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Review of the Quality Control Checks Performed by Current Genome-Wide and Targeted-Genome Association Studies on ME/CFS, 2020, Sepulveda et al

Discussion in 'BioMedical ME/CFS Research' started by Kalliope, May 8, 2020.

  1. Kalliope

    Kalliope Senior Member (Voting Rights)

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    Provisionally accepted opinion article in frontiers in Pediatrics - Paediatric Neurology

    Review of the Quality Control Checks Performed by Current Genome-Wide and Targeted-Genome Association Studies on Myalgic Encephalomyelitis/Chronic Fatigue Syndrome

    by Nuno Sepulveda, Anna D. Grabowski, Eliana M. Lacerda and Luis C. Nacul

    In summary, given the partial QC checks performed in current GWAS and TGAS, the question of a genetic component in ME/CFS remains open for investigation. To accelerate the discovery of promising disease-gene association, future genetic studies of ME/CFS should set data and methodological standards as high as those followed by the 1000 Human Genome Project and the UK10K project (19,20). Data sharing should also be a general practice to provide the researcher community the opportunity to perform additional checks or alternative analyses of the same data.

     
  2. cassava7

    cassava7 Senior Member (Voting Rights)

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    Unfortunately the list of referenced papers isn't available yet, the citation numbers don't link to anything.
     
    wigglethemouse likes this.
  3. wigglethemouse

    wigglethemouse Senior Member (Voting Rights)

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    Perez et al is most likely the awful INIM/Klimas team 23andMe study where no quality control was done.
    https://www.frontiersin.org/articles/10.3389/fped.2019.00206/full

    The new paper has this quote. I don't remember a limit on MAF of 0.1, but perhaps I'm thinking of the supplemental table they provided.
    I seem to remember the UK Biobank site (not ME Biobank) had some great discussion on quality control procedures.....

    EDIT : Link to thread on Klimas study
    https://www.s4me.info/threads/genet...study-2019-perez-nathanson-klimas-et-al.9415/
     
    Last edited: May 8, 2020
  4. Andy

    Andy Committee Member & Outreach

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