The mouse genotype to OMIM disorder comparisons are here:
use one of the two files:
the second file is slightly larger and has the omim disorders and
upheno classes labeled.
The columns are described in README.txt
Due to time constraints, I'm not doing any of the more sophisticated
comparisons, although I might add these later.
I set some of the heuristic thresholds high to get the analysis
expedited quickly - there may be higher rate than expected of false
negatives. I may try and do another cycle and make it more inclusive.
See my previous email.
This analysis uses the version of uberpheno.obo constructed a couple
of months ago; this means we don't have to do the more computationally
expensive comparisons between class expressions.
Sebastian, if you also want to try your tools on this, here's what you
maps MP and HP to upheno. includes deductive closure (ie maps to all
2 column file relating MGI genotype to MP
2 column file relating OMIM disorder to HP.
Uses latest IEAs from your analysis plus latest manual annotations
By combining these you can use the same standard tools for semantic
similarity as any pre-coordinated ontology.