文章基本信息

标题：Precision annotation of digital samples in NCBIs gene expression omnibus
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作者：Dexter Hadley ; James Pan ; Osama El-Sayed 等
期刊名称：Scientific Data
电子版ISSN：2052-4463
出版年度：2017
卷号：4
DOI：10.1038/sdata.2017.125
语种：English
出版社：Nature Publishing Group
摘要：The Gene Expression Omnibus (GEO) contains more than two million digital samples from functional genomics experiments amassed over almost two decades. However, individual sample meta-data remains poorly described by unstructured free text attributes preventing its largescale reanalysis. We introduce the Search Tag Analyze Resource for GEO as a web application (http://STARGEO.org) to curate better annotations of sample phenotypes uniformly across different studies, and to use these sample annotations to define robust genomic signatures of disease pathology by meta-analysis. In this paper, we target a small group of biomedical graduate students to show rapid crowd-curation of precise sample annotations across all phenotypes, and we demonstrate the biological validity of these crowd-curated annotations for breast cancer. STARGEO.org makes GEO data findable, accessible, interoperable and reusable (i.e., FAIR) to ultimately facilitate knowledge discovery. Our work demonstrates the utility of crowd-curation and interpretation of open 鈥榖ig data鈥?under FAIR principles as a first step towards realizing an ideal paradigm of precision medicine.