tetano
Editor, Senior Moderator
Brief Bioinform
. 2024 Mar 27;25(3):bbae183.
doi: 10.1093/bib/bbae183. CovEpiAb: a comprehensive database and analysis resource for immune epitopes and antibodies of human coronaviruses
Xue Zhang[SUP] 1 [/SUP], JingCheng Wu[SUP] 1 [/SUP], Yuanyuan Luo[SUP] 1 [/SUP], Yilin Wang[SUP] 1 [/SUP], Yujie Wu[SUP] 1 [/SUP], Xiaobin Xu[SUP] 1 [/SUP], Yufang Zhang[SUP] 1 [/SUP], Ruiying Kong[SUP] 1 [/SUP], Ying Chi[SUP] 2 3 [/SUP], Yisheng Sun[SUP] 4 [/SUP], Shuqing Chen[SUP] 1 [/SUP], Qiaojun He[SUP] 1 5 [/SUP], Feng Zhu[SUP] 1 5 2 [/SUP], Zhan Zhou[SUP] 1 5 2 6 [/SUP]
Affiliations
Coronaviruses have threatened humans repeatedly, especially COVID-19 caused by SARS-CoV-2, which has posed a substantial threat to global public health. SARS-CoV-2 continuously evolves through random mutation, resulting in a significant decrease in the efficacy of existing vaccines and neutralizing antibody drugs. It is critical to assess immune escape caused by viral mutations and develop broad-spectrum vaccines and neutralizing antibodies targeting conserved epitopes. Thus, we constructed CovEpiAb, a comprehensive database and analysis resource of human coronavirus (HCoVs) immune epitopes and antibodies. CovEpiAb contains information on over 60 000 experimentally validated epitopes and over 12 000 antibodies for HCoVs and SARS-CoV-2 variants. The database is unique in (1) classifying and annotating cross-reactive epitopes from different viruses and variants; (2) providing molecular and experimental interaction profiles of antibodies, including structure-based binding sites and around 70 000 data on binding affinity and neutralizing activity; (3) providing virological characteristics of current and past circulating SARS-CoV-2 variants and in vitro activity of various therapeutics; and (4) offering site-level annotations of key functional features, including antibody binding, immunological epitopes, SARS-CoV-2 mutations and conservation across HCoVs. In addition, we developed an integrated pipeline for epitope prediction named COVEP, which is available from the webpage of CovEpiAb. CovEpiAb is freely accessible at https://pgx.zju.edu.cn/covepiab/.
Keywords: SARS-CoV-2 variants; antibodies; human coronaviruses (HCoVs); immune epitope; vaccines.
. 2024 Mar 27;25(3):bbae183.
doi: 10.1093/bib/bbae183. CovEpiAb: a comprehensive database and analysis resource for immune epitopes and antibodies of human coronaviruses
Xue Zhang[SUP] 1 [/SUP], JingCheng Wu[SUP] 1 [/SUP], Yuanyuan Luo[SUP] 1 [/SUP], Yilin Wang[SUP] 1 [/SUP], Yujie Wu[SUP] 1 [/SUP], Xiaobin Xu[SUP] 1 [/SUP], Yufang Zhang[SUP] 1 [/SUP], Ruiying Kong[SUP] 1 [/SUP], Ying Chi[SUP] 2 3 [/SUP], Yisheng Sun[SUP] 4 [/SUP], Shuqing Chen[SUP] 1 [/SUP], Qiaojun He[SUP] 1 5 [/SUP], Feng Zhu[SUP] 1 5 2 [/SUP], Zhan Zhou[SUP] 1 5 2 6 [/SUP]
Affiliations
- PMID: 38653491
- DOI: 10.1093/bib/bbae183
Coronaviruses have threatened humans repeatedly, especially COVID-19 caused by SARS-CoV-2, which has posed a substantial threat to global public health. SARS-CoV-2 continuously evolves through random mutation, resulting in a significant decrease in the efficacy of existing vaccines and neutralizing antibody drugs. It is critical to assess immune escape caused by viral mutations and develop broad-spectrum vaccines and neutralizing antibodies targeting conserved epitopes. Thus, we constructed CovEpiAb, a comprehensive database and analysis resource of human coronavirus (HCoVs) immune epitopes and antibodies. CovEpiAb contains information on over 60 000 experimentally validated epitopes and over 12 000 antibodies for HCoVs and SARS-CoV-2 variants. The database is unique in (1) classifying and annotating cross-reactive epitopes from different viruses and variants; (2) providing molecular and experimental interaction profiles of antibodies, including structure-based binding sites and around 70 000 data on binding affinity and neutralizing activity; (3) providing virological characteristics of current and past circulating SARS-CoV-2 variants and in vitro activity of various therapeutics; and (4) offering site-level annotations of key functional features, including antibody binding, immunological epitopes, SARS-CoV-2 mutations and conservation across HCoVs. In addition, we developed an integrated pipeline for epitope prediction named COVEP, which is available from the webpage of CovEpiAb. CovEpiAb is freely accessible at https://pgx.zju.edu.cn/covepiab/.
Keywords: SARS-CoV-2 variants; antibodies; human coronaviruses (HCoVs); immune epitope; vaccines.