Former User of DNAx Community_19

How to run Genome-wide survival association analysis in DNAnexus?

I'd like to know if anyone has used any of the programmes below on the DNAnexus platform or if they have any advice regarding using them.   - https://academic.oup.com/genetics/article/215/1/41/5930...

• Former User of DNAx Community_19
• 08 July 2023 00:00
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Thanks, GATE is an additional code which enables SAIGE to handle time to event data.

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• 06 May 2023 23:14
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There is a tutorial regarding how to use SAIGE (https://documentation.dnanexus.com/science/scientific-guides/saige-gwas-walkthrough), but here it was not mentioned the GATE (https://github.com/weizhou0/GATE#uk-biobank-gwas-results)

Is it possible to advise on how to use GATE through SAIGE on dnanexus?

• Former User of DNAx Community_19
• 06 May 2023 00:00
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Thanks, would you please explain a bit more in detail how to use table exporter to extract multiple fields from proteomics data? I tried it a few times but did not work. For example I list "ACY1;A...

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• 05 May 2023 12:18
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Hi, I just wanted to know if there is any way to export "olink_data table" data as a csv file? in which there are an id column plus other columns with NPX values for each individual.  It not ea...

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• 04 May 2023 17:28
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I've understood that cancer register category (https://biobank.ndph.ox.ac.uk/showcase/label.cgi?id=100092) covers all episodes of cancers. But non-cancer category just covers summary of diagnosis ...

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• 24 March 2023 12:38
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Thanks Gary - yes that'a great news.

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• 15 March 2023 22:29
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I'm wondering if it's possible to understand dates of recurrent diseases in Summary Diagnoses of UKB. For example, an individual was diagnosed with lung cancer in 2010. and again diagnosed with lung cancer (same ICD code) in 2017.

• Former User of DNAx Community_19
• 09 March 2023 00:00
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I'm just wondering what reference genome you're using to call CHIP carriers?

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• 24 February 2023 09:25
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