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Thanks for highlighting this. ECP = eosinophil cationic protein EDN = eosinophil-derived neurotoxin So these are eosinophil proteins that they assume would also be increased in case of chronic mast cell activation.

Impressive work @forestglip, thanks for digging into this! Small suggestion for your summary: it would be useful to have a table of the ME/CFS studies with the number of participants they used (male/female), the type stimulant and dosage used and possibly info about the effect size.

DecodeME top SNP rs9358913 chr6:26239404 (GRCh37) p = 4.11e-09 Anxiety top SNP rs58825580 chr6:26365679 (GRCh37) [ = 1.02e-14

I checked if the DecodeME signal around BTN2A1 colocalizes with that in this GWAS on anxiety Genome-wide association study of major anxiety disorders in 122,341 European-ancestry cases identifies 58 loci and highlights GABAergic signaling - PMC My (amateur) analysis suggests there's a real...

I'm not entirely sure that she takes this position. She seems to criticize both psychosomatic and biomedical approaches, although I only skimmed the article. Some sections from the discussion section: .... The article discusses the origin of ME and CFS and subsequent discussions about it...

One idea to study this further is to use PET scans with tracers such as [11C]-UCB-J or [18F]SynVesT-1 that measure synaptic density. It would be interesting to see whether, e.g., this is increased or reduced in various brain areas such as the striatum and hypothalamus. These are tracers that...

This looks like an interesting study and design, but from what I can tell, the hypoxia didn't really make a clear difference in the results. The main finding was increased lactate, which was also present before the hypoxia and is consistent with previous findings. As the authors write:

This was available from BigaGWAS, a big database of traits that automatically checks correlations with lots of traits from UK biobank and other sources. I also checked the latest migraine GWAS, which I think is Hautakangas et al. 2022. The 23andMe data isn't available, but those from the UK...

Thanks! My guess is that genomic control (GC corrected) refers to dividing by the genomic inflation factor: the ratio of your median chi square value by 0.4549 (what the median chi square value would be under the null with no bias). This was an (older) approach intended to control for...

Was wondering if there's an explanation for why the LDSC intercept for DecodeME is below 1. Higher than 1 is usually seen as a sign of bias such as population stratification but below 1 is less clear. Could it mean that part of the true signal was taken away by the principal components?

The DecodeME team could test this, would be an analysis worth doing. I'm not an expert but think an rg of 0.75 is quite big and probably not fully explained by the 30% of ME/CFS cases that also had fibromyalgia.

Perhaps others can double-check but I calculated the genetic correlation with DecodeME and the European-only GWAS of fibromyalgia from this study using LDSC and I got a value of rg = 0.757. That's quite high and similar to the rg = 0.751 between DecodeME and self-reported irritable bowel...

I think the relationship between viral reactivation and Long Covid was mostly negative. It's only during the convalescent period that they found an association between Anelloviridae transcripts and one of four subgroup of Long Covid, those with a high score on the "Measurement Information...

From their website: https://www.discoveryloop.com/ Includes a lot of big names from Google. Hope it will help to accelerate scientific research. Here's the announcement on Twitter:

Two aunts and an uncle were also tested, presumable with the idea that rare mutations that also appear in family are unlikely to be damaging ones related to ME/CFS?

Much of this paper and the tools used are too complex for me. But it looks like an attempt at finding a rare mutation that might explain ME/CFS in a single patient. Whole genome sequencing was performed by DanteLabs, and then various quality controls and filters were used to help identify rare...

A pipeline for the discovery of causal variants in Mendelian ME/CFS Paolo Maccallini Identifying causal variants in suspected Mendelian disorders remains challenging when whole-genome sequencing reveals numerous rare candidates but no obvious molecular diagnosis. We developed PerGen, a pipeline...

Anelloviruses came up in the Lipkin study of viruses in ME/CFS although patients had lower levels of anelloviruses instead of increased levels as in this COVID-study. A multicenter virome analysis of blood, feces, and saliva in myalgic encephalomyelitis/chronic fatigue syndrome - Briese - 2023 -...

We can also have a look at the genes inside the categories and the p-values MAGMA assigned them based on their association with ME/CFS. For the top category "synapse adhesion between pre- and post-synapse (GO:0099560)" the top genes were NRXN1 (neurexin-1) and NLGN1 (neuroligin-1) as well as...

Methods I’ve downloaded the data version 1.3 here: https://syngoportal.org/download It includes 3 excel files. The ontologies.xlsx file has the name of the categories and the genes in it. To work with MAGMA, I created a file that has the name for each ontology, then all the gene ensemble IDs on...