Observed Antibody Space: A diverse database of cleaned, annotated, and translated unpaired and paired antibody sequences.
Observed Antibody Space: A diverse database of cleaned, annotated, and translated unpaired and paired antibody sequences.
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DOI：
10.1002/pro.4205
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发表时间：
2022-01
期刊：
影响因子：
--
通讯作者：
Deane CM
中科院分区：
文献类型：
--
作者：
Olsen TH;Boyles F;Deane CM
个体和群体的抗体库已被用于探索疾病状态，了解疫苗反应，并推动治疗发展。B细胞受体库测序的到来使研究人员能够获得这些抗体库的快照，并且随着更多数据的产生，越来越深入的研究成为可能。但是，大多数公开可用的数据仅以原始FASTQ文件的形式存在，这使得数据难以访问、处理和比较。观察抗体空间（OAS）数据库创建于2018年，提供干净、注释和翻译的库数据。在本文中，我们描述了由数据量的增加和成对（VH/VL）序列数据的出现驱动的OAS更新。OAS现在可以通过一个新的web服务器访问，具有标准化的搜索参数和一个新的基于序列的搜索选项。新数据库提供了每个序列的核苷酸和氨基酸，并附有额外的序列注释，使数据符合适应性免疫受体库的最小信息，并对序列的潜在问题进行了评论。美洲国家数据库现在包含25项新研究，包括严重急性呼吸综合征冠状病毒数据和配对测序数据。新数据库可在http://opig.stats.ox.ac.uk/webapps/oas/上访问，所有数据都可以免费下载。
The antibody repertoires of individuals and groups have been used to explore disease states, understand vaccine responses, and drive therapeutic development. The arrival of B‐cell receptor repertoire sequencing has enabled researchers to get a snapshot of these antibody repertoires, and as more data are generated, increasingly in‐depth studies are possible. However, most publicly available data only exist as raw FASTQ files, making the data hard to access, process, and compare. The Observed Antibody Space (OAS) database was created in 2018 to offer clean, annotated, and translated repertoire data. In this paper, we describe an update to OAS that has been driven by the increasing volume of data and the appearance of paired (VH/VL) sequence data. OAS is now accessible via a new web server, with standardized search parameters and a new sequence‐based search option. The new database provides both nucleotides and amino acids for every sequence, with additional sequence annotations to make the data Minimal Information about Adaptive Immune Receptor Repertoire compliant, and comments on potential problems with the sequence. OAS now contains 25 new studies, including severe acute respiratory syndrome coronavirus 2 data and paired sequencing data. The new database is accessible at http://opig.stats.ox.ac.uk/webapps/oas/, and all data are freely available for download.
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影响因子：
14.9
作者：
NCBI Resource Coordinators
通讯作者：
NCBI Resource Coordinators
影响因子：
3.1
作者：
Christley S;Aguiar A;Blanck G;Breden F;Bukhari SAC;Busse CE;Jaglale J;Harikrishnan SL;Laserson U;Peters B;Rocha A;Schramm CA;Taylor S;Vander Heiden JA;Zimonja B;Watson CT;Corrie B;Cowell LG
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影响因子：
8.8
作者：
Greiff, Victor;Menzel, Ulrike;Reddy, Sai T.
通讯作者：
Reddy, Sai T.
影响因子：
5.8
作者：
Dunbar, James;Deane, Charlotte M.
通讯作者：
Deane, Charlotte M.
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5.9
作者：
Goldstein, Leonard D.;Chen, Ying-Jiun J.;Seshagiri, Somasekar
通讯作者：
Seshagiri, Somasekar