From ArrayExpress to BioStudies.
From ArrayExpress to BioStudies.
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DOI：
10.1093/nar/gkaa1062
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发表时间：
2021-01-08
影响因子：
14.9
通讯作者：
Brazma A
中科院分区：
文献类型：
--
作者：
Sarkans U;Füllgrabe A;Ali A;Athar A;Behrangi E;Diaz N;Fexova S;George N;Iqbal H;Kurri S;Munoz J;Rada J;Papatheodorou I;Brazma A
ArrayExpress（https：//www.ebi.ac.uk/arrayexpress）是EMBL-EBI的功能基因组学数据存档，成立于2002年，最初作为与出版相关的微阵列数据存档，后来扩展到接受基于测序的数据。在过去的十年中，越来越多的生物实验涉及多种技术，分析不同的生物模式，如表观遗传学，RNA和蛋白质表达，因此建立了BioStudies数据库（https：//www.ebi.ac.uk/biostudies）来处理这种多模式数据。其中心概念是一项研究，通常与出版物相关联。BioStudies存储描述研究的元数据，提供相关数据库的链接，如欧洲核苷酸档案（ENA），以及托管不存在专门数据库的数据类型。随着BioStudies功能的全面发挥，我们能够进一步协调EMBL-EBI的存档数据基础设施，ArrayExpress正在迁移到BioStudies。将来，所有功能基因组学数据将在BioStudies存档。用户将继续使用在线工具Annotare提交数据，并将能够以与以前基本相同的方式查询和下载数据。然而，一些技术方面，特别是方案准入，将发生变化。此更新将指导用户完成这些更改。
ArrayExpress (https://www.ebi.ac.uk/arrayexpress) is an archive of functional genomics data at EMBL-EBI, established in 2002, initially as an archive for publication-related microarray data and was later extended to accept sequencing-based data. Over the last decade an increasing share of biological experiments involve multiple technologies assaying different biological modalities, such as epigenetics, and RNA and protein expression, and thus the BioStudies database (https://www.ebi.ac.uk/biostudies) was established to deal with such multimodal data. Its central concept is a study, which typically is associated with a publication. BioStudies stores metadata describing the study, provides links to the relevant databases, such as European Nucleotide Archive (ENA), as well as hosts the types of data for which specialized databases do not exist. With BioStudies now fully functional, we are able to further harmonize the archival data infrastructure at EMBL-EBI, and ArrayExpress is being migrated to BioStudies. In future, all functional genomics data will be archived at BioStudies. The process will be seamless for the users, who will continue to submit data using the online tool Annotare and will be able to query and download data largely in the same manner as before. Nevertheless, some technical aspects, particularly programmatic access, will change. This update guides the users through these changes.
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影响因子：
48
作者：
Stoeckius M;Hafemeister C;Stephenson W;Houck-Loomis B;Chattopadhyay PK;Swerdlow H;Satija R;Smibert P
通讯作者：
Smibert P
影响因子：
14.9
作者：
Levchenko M;Gou Y;Graef F;Hamelers A;Huang Z;Ide-Smith M;Iyer A;Kilian O;Katuri J;Kim JH;Marinos N;Nambiar R;Parkin M;Pi X;Rogers F;Talo F;Vartak V;Venkatesan A;McEntyre J
通讯作者：
McEntyre J
影响因子：
14.9
作者：
Kolesnikov N;Hastings E;Keays M;Melnichuk O;Tang YA;Williams E;Dylag M;Kurbatova N;Brandizi M;Burdett T;Megy K;Pilicheva E;Rustici G;Tikhonov A;Parkinson H;Petryszak R;Sarkans U;Brazma A
通讯作者：
Brazma A
影响因子：
48
作者：
Ellenberg J;Swedlow JR;Barlow M;Cook CE;Sarkans U;Patwardhan A;Brazma A;Birney E
通讯作者：
Birney E
影响因子：
14.9
作者：
Papatheodorou, Irene;Moreno, Pablo;Brazma, Alvis
通讯作者：
Brazma, Alvis