NCBI GEO: archive for functional genomics data sets--10 years on.
NCBI GEO: archive for functional genomics data sets--10 years on.
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DOI：
10.1093/nar/gkq1184
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发表时间：
2011-01
影响因子：
14.9
通讯作者：
Soboleva A
中科院分区：
文献类型：
--
作者：
Barrett T;Troup DB;Wilhite SE;Ledoux P;Evangelista C;Kim IF;Tomashevsky M;Marshall KA;Phillippy KH;Sherman PM;Muertter RN;Holko M;Ayanbule O;Yefanov A;Soboleva A
十年前，基因表达综合数据库（GEO）在国家生物技术信息中心（NCBI）建立。GEO最初的目标是作为一个公共的高通量基因表达数据库，主要由微阵列技术产生。然而，研究界很快将微阵列应用于非基因表达研究，包括检查基因组拷贝数变异和DNA结合蛋白的全基因组分析。由于全球环境展望数据库的设计具有灵活的结构，因此可以迅速调整储存库以储存这些数据类型。最近，随着微阵列社区转向下一代测序技术，GEO再次适应托管这些数据集。今天，GEO存储了超过20000个基于微阵列和序列的功能基因组学研究，并继续处理来自研究界的大部分直接高通量数据提交。提供多种机制来帮助用户有效地搜索、浏览、下载和可视化单个基因或整个研究水平的数据。本文介绍了最近的数据库增强，包括新的搜索和数据表示工具，以及社区如何使用地球观测数据的简要审查。全球环境展望可在http://www.ncbi.nlm.nih.gov/geo/上免费查阅。
A decade ago, the Gene Expression Omnibus (GEO) database was established at the National Center for Biotechnology Information (NCBI). The original objective of GEO was to serve as a public repository for high-throughput gene expression data generated mostly by microarray technology. However, the research community quickly applied microarrays to non-gene-expression studies, including examination of genome copy number variation and genome-wide profiling of DNA-binding proteins. Because the GEO database was designed with a flexible structure, it was possible to quickly adapt the repository to store these data types. More recently, as the microarray community switches to next-generation sequencing technologies, GEO has again adapted to host these data sets. Today, GEO stores over 20 000 microarray- and sequence-based functional genomics studies, and continues to handle the majority of direct high-throughput data submissions from the research community. Multiple mechanisms are provided to help users effectively search, browse, download and visualize the data at the level of individual genes or entire studies. This paper describes recent database enhancements, including new search and data representation tools, as well as a brief review of how the community uses GEO data. GEO is freely accessible at http://www.ncbi.nlm.nih.gov/geo/.
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影响因子：
3.7
作者：
Lopez F;Textoris J;Bergon A;Didier G;Remy E;Granjeaud S;Imbert J;Nguyen C;Puthier D
通讯作者：
Puthier D
影响因子：
14.9
作者：
Barrett T;Troup DB;Wilhite SE;Ledoux P;Rudnev D;Evangelista C;Kim IF;Soboleva A;Tomashevsky M;Marshall KA;Phillippy KH;Sherman PM;Muertter RN;Edgar R
通讯作者：
Edgar R
影响因子：
14.9
作者：
Parkinson H;Kapushesky M;Kolesnikov N;Rustici G;Shojatalab M;Abeygunawardena N;Berube H;Dylag M;Emam I;Farne A;Holloway E;Lukk M;Malone J;Mani R;Pilicheva E;Rayner TF;Rezwan F;Sharma A;Williams E;Bradley XZ;Adamusiak T;Brandizi M;Burdett T;Coulson R;Krestyaninova M;Kurnosov P;Maguire E;Neogi SG;Rocca-Serra P;Sansone SA;Sklyar N;Zhao M;Sarkans U;Brazma A
通讯作者：
Brazma A
影响因子：
5.8
作者：
Tuna, Salih;Niranjan, Mahesan
通讯作者：
Niranjan, Mahesan
DOI：
10.1073/pnas.0610772104
发表时间：
2007-02-06
影响因子：
11.1
作者：
Duarte, Natalie C.;Becker, Scott A.;Palsson, Bernhard O.
通讯作者：
Palsson, Bernhard O.