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ISMB/ECCB Stockholm 2009:
ISMB/ECCB
PT02: Warren Kibbe - From Disease Ontology (DO) to Disease-Ontology Lite (DOLite): Statistical Methods to Adapt a General-Purpose Ontology for the Test of Gene-Disease Associations
June 28, 2009
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Yann Abraham liked this
paper: http://bioinformatics.oxfordjournals.org/cgi...
- Michael Kuhn
want to simplify the DO to make results more easy to interprete
- Michael Kuhn
DOLite is a CV whereas the DO is an ontology.
- Allyson Lister
using two parallel clustering steps and expert curation
- Michael Kuhn
DO: ~12,000 terms, DOlite: ~600 terms
- Michael Kuhn
FunDO: http://django.nubic.northwestern.edu/fundo...
- Michael Kuhn
"FunDO takes a list of genes and finds relevant diseases based on statistical analysis of the Disease Ontology annotation database. "
- Michael Kuhn
The same query using a gene list with DO and DOLite gets better clustering with DOLite (where better == more distinct clusters, greater number of clusters in the example we were shown - 2 clusters rather than 1).
- Allyson Lister
future plan: reduce GO (Gene Ontology) in a similar way
- Michael Kuhn
Blog post: http://themindwobbles.wordpress.com/2009...
- Allyson Lister