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I think there are often situations where the same variant can be associated with increases or decreases of gene expression depending on the tissue, or maybe depending on other factors like age. For example, a variant from a past study: Apart from that, the gene expression database isn't...

I don't think I understand imputation well enough to answer. In any case, we know there is a lot of the genome data missing in DecodeME. Imputation can only get you so far, and some of the imputed variants might be wrong. A whole genome sequencing study, AKA SequenceME, would be very valuable...

@Kitty, here is that thread: https://www.s4me.info/threads/main-candidate-genes-from-decodeme-2025.46949/

These are the main candidate genes suggested by the data from the DecodeME study based on different methods: Tier 1 and 2 genes as defined by the DecodeME paper, significant genes using MAGMA test, and the nearest genes to the top 25 most significant loci. I posted the same information on the...

You mean specifically genes that the DecodeME data suggests might be interesting or based on any source? Including any ME/CFS studies would be a lot more of a challenge depending on what sources are considered. It might be useful. Some other options are linking to that gene list post from the...

My shallow understanding is that imputation is done per person in a study, not pooling any participants together, by comparing that person's DNA to a whole genome reference panel, like 1000 Genomes. They look at the pattern of SNPs that they were actually able to test in a person, and see how...

I did a bit of a comparison between DecodeME genes and Genebass genes on the DecodeME thread: https://www.s4me.info/threads/initial-findings-from-the-decodeme-genome-wide-association-study-of-myalgic-encephalomyelitis-chronic-fatigue-syndrome-2025-decodeme-collaboration.45490/post-651566 If you...

I mainly compiled the list of candidate genes above to check if any of those genes are ranked highly for rare variant associations in the Genebass browser, which includes data from a study of all the phenotypes in the UK BioBank, including ME/CFS. The rare variant study/dataset is discussed...

Copying the most significant genes from the Genebass page for CFS here so they show up in searches just in case. These are split up by category of synonymous, missense, or pLoF. There are three types of statistical tests, so three p-values per gene per category. I took the 20 most significant...

Not a new paper! This was a large scale effort to look for rare variant associations in all the phenotypes in the UK Biobank, which includes the "chronic fatigue syndrome" trait. ME/CFS is never mentioned in the paper, but the results for all phenotypes are freely accessible on a website they...

Systematic single-variant and gene-based association testing of thousands of phenotypes in 394,841 UK Biobank exomes Published: September 14, 2022 [Line breaks added] Highlights • Public release of gene-based association statistics for 4,529 diseases and traits • Genebass, a browser...

Here's an attempt to bring together all of the main candidate genes from different sources: Tier 1 genes, tier 2 genes, genes significant in MAGMA, and the gene (or two genes if it is not clear) closest to a locus for the top 25 loci. Sources: Tier 1 and 2 genes: Candidate genes document...

3603 Multimodal non-invasive neurophysiological testing of small fibre neuropathy in long COVID Anthony Khoo, Kisani Manuel, David Lynn, Maria Crotty Background Long COVID is associated with a diverse range of debilitating neuropathic and autonomic symptoms that may indicate small fibre...

Interesting that in this meta-analysis, there actually is a significant gene set enrichment in MAGMA: GOCC_GLUTAMATERGIC_SYNAPSE Paolo commented this on ME/CFS Science Blog's blog about overlapping controls, so I'm not sure how much impact this may have had on the results: I don't know enough...

Oh weird. On Firefox for Android, it's redirecting to the homepage of MSN. But every other browser, it seems to work. Thanks for adding the other link.

FYI, the MSN link doesn't seem to go to an article.

Note that your link goes to the paper the HLA data comes from, which happened before DecodeME, but the text says the title of the thread's paper. Anyway, it looks like the reason they didn't genotype HLA-DQA1 and other loci is that for data on healthy controls, they used the results of an...

Characterizing post-COVID-19 syndrome in multiple sclerosis: Vaccine status, infection burden, and therapy categories as predictors Deepak Sharma ∙ Christian P. Kamm ∙ Robert Hoepner ∙ Iris-Katharina Penner ∙ Thomas Nyffeler ∙ Lara Diem [Line breaks added] Background Post-COVID-19 syndrome...

Maybe specifically EBV-infected B cells? Just to pull from lupus research again, these authors think EBV may be necessary for lupus: The toll like receptor 7 pathway and the sex bias of systemic lupus erythematosus, 2025, Frontiers in Immunology

Comment on “Pre-pandemic diabetes and risk of long COVID: Longitudinal evidence” Ali Madad Haq Published: 23 October 2025 Main points: Web | PDF | Journal of Diabetes & Metabolic Disorders | Open Access