UniProt and Mass Spectrometry-Based Proteomics-A 2-Way Working Relationship.
UniProt and Mass Spectrometry-Based Proteomics-A 2-Way Working Relationship.
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DOI：
10.1016/j.mcpro.2023.100591
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发表时间：
2023-08
影响因子：
7
通讯作者：
Orchard, S.
中科院分区：
文献类型：
--
作者：
Bowler-Barnett, E. H.;Fan, J.;Luo, J.;Magrane, M.;Martin, M. J.;Orchard, S.
人类蛋白质组由从人类基因组翻译的序列产生的所有蛋白质组成，并在序列和功能上进行了由非同义变体和翻译后修饰（包括将初始转录物裂解成更小的肽和多肽）引起的额外修饰。 UniProtKB 数据库 (www.uniprot.org) 是世界领先的高质量、全面且可免费获取的蛋白质序列和功能信息资源，并提供了由我们的专家生物管理团队为蛋白质组中的每种蛋白质添加的经实验验证或计算预测的功能信息的摘要。基于质谱的蛋白质组学领域的研究人员既消耗 UniProtKB 中的可用数据体，又将其添加到 UniProtKB 中，这篇综述重点介绍了我们向该社区提供的信息以及我们通过在公共领域数据库中存储大规模数据集而从团体中获得的知识。优质、全面、免费的蛋白质序列和功能资源。提供了包括人类在内的全蛋白质组序列参考集。包括异构体、后处理链、PTM、变体和功能域。从公共领域存储库导入并显示肽和 PTM 标识。通过网站、API 或 ftp 访问，下载多种社区数据格式的数据。 UniProt 是世界领先的高质量、全面且可免费获取的蛋白质序列和功能信息资源，全球基于质谱的蛋白质组学界使用 UniProt 将肽鉴定映射到蛋白质。该数据库提供可能影响其功能的蛋白质序列特征的详细信息，例如翻译后修饰。 UniProt 反过来获取研究人员在公共领域数据库中发布或存放的数据，并使用这些数据来增加相关条目的信息内容。
The human proteome comprises of all of the proteins produced by the sequences translated from the human genome with additional modifications in both sequence and function caused by nonsynonymous variants and posttranslational modifications including cleavage of the initial transcript into smaller peptides and polypeptides. The UniProtKB database (www.uniprot.org) is the world’s leading high-quality, comprehensive and freely accessible resource of protein sequence and functional information and presents a summary of experimentally verified, or computationally predicted, functional information added by our expert biocuration team for each protein in the proteome. Researchers in the field of mass spectrometry–based proteomics both consume and add to the body of data available in UniProtKB, and this review highlights the information we provide to this community and the knowledge we in turn obtain from groups via deposition of large-scale datasets in public domain databases. High-quality, comprehensive, free resource of protein sequence and function. Reference sets of whole-proteome sequence, including human, made available. Includes isoforms, postprocessed chains, PTMs, variants, and functional domains. Imports and displays peptide and PTM identifications from public domain repositories. Access via website, API or ftp, download data in multiple community data formats. UniProt, the world’s leading high-quality, comprehensive, and freely accessible resource of protein sequence and functional information, is used by the global mass spectrometry–based proteomics community to map peptide identifications to proteins. The database supplies details of protein sequence features which may affect their function, such as posttranslation modifications. UniProt in turn takes data which researchers publish or deposit in public domain databases and uses this to increase the information content of relevant entries.
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影响因子：
14.9
作者：
Blum M;Chang HY;Chuguransky S;Grego T;Kandasaamy S;Mitchell A;Nuka G;Paysan-Lafosse T;Qureshi M;Raj S;Richardson L;Salazar GA;Williams L;Bork P;Bridge A;Gough J;Haft DH;Letunic I;Marchler-Bauer A;Mi H;Natale DA;Necci M;Orengo CA;Pandurangan AP;Rivoire C;Sigrist CJA;Sillitoe I;Thanki N;Thomas PD;Tosatto SCE;Wu CH;Bateman A;Finn RD
通讯作者：
Finn RD
影响因子：
14.9
作者：
Arita M;Karsch-Mizrachi I;Cochrane G
通讯作者：
Cochrane G
影响因子：
14.9
作者：
Howe KL;Achuthan P;Allen J;Allen J;Alvarez-Jarreta J;Amode MR;Armean IM;Azov AG;Bennett R;Bhai J;Billis K;Boddu S;Charkhchi M;Cummins C;Da Rin Fioretto L;Davidson C;Dodiya K;El Houdaigui B;Fatima R;Gall A;Garcia Giron C;Grego T;Guijarro-Clarke C;Haggerty L;Hemrom A;Hourlier T;Izuogu OG;Juettemann T;Kaikala V;Kay M;Lavidas I;Le T;Lemos D;Gonzalez Martinez J;Marugán JC;Maurel T;McMahon AC;Mohanan S;Moore B;Muffato M;Oheh DN;Paraschas D;Parker A;Parton A;Prosovetskaia I;Sakthivel MP;Salam AIA;Schmitt BM;Schuilenburg H;Sheppard D;Steed E;Szpak M;Szuba M;Taylor K;Thormann A;Threadgold G;Walts B;Winterbottom A;Chakiachvili M;Chaubal A;De Silva N;Flint B;Frankish A;Hunt SE;IIsley GR;Langridge N;Loveland JE;Martin FJ;Mudge JM;Morales J;Perry E;Ruffier M;Tate J;Thybert D;Trevanion SJ;Cunningham F;Yates AD;Zerbino DR;Flicek P
通讯作者：
Flicek P
影响因子：
14.9
作者：
Gene Ontology Consortium
通讯作者：
Gene Ontology Consortium
影响因子：
4.4
作者：
LeDuc RD;Deutsch EW;Binz PA;Fellers RT;Cesnik AJ;Klein JA;Van Den Bossche T;Gabriels R;Yalavarthi A;Perez-Riverol Y;Carver J;Bittremieux W;Kawano S;Pullman B;Bandeira N;Kelleher NL;Thomas PM;Vizcaíno JA
通讯作者：
Vizcaíno JA