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Yes, I think it could be worded better. I haven't seen anything that makes me think they limited follow-up tests to only those 13 genes.

See here (different letters used but same idea): The tissue gene-property analysis is a linear regression of all genes. Z is a gene's score from the GWAS and Et is a gene's expression in a tissue. Both of which are continuous, not binary. For the gene-set analysis (the ubiquitin, synapse gene...

Radio New Zealand: 'Genetic links found in ME/CFS patients' "New research has found myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is partly caused by genetics, related to the immune and nervous system. The study - the world's largest into the condition - identifies DNA...

Yes, combined with Zhang's synapse findings, it seems more and more likely to me that the brain is part of the picture. I can't remember if we have other reason to think about synapses specifically. Maybe your earlier suggestion of thinking about which of the genes from the top loci have an...

Let me know if you run into issues. There were a few annoying roadbumps in the process. Maybe. I imagine the eight main loci might be related to brain, might not. Maybe 6 are, and 2 are related to the immune system. But MAGMA is more like, if you average out all of the genetic signal, what does...

How the actual math works, I don't know. But somehow it returns SNPs that are a different significance from the actual measured SNPs.

The actual machine that reads the participants' DNA, to make it more afforadable and practical, only actually physically observes a subset of locations on the DNA. In DecodeME, that's 800,000 locations where the output could tell you the actual letter that all the participants' had at these...

Oh, last thing for now. Like the DecodeME study, FUMA ran a MAGMA gene-set analysis on various curated gene sets. And like the study, it didn't return any significant gene sets after Bonferroni correction. But it might be interesting to look at the gene sets that had the lowest p-values: I...

FUMA also has exactly the MAGMA cell type enrichment I was hoping for. There are hundreds of different cell-type expression datasets to choose from to do analyses like the tissue enrichment above. I don't really know how to choose from them, or even to examine which cell-types are included...

Filtered for only the SNPs in the qced file.

I figured out how to upload the summary statistics to FUMA, which also does MAGMA analyses, so I tried to see if I could replicate the brain enrichment. There are a lot of customizable options, so I was not able to get the same exact results. I also had to convert all the SNPs from GRCh38 to...

I think the plot shows the data from only the sequenced SNPs and the main imputed SNPs (imputed everywhere but HLA). They did HLA imputation separately, and I'm guessing they didn't add that to the summary statistics or the plot yet because they aren't sure that part is quite right.

Figure 3, tissues that significant genes are enriched in, in terms of gene expression (based on GTEx expression data). EBV-transformed lymphocytes were not a significant tissue, just one of the few lowest p-value non-significant tissues, but probably nothing very exciting.

Digital Biometric Measures in Long COVID: A Secondary Analysis of the STOP-PASC Randomized Clinical Trial Fatma Gunturkun, Haley Hedlin, Bren Botzheim [Line breaks added] Key Points Question What are longitudinal digital wearable biometric measures and trajectory patterns in participants with...

I'd be really interested in a follow up of the brain enrichment by looking at enrichment in specific brain cell types. The brain finding is interesting, but hard to know what to do with it since the brain is a big place. The following studies show examples of looking at specific cell-type...

It looks like they're just making sure it's safe, since they refer to it as a "test", not a "treatment", at least in the abstract. I'm just concerned that: 1. Their symptom scale may not be well-suited enough to capture symptom exacerbation. 2. It may be the case that for most people with TBI...

Contents: 1 The history of chronic fatigue syndromes including ME/CFS and Long Covid 2 When to suspect ME/CFS or Long Covid 3 The diagnosis of ME/CFS and Long Covid 4 Primary ME/CFS or Long Covid versus secondary chronic fatigue 5 Theories of causation 6 What do you tell a patient? 7...

ME/CFS and Long Covid: Diagnosis and management of chronic fatigue syndromes Gavin Spickett [Line breaks added] Abstract This book covers the history and characteristic symptoms of ME/CFS and Long Covid in adults. Children are not discussed in detail. It discusses the extensive differential...

Exercise-Induced Symptom Exacerbation and Adverse Events in Moderate-to-Severe Traumatic Brain Injury Gallow, Sara BPhysio; McGinley, Jennifer PhD; Olver, John MD, FAFRM; McKenzie, Dean PhD; Williams, Gavin PhD Objective To determine the incidence of exercise-induced symptom exacerbation and...

@Chris Ponting, as arnoble says, can you clarify, was the tissue enrichment based on putting those 13 genes into a discrete gene set and seeing if those 13 genes specifically, without regard for their actual p-values/z-scores, were enriched among all genes expressed in a tissue? Or was every...