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A “Metabolic Trap” for Chronic Fatigue Syndrome (ME/CFS)? Send in your genome to help research.

Discussion in 'BioMedical ME/CFS Research' started by Mattie, Apr 4, 2018.

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  1. Mattie

    Mattie Senior Member (Voting Rights)

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    Yet another hypothesis on HealthRising.org

    https://www.healthrising.org/blog/2018/04/03/a-metabolic-trap-for-chronic-fatigue-syndrome-me-cfs/

    Researcher Robert Phair is seeking ME/CFS patients who have had their genomes sequenced and who would be willing to share their data for research purposes. That includes 23andme data as well.

    Edit: Dr. Phair now now has enough 23andMe data but could still use whole exome or whole genome data
     
    Last edited: Apr 7, 2018
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  2. Londinium

    Londinium Senior Member (Voting Rights)

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    Speculative but very interesting (even if it reminds me of the Dynamics & Control module I did years back, *shudder*). I seem to recall another ME/CFS researcher (Klimas?) having a similar proposed mechanism of action and who believed a 'nudge' to the system could lead to a permanent reset. I imagine it also ties in with Naviaux's approach as well.

    The proof of the pudding (to me) will be whether said hypothesis could explain PEM, specifically its delayed impact.
     
  3. Sasha

    Sasha Senior Member (Voting Rights)

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    @Mattie, do you think it would be worth adding to your title, 'Robert Phair seeks data from ME/CFS patients who've had their genomes mapped'?

    Personally, I'd like to know more about his project before I sent him anything but anyone who gets Ron Davis's attention is interesting.

    Another one for your Q&A list, @Andy?
     
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  4. Sasha

    Sasha Senior Member (Voting Rights)

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    I see Cort is checking with Phair whether 23&Me data count (I thought it wasn't the full genome).
     
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  5. Mattie

    Mattie Senior Member (Voting Rights)

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    I added it at the beginning of the post, otherwise title will be very long.
     
    Last edited: Apr 4, 2018
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  6. Mattie

    Mattie Senior Member (Voting Rights)

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    I also asked Dr. Phair that same question :)
    I have 23andme data in txt format, I’ve emailed him to ask if that format is usable for his research. Will post his reply here as soon as I get it.
     
    Last edited: Apr 5, 2018
  7. alicec

    alicec Senior Member (Voting Rights)

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    He says specifically that he is looking for whole genome or exome sequences, not 23andme.
     
  8. Mattie

    Mattie Senior Member (Voting Rights)

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    He prefers whole genome, but 23andme data is also useful.

    E-mail from Dr. Phair:

    Yes, the .txt format will work. 23andMe only covers three of the five genetic variants that are important for the metabolic trap theory, but I can say that even this limited information is useful.

    The 23and Me file that I need has a filename like this: genome_firstName_lastName_Full_date_time_in_digits.txt
    so if it was mine it would be something like
    genome_Robert_Phair_Full_20180315085441.txt
    .zip instead of .txt is also fine

    If you can open the file in a text editor it should begin with a header that looks like this:
    # This data file generated by 23andMe at: Wed Jun 14 12:04:30 2017
    #
    # This file contains raw genotype data, including data that is not used in 23andMe reports.

    Regards,
    Robert D Phair PhD | Chief Science Officer | Integrative Bioinformatics Inc
    Mountain View, CA

    Edit: Dr. Phair now now has enough 23andMe data but could still use whole exome or whole genome data
     
    Last edited: Apr 7, 2018
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  9. Sasha

    Sasha Senior Member (Voting Rights)

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  10. Mattie

    Mattie Senior Member (Voting Rights)

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    Update: Dr. Phair now now has enough 23andMe data but could still use whole exome or whole genome data
     
    Last edited: Apr 7, 2018
  11. nonstopflu

    nonstopflu Established Member

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    what are the RSid's for the 3 genetic variants on 23andme?
     
  12. Snow Leopard

    Snow Leopard Senior Member (Voting Rights)

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    Which cost effective genome or exome testing does this doctor recommend?
     
  13. Mattie

    Mattie Senior Member (Voting Rights)

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  14. Mattie

    Mattie Senior Member (Voting Rights)

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    Don’t know that.
     

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