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Could add PoPS to "Genes" section #100

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jimhavrilla opened this issue Oct 28, 2020 · 0 comments
Open

Could add PoPS to "Genes" section #100

jimhavrilla opened this issue Oct 28, 2020 · 0 comments

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@jimhavrilla
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Gives us an idea of what genes are more likely related to the trait.
It's a bit sparse to have the Gene Section with just Phen2Gene, in honesty. May be good to add sources like this that use more data; no licensing information and code and data are online for free download so I'm guessing with citation we can use it.
Results:
https://www.dropbox.com/sh/dz4haeo48s34sex/AADT_nwA3HCl_VFEScGN-kWXa/results?dl=0&subfolder_nav_tracking=1
Paper
https://www.medrxiv.org/content/10.1101/2020.09.08.20190561v1.full.pdf+html
Data format is pretty straightforward, like this:

trait	cohort	ensgid	gene	chromosome	start	end	tss	pops_score
Alzheimer	PASS	ENSG00000079974	RABL2B	22	51205929	51222091	51222091	0.2660925297737443
Anorexia	PASS	ENSG00000186092	OR4F5	1	69091	70008	69091	-0.006756145993567379

Easy Elasticsearch parse. Can be limited somewhat in results, but still something new using some powerful data.

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