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9.1 years ago
Zhilong Jia
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2.2k
How to map gds ids to gse ids in R? There are lots of GDS. As we know, a GDS must have a GSE.
How to map gds ids to gse ids in R? There are lots of GDS. As we know, a GDS must have a GSE.
The GEOmetadb bioconductor package can do this for all GDS if you like:
library(GEOmetadb) sfile = getSQLiteFile() con = dbConnect(SQLite(),sfile) dbGetQuery(con,'select gds,title,gse,gpl from gds')
This results in (first 10 rows only):
gds title gse gpl 1 GDS5 Diurnal and circadian-regulated genes (I) GSE4 GPL13 2 GDS6 Germline development and function GSE5 GPL14 3 GDS10 Type 1 diabetes gene expression profiling GSE11 GPL24 4 GDS12 Bone marrow stromal cell lines GSE463 GPL44 5 GDS15 Heat shock from various temperatures to 37°C GSE18 GPL51 6 GDS16 Heat shock from 25°C to 37°C time course GSE18 GPL51 7 GDS17 Hydrogen peroxide response GSE18 GPL51 8 GDS18 Stationary phase time course (y12) GSE18 GPL52 9 GDS19 Nitrogen depletion time course GSE18 GPL52 10 GDS20 Hyper-osmotic shock time course GSE18 GPL52
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