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They say everything to do the study is freely accessible, so it might be something to play around with.

I think the risk alleles were significant after multiple test correction, while the protective alleles were only significant without correction. Risk alleles (pc: corrected p, pnc: not corrected p): Quote about the protective alleles posted above.

Here's the relevant part of that study: Human Leukocyte Antigen alleles associated with Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS), 2020 (thread) So B*08:01 by itself was significantly protective (only when not corrected for multiple tests, p=.01), while the AH8.1 haplotype...

Maybe, but I think it's a bit of a leap from this data. The simplest explanation to me, if the results turned out to be reliable, is that in people with ME/CFS, their HLA/MHC binds less strongly to certain pathogens, and thus less of an adaptive immune response can be raised against the...

For the correlation, I think the sample size of 4 points might be too small to give a reliable p-value. When I test pearson correlation in R with those four points, I get the same result for correlation (0.956) and p-value (.044) as the study got. But when I test the correlation using a...

They specifically looked at these and the two other protective alleles because of the previous study that identified them.

ME/CFS as a sickness behaviour-like response to HSV-1 infection within the brain: A hypothesis John Campbell [Line breaks added] Highlights • Subset of ME/CFS cases proposed to be caused by a ‘noisy’ latent HSV-1 infection within the brain. • HSV-1 proposed to cause local sickness...

Back when researching air purifiers, it seemed Coway had one of the best reputations for more budget-friendly options, so I got their AirMega 150. I always have it on high and it's very loud, so it's in another room. Even a bit of an annoying sound on the lowest setting. I can at least say...

Yes, the two ways I like to think I'd try to get someone to understand how it feels are: in the midst of an awful infection, or immediately after running the longest distance you've ever run. Not exactly the same, but just to illustrate that it's life on "hard mode". Try to live your life...

Some discussion about variants near SUDS3/TAOK3 and their possible relationship to lupus have been moved to: Genetics: Chromosome 12: SUDS3, TAOK3

I might have forgotten or missed something, but why zero in on TLR7? If we're working with the idea of X chromosome dosage, there are lots of other genes that aren't fully silenced on the second X. For example TLR8 right next to it. From another paper: If we're talking about the recent mouse...

Thread for chapter 47: https://www.s4me.info/threads/book-chapter-online-treatment-regimens-in-chronic-fatigue-syndrome-2025-navarette-et-al.45988/

This is the TAOK3/SUDS3 region. The GTEx project shows that variants alter expression differently in different cell types/organs. So I think that's possible. For example, maybe the ME/CFS variant increases TAOK3 in the liver while the SLE variant decreases TAOK3 in the skin, or even alters the...

I'll note that from my amateur attempt to try to determine if both studies share a causal variant at this locus, it doesn't seem like it's the case that they do. First of all, when looking only at the region that includes this locus, chr12:118110000-118470000, there are 344 SNPs that are...

Interesting article! If the points in the article are correct, the science is shockingly bad in The Body Keeps the Score. Some snippets: From the book which is a rebuttal to the book in question:

So opposite correlation for grey matter within the cases as opposed to between cases and controls?

That paper refers to a study/dataset from the same author from a year earlier: GCST011096. It has slightly fewer Asian cases, but it looks like the same European sample. So it is based on 8798 cases and 16470 controls from mixed ancestry. I was able to download this data and plot it. And it...

It doesn't look like it was significant in this study. And the Bentham 2015 paper doesn't mention any locus in this region. It mentions two other loci on chromosome 12, which can be seen if I zoom out really far. The ME/CFS TAOK3 locus is the left red tower. (Not all gene names shown.) Looking...

Sorry, my plot was probably a bit misleading on this front since it was so zoomed in. It gives quite a different picture if I zoom out to include the full SLE locus (not all genes shown):

Using the Thermal Power of Light to Affect Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) Hochecker, Barbara Abstract Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is a complex and poorly understood multisystem disease with an unclear cause and pathophysiology...