JP Mar 17 16

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Julia Preziosi

Wrote our first status report after our oral presentation on the 15th.


GO Slim:

Want to map the whole transcriptome (relative expressions?) GO Slim terms and compare to gene of interest (relative expression?) GO Slim terms.


Resources:

Generic GO term Mapper:

http://go.princeton.edu/cgi-bin/GOTermMapper

using the goslim_generic.obo from the OWLTools page: http://www.geneontology.org/ontology/subsets/goslim_generic.obo

  • nothing

Using generic human given by website

  • this looks promising

Map2Slim option in OWLTools: "Given a GO slim file, and a current ontology (in one or more files), the Map2Slim script will map a gene association file (containing annotations to the full GO) to the terms in the GO slim.

  • this doesn't work on school computers

http://geneontology.org/page/go-slim-and-subset-guide


CateGOrizer

http://www.animalgenome.org/bioinfo/tools/catego/


g:

http://biit.cs.ut.ee/gprofiler/gconvert.cgi