 2016 2016-10-31 PMC N PMC7106102 27484795.0 10.1016/j.meegid.2016.07.042 gkha4p27 0.823013 Gu_W_2004, Zhang_2014, Liu_Y_2010 Gu_W_2004, Sheikh_2020, Ahn_I_2009, Jiang_2007
29 Li_G_2018 Insights into the genetic and host adaptability of emerging porcine circovirus 3 Li, Gairu; Wang, Huijuan; Wang, Shilei; Xing, Gang; Zhang, Cheng; Zhang, Wenyan; Liu, Jie; Zhang, Junyan; Su, Shuo; Zhou, Jiyong 2018 2018-08-24 COMM-USE N PMC6177243 29973122.0 10.1080/21505594.2018.1492863 pbwzc2jy 0.818701 Gu_W_2004, Zhang_2014, Xu_X_2019, Liu_Y_2010
30 Yao_H_2019 Analysis of Synonymous Codon Usage Bias in Flaviviridae Virus Yao, Huipeng; Chen, Mengyu; Tang, Zizhong 2019 2019-06-27 COMM-USE N PMC6620835 31346520.0 10.1155/2019/5857285 n40be9ol 0.797450 Gu_W_2004, Sheikh_2020
31 Nasrullah_2015 Genomic analysis of codon usage shows influence of mutation pressure, natural selection, and host features on Marburg virus evolution Nasrullah, Izza; Butt, Azeem M; Tahir, Shifa; Idrees, Muhammad; Tong, Yigang 2015 2015-08-26 COMM-USE N PMC4550055 26306510.0 10.1186/s12862-015-0456-4 7pbfxcmp 0.793982 Gu_W_2004, Zhang_2014, Liu_Y_2010, Butt_2014, Liu_Y_2011 Liu_Y_2011, Sheikh_2020, LIU_X_2012, Liu_Y_2010
32 D’_Andrea_2011 A detailed comparative analysis on the overall codon usage patterns in Hepatitis A virus D’ Andrea, Lucía; Pintó, Rosa M.; Bosch, Albert; Musto, Héctor; Cristina, Juan 2011 2011-04-30 PMC N 21296111.0 10.1016/j.virusres.2011.01.012 66azyje4 0.793916 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019
33 Wang_2010 Analysis of codon usage in bovine viral diarrhea virus Wang, Meng; Zhang, Jie; Zhou, Jian-hua; Chen, Hao-tai; Ma, Li-na; Ding, Yao-zhong; Liu, Wen-qian; Liu, Yong-sheng 2010 2010-11-11 PMC N PMC7087306 21069395.0 10.1007/s00705-010-0848-0 gtzpz1yb 0.754184 Gu_W_2004, Liu_Y_2010, Zhang_2014, Zhang_2012, Xu_X_2019 Liu_Y_2010, Zhao_2008, Gu_W_2004
34 Gómez_2011 Analysis of human P[4]G2 rotavirus strains isolated in Brazil reveals codon usage bias and strong compositional constraints Gómez, Mariela Martínez; Tort, Luis Fernando Lopez; de Mello Volotao, Eduardo; Recarey, Ricardo; Moratorio, Gonzalo; Musto, Héctor; Leite, José Paulo G.; Cristina, Juan 2011 2011-04-30 PMC N 10.1016/j.meegid.2011.01.006 4afj5us1 0.735269 Gu_W_2004, Zhang_2014, Liu_Y_2010, Liu_Y_2011
35 Chakraborty_2019 Analysis of codon usage patterns and influencing factors in Nipah virus Chakraborty, Supriyo; Deb, Bornali; Barbhuiya, Parvin A.; Uddin, Arif 2019 2019-04-02 PMC N PMC7114725 30664908.0 10.1016/j.virusres.2019.01.011 5t1kngfz 0.730017 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019, Liu_Y_2011 Gu_W_2004, Sheikh_2020, Yi_Y_2012, Butt_2014
36 Xu_X_2008 Analysis of synonymous codon usage and evolution of begomoviruses Xu, Xiao-zhong; Liu, Qing-po; Fan, Long-jiang; Cui, Xiao-feng; Zhou, Xue-ping 2008 2008-08-29 PMC N PMC2528880 18763298.0 10.1631/jzus.b0820005 kswby0it 0.716113 Gu_W_2004, Liu_Y_2010 Sheikh_2020, Gu_W_2004
37 Gun_L_2018 Comprehensive Analysis and Comparison on the Codon Usage Pattern of Whole Mycobacterium tuberculosis Coding Genome from Different Area Gun, Li; Yumiao, Ren; Haixian, Pan; Liang, Zhang 2018 2018-05-08 COMM-USE N PMC5964552 29854746.0 10.1155/2018/3574976 g1ekir5w 0.704738 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019, Li_X_2016 Liu_Y_2010, Sheikh_2020, Yi_Y_2012, LIU_X_2012
38 Butt_2016 Zika virus outbreak in the Americas: Is Aedes albopictus an overlooked culprit? Azeem Mehmood Butt; Izza Nasrullah; Raheel Qamar; Yigang Tong 2016 2016-03-30 BioRxiv N 10.1101/044594 gjxumrmm 0.701160 Gu_W_2004, Liu_Y_2011, Zhang_2014, Butt_2016 Tibayrenc_2015, Harper_2013
39 Cao_H_2013 Analysis of synonymous codon usage in Newcastle disease virus hemagglutinin–neuraminidase (HN) gene and fusion protein (F) gene Cao, Hong-wei; Li, De-shan; Zhang, Hua 2013 2013-11-12 PMC N PMC3889239 24426322.0 10.1007/s13337-013-0175-7 dowiji1c 0.627852 Gu_W_2004, Liu_Y_2010, Zhang_2014, Xu_X_2019 Sheikh_2020
40 Butt_2016 Evolution of codon usage in Zika virus genomes is host and vector specific Butt, Azeem Mehmood; Nasrullah, Izza; Qamar, Raheel; Tong, Yigang 2016 2016-10-12 COMM-USE N PMC5117728 27729643.0 10.1038/emi.2016.106 u9ydspc1 0.616645 Gu_W_2004, Liu_Y_2011, Butt_2016 Butt_2016, Liu_Y_2011, Sheikh_2020
41 Castells_2017 Genome-wide analysis of codon usage bias in Bovine Coronavirus Castells, Matías; Victoria, Matías; Colina, Rodney; Musto, Héctor; Cristina, Juan 2017 2017-06-17 COMM-USE N PMC5474002 28623921.0 10.1186/s12985-017-0780-y 6706zxf7 0.572334 Gu_W_2004, Liu_Y_2010, Zhang_2014, Zhang_2011, Xu_X_2019 Tort_2020, Sheikh_2020, Zhao_2008, Gu_W_2004
42 Tort_2020 A COMPREHENSIVE ANALYSIS OF GENOME COMPOSITION AND CODON USAGE PATTERNS OF EMERGING CORONAVIRUSES Tort, Fernando L.; Castells, Matías; Cristina, Juan 2020 2020-04-12 PMC Y 10.1016/j.virusres.2020.197976 hidirfkv 0.562508 Gu_W_2004, Zhang_2014, Liu_Y_2010, Xu_X_2019, Zhang_2012 Gu_W_2004, Sheikh_2020, Chen_2017
43 Ahn_I_2006 Genomic Analysis of Influenza A Viruses, including Avian Flu (H5N1) Strains Ahn, Insung; Jeong, Byeong-Jin; Bae, Se-Eun; Jung, Jin; Son, Hyeon S. 2006 2006-07-21 PMC N PMC7088104 16858618.0 10.1007/s10654-006-9031-z t6h7d8me 0.551262 Gu_W_2004
44 Brandão_2012 Avian coronavirus Spike Glycoprotein Ectodomain Shows a Low Codon Adaptation to Gallus gallus with Virus-Exclusive Codons in Strategic Amino Acids Positions Brandão, Paulo E. 2012 2012-08-19 PMC N PMC7079877 22903606.0 10.1007/s00239-012-9515-2 owenhaln 0.526488 Gu_W_2004, Liu_Y_2010, Zhang_2014, Xu_X_2019
45 Chen_2017 Analysis of the codon usage pattern in Middle East Respiratory Syndrome Coronavirus Chen, Ye; Xu, Quanming; Yuan, Xiaomin; Li, Xinxin; Zhu, Ting; Ma, Yanmei; Chen, Ji-Long 2017 2017-11-27 COMM-USE N PMC5746386 29299151.0 10.18632/oncotarget.22738 4r3vy2k4 0.511437 Gu_W_2004, Zhang_2014
46 Brandão_2018 Could human coronavirus OC43 have co-evolved with early humans? Brandão, Paulo Eduardo 2018 2018-06-28 COMM-USE N PMC6136381 30004106.0 10.1590/1678-4685-gmb-2017-0192 yu1fqq0q 0.505301 Gu_W_2004
47 Anwar_2020 Insights into The Codon Usage Bias of 13 Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Isolates from Different Geo-locations Ali Mostafa Anwar; Saif M. Khodary 2020 2020-04-02 BioRxiv Y 10.1101/2020.04.01.019463 ooj9yqbx 0.490594 Gu_W_2004, Liu_Y_2010, Zhang_2014, Liu_Y_2011, Xu_X_2019 Tort_2020, Gu_H_2020, Chen_2017
48 Gerdol_2015 Analysis of synonymous codon usage patterns in sixty-four different bivalve species Gerdol, Marco; De Moro, Gianluca; Venier, Paola; Pallavicini, Alberto 2015 2015-12-14 COMM-USE N PMC4690358 26713259.0 10.7717/peerj.1520 c6j4s5kb 0.488584 Gu_W_2004, Zhang_2014 Yi_Y_2012, Li_X_2016, Li_S_2014, Gu_W_2004
49 Ahn_I_2011 Comparative study of codon substitution patterns in foot-and-mouth disease virus (serotype O) Ahn, Insung; Bae, Se-Eun; Son, Hyeon Seok 2011 2011-01-01 PMC N PMC3222820 21825834.0 10.3858/emm.2011.43.10.066 pnk26rg7 0.482356 Gu_W_2004, Liu_Y_2010, Zhang_2014 Liu_Y_2010, Gu_W_2004
50 Wassenaar_2019 Comparative genomics of hepatitis A virus, hepatitis C virus, and hepatitis E virus provides insights into the evolutionary history of Hepatovirus species Wassenaar, Trudy M.; Jun, Se‐Ran; Robeson, Michael; Ussery, David W. 2019 2019-11-19 NONCOMM N PMC7002107 31742930.0 10.1002/mbo3.973 3hayxyuk 0.474666
51 Guan_2018 Analysis of codon usage patterns in Hirudinaria manillensis reveals a preference for GC-ending codons caused by dominant selection constraints Guan, De-Long; Ma, Li-Bin; Khan, Muhammad Salabat; Zhang, Xiu-Xiu; Xu, Sheng-Quan; Xie, Juan-Ying 2018 2018-07-17 COMM-USE N PMC6050667 30016953.0 10.1186/s12864-018-4937-x 1yhxnvoh 0.472256 Gu_W_2004, Liu_Y_2010, Li_X_2016, Zhang_2014, Zhang_2012 Yi_Y_2012, Jiang_2007, Gu_W_2004, Chakraborty_2019
52 Zang_2017 Analysis of the codon usage of the ORF2 gene of feline calicivirus Zang, Minghui; He, Wanting; Du, Fanshu; Wu, Gongjian; Wu, Bohao; Zhou, Zhenlei 2017 2017-10-31 PMC N PMC7106028 28625542.0 10.1016/j.meegid.2017.06.013 7pflfznh 0.458796 Gu_W_2004, Zhang_2014
53 He_W_2019 Comprehensive codon usage analysis of porcine deltacoronavirus He, Wei; Wang, Ningning; Tan, Jimin; Wang, Ruyi; Yang, Yichen; Li, Gairu; Guan, Haifei; Zheng, Yuna; Shi, Xinze; Ye, Rui; Su, Shuo; Zhou, Jiyong 2019 2019-12-31 PMC N PMC7111727 31536759.0 10.1016/j.ympev.2019.106618 oununr9g 0.450730 Gu_W_2004, Zhang_2014, Xu_X_2019, Liu_Y_2011
54 Mazumder_2015 Gaining Insights into the Codon Usage Patterns of TP53 Gene across Eight Mammalian Species Mazumder, Tarikul Huda; Chakraborty, Supriyo 2015 2015-03-25 COMM-USE N PMC4373688 25807269.0 10.1371/journal.pone.0121709 1qtqergw 0.430686 Gu_W_2004, Zhang_2014 Yi_Y_2012, Sheikh_2020, He_Q_2012, Liu_Y_2010
55 Tian_2018 The adaptation of codon usage of +ssRNA viruses to their hosts Tian, Lin; Shen, Xuejuan; Murphy, Robert W.; Shen, Yongyi 2018 2018-09-30 PMC N PMC7106036 29864509.0 10.1016/j.meegid.2018.05.034 wgeuh1i2 0.428279 Gu_W_2004 Sheikh_2020, Liu_Y_2011
56 Sheikh_2020 Analysis of preferred codon usage in the coronavirus N genes and their implications for genome evolution and vaccine design Sheikh, Abdullah; Al-Taher, Abdulla; Al-Nazawi, Mohammed; Al-Mubarak, Abdullah I.; Kandeel, Mahmoud 2020 2020-03-31 PMC N PMC7119019 31911390.0 10.1016/j.jviromet.2019.113806 z9p1ylsr 0.424364 Gu_W_2004, Liu_Y_2010, Zhang_2014, Liu_Y_2011 Gu_W_2004
57 van_Hemert_2007 Host-related nucleotide composition and codon usage as driving forces in the recent evolution of the Astroviridae van Hemert, Formijn J.; Berkhout, Ben; Lukashov, Vladimir V. 2007 2007-05-10 PMC N PMC7127384 17188318.0 10.1016/j.virol.2006.11.021 vlpdirjs 0.394160 Gu_W_2004, Liu_Y_2011, Zhang_2014 Sheikh_2020, Padhi_2008
58 Brandão_2013 The evolution of codon usage in structural and non-structural viral genes: The case of Avian coronavirus and its natural host Gallus gallus Brandão, Paulo Eduardo 2013 2013-12-26 PMC N PMC7114390 24091362.0 10.1016/j.virusres.2013.09.033 dtfw8o4g 0.392112 Gu_W_2004, Liu_Y_2010, Liu_Y_2011 Sheikh_2020, Ahn_I_2009
59 Ahn_I_2009 Comparative study of synonymous codon usage variations between the nucleocapsid and spike genes of coronavirus, and C-type lectin domain genes of human and mouse Ahn, Insung; Jeong, Byeong-Jin; Son, Hyeon Seok 2009 2009-01-01 None N PMC2772977 19561398.0 10.3858/emm.2009.41.10.081 afvhp7z6 0.369226 Gu_W_2004, Liu_Y_2010
60 Dilucca_2020 Codon usage and evolutionary rates of the 2019-nCoV genes Maddalena Dilucca; Athanasia Pavlopoulou; Sergio Forcelloni; ANDREA GIANSANTI; Alexandros G Georgakilas 2020 2020-03-27 BioRxiv Y 10.1101/2020.03.25.006569 l9vtsj3e 0.311496 Gu_W_2004 Sheikh_2020, Gu_W_2004
61 Leuven_2020 ΦX174 Attenuation by Whole Genome Codon Deoptimization James T. Van Leuven; Martina M. Ederer; Katelyn Burleigh; LuAnn Scott; Randall A. Hughes; Vlad Codrea; Andrew D. Ellington; Holly Wichman; Craig Miller 2020 2020-02-11 BioRxiv N 10.1101/2020.02.10.942847 mpb4fy16 0.309568 Gu_W_2004, Zhang_2014