Hallmark pre-calculated GeneQeury results

Download offline version as web-report

This is the output of all MsigDB «hallmark» genesets that was returned by GeneQuery when searched against all three available databases (human, mouse, and rat).
In order for the hyperlinks to work correctly, please make sure you are connected to the Internet.
Number of significant results returned for each geneset is given below.

Database

Database that is behind GeneQuery is collected for each species into GMT-like files. Each line of such file has the following format:

GSE1001_GPL85#2 690229,688721,688429,687346,685883,685867,...

where:

• GSE1001_GPL85#2 – module identifier (GSE1001 – series, GPL85 – platform, 2 – module number);
• 690229,688721,688429,... – comma-separated module genes' Entrez IDs;
• module identifier is separated from genes with TAB.

Please, find following links to download data:

• all species at once: genequery_modules_all_species.tar.bz2 (77M)
• human: genequery_modules_human.tar.bz2 (41M)
• mouse: genequery_modules_mouse.tar.bz2 (30M)
• rat: genequery_modules_rat.tar.bz2 (5M)

GeneQuery: console version

Please, check out documentation on our github repository.
For running command line version of GeneQuery you will need following files:

• internal data: gqcmd-internal.tar.gz
• pre-compiled JAR executable file: gqcmd.jar (java 8 required)