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Find credible sets in raw data #95

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Zepeng-Mu opened this issue Jun 7, 2024 · 0 comments
Open

Find credible sets in raw data #95

Zepeng-Mu opened this issue Jun 7, 2024 · 0 comments

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@Zepeng-Mu
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Hi, sorry for posting a question that is not super relevant, but I cannot think of another place to ask it.

I wanted to go through fivex eQTL data using a custom script and I have a few questions on data source of the eQTL credible set.
I downloaded the raw data from eQTL Catalogue, which is also listed on fivex website. But I found the SuSiE fine-map results different between raw data and website browser. Take FCRLA in B-cells from Schmiedel_2018, which has two CS L1 and L2 in the web browser, but only L1 with a single SNP in CS in the downloaded data.

ENSG00000132185 | ENSG00000132185 | ENSG00000132185_L1 | chr1_161710468_G_A | rs6427618 | 1 | 0.9912977 | 1.76878e-11 | -0.879068 | 0.111382 | -8.57675 | 1 | chr1:160706972-162706972

I wonder if the browser is using a different version of data than currently available from eQTL Catalogue?
I just wanted to make sure that I got consistent results using my custom script as browsing the web browser.

Thanks so much in advance!!

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