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Question: What Phenotype databases do you recommend for searching genes related to diseases?
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gravatar for gjespitia
7 days ago by
gjespitia • 10
gjespitia • 10 wrote:

Good afternoon I'd like to make a collection of genes related to a disease (say, leprosy), based on databases. So far I have been using:

Is there other database would you recommend? Thank you in advance for your attention.

databases phenotype disease • 102 views
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modified 7 days ago by Pancreas Pratik • 110 • written 7 days ago by gjespitia • 10
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gravatar for Pancreas Pratik
7 days ago by
Pancreas Pratik • 110
University of Connecticut
Pancreas Pratik • 110 wrote:

Okay. I think you'll like this alot. I downloaded this gene-disease pathway association database file from here: http://ctdbase.org/reports/CTD_genes_diseases.csv.gz

Here is the link so you can explore: http://ctdbase.org/downloads/#gd

I found 1918 unique genes related to Leprosy by doing the following in bash:

grep Leprosy '~/CTD_genes_diseases.csv' | cut -d ',' -f1 | sort | uniq
grep Leprosy '~/CTD_genes_diseases.csv' | cut -d ',' -f1 | sort | uniq | wc -l
1918

Good luck!
ADD COMMENT • link written 7 days ago by Pancreas Pratik • 110
1

Thank you so much, this database has much more than the others combined!

ADD REPLY • link written 7 days ago by gjespitia • 10
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