GEO 数据库
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https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2308-x
BART: bioinformatics array research tool -
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GEORAC: an RNA-seq Atlas Constructor for the
Gene Expression Omnibus
https://dc.uwm.edu/cgi/viewcontent.cgi?article=2880&context=etd -
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https://www.nature.com/articles/sdata2017125
Precision annotation of digital samples in NCBI’s gene expression omnibus
http://stargeo.org/ 对GEO的所有样本做了标签化注释 -
https://academic.oup.com/bioinformatics/article/28/8/1184/194911
RNA-Seq Atlas—a reference database for gene expression profiling in normal tissue by next-generation sequencing -
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https://www.ncbi.nlm.nih.gov/labs/pmc/articles/PMC6333964/
Restructured GEO: restructuring Gene Expression Omnibus metadata for genome dynamics analysis
http://www.regeo.org
对GEO做了文本挖掘增加了时间线和疾病功能
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https://link.springer.com/article/10.1007/s12551-018-0490-8
Mining data and metadata from the gene expression omnibus
对GEO数据的挖掘做了详细分析
里面提到了一些二次挖掘的工具列表
https://link.springer.com/article/10.1007/s12551-018-0490-8/tables/1
metadata的三种提炼思路：
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一些可以用的git库
https://github.com/guma44/GEOparse
python实现 对标geoquery -
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https://imageo.genyo.es/#
对GEO进行meta-analysis分析
