BioSamples database: FAIRer samples metadata to accelerate research data management.
BioSamples database: FAIRer samples metadata to accelerate research data management.
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BioSamples数据库：FAIRer样本元数据加速研究数据管理。
DOI：
10.1093/nar/gkab1046
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发表时间：
2022-01-07
影响因子：
14.9
通讯作者：
Burdett T
中科院分区：
文献类型：
--
作者：
Courtot M;Gupta D;Liyanage I;Xu F;Burdett T
EMBL-EBI的生物样本数据库是样本元数据存储和与EMBL-EBI档案和其他资源连接的中央机构储存库。我们在上一次更新中描述了对我们基础设施的技术改进，使我们能够扩大和容纳越来越多的社区，导致提交的数量更多，数据也更多样化。生物样本数据库现在有一套有价值的特点和程序，以提高生物样本的数据质量，特别是丰富元数据内容并遵循公平原则。在这份手稿中，我们描述了2021年的生物样本如何通过示范用例处理我们用户社区的需求：样本可获取性的提高和数据管理实践的改进支持Resolte项目的目标，植物群落如何从能够将基因型信息与表型信息联系起来而受益，我们还强调了这些改进如何累积地促进更复杂的多组学数据集成，支持新冠肺炎研究。最后，我们介绍了在这些用例中用作支柱的基本技术功能，以及如何重新使用它们来扩大与FAIRplus和全球基因组学与健康联盟等社区的接触。可获得性：生物样本数据库可在http://www.ebi.ac.uk/biosamples.免费获得内容是根据https://www.ebi.ac.uk/about/terms-of-use.上提供的EMBLEBI使用条款分发的生物样本代码可以在https://github.com/EBIBioSamples/biosamples-v4上获得，并按照Apache2.0许可证分发。
The BioSamples database at EMBL-EBI is the central institutional repository for sample metadata storage and connection to EMBL-EBI archives and other resources. The technical improvements to our infrastructure described in our last update have enabled us to scale and accommodate an increasing number of communities, resulting in a higher number of submissions and more heterogeneous data. The BioSamples database now has a valuable set of features and processes to improve data quality in BioSamples, and in particular enriching metadata content and following FAIR principles. In this manuscript, we describe how BioSamples in 2021 handles requirements from our community of users through exemplar use cases: increased findability of samples and improved data management practices support the goals of the ReSOLUTE project, how the plant community benefits from being able to link genotypic to phenotypic information, and we highlight how cumulatively those improvements contribute to more complex multi-omics data integration supporting COVID-19 research. Finally, we present underlying technical features used as pillars throughout those use cases and how they are reused for expanded engagement with communities such as FAIRplus and the Global Alliance for Genomics and Health. Availability: The BioSamples database is freely available at http://www.ebi.ac.uk/biosamples. Content is distributed under the EMBL-EBI Terms of Use available at https://www.ebi.ac.uk/about/terms-of-use. The BioSamples code is available at https://github.com/EBIBioSamples/biosamples-v4 and distributed under the Apache 2.0 license.
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影响因子：
14.9
作者：
Harrison PW;Ahamed A;Aslam R;Alako BTF;Burgin J;Buso N;Courtot M;Fan J;Gupta D;Haseeb M;Holt S;Ibrahim T;Ivanov E;Jayathilaka S;Balavenkataraman Kadhirvelu V;Kumar M;Lopez R;Kay S;Leinonen R;Liu X;O'Cathail C;Pakseresht A;Park Y;Pesant S;Rahman N;Rajan J;Sokolov A;Vijayaraja S;Waheed Z;Zyoud A;Burdett T;Cochrane G
通讯作者：
Cochrane G
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：
64.8
作者：
COVID-19 Host Genetics Initiative
通讯作者：
COVID-19 Host Genetics Initiative
影响因子：
14.9
作者：
Cezard T;Cunningham F;Hunt SE;Koylass B;Kumar N;Saunders G;Shen A;Silva AF;Tsukanov K;Venkataraman S;Flicek P;Parkinson H;Keane TM
通讯作者：
Keane TM
影响因子：
14.9
作者：
Harrison PW;Lopez R;Rahman N;Allen SG;Aslam R;Buso N;Cummins C;Fathy Y;Felix E;Glont M;Jayathilaka S;Kadam S;Kumar M;Lauer KB;Malhotra G;Mosaku A;Edbali O;Park YM;Parton A;Pearce M;Estrada Pena JF;Rossetto J;Russell C;Selvakumar S;Sitjà XP;Sokolov A;Thorne R;Ventouratou M;Walter P;Yordanova G;Zadissa A;Cochrane G;Blomberg N;Apweiler R
通讯作者：
Apweiler R