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Thanks, updated. Here it is again: https://www.nature.com/articles/s41588-018-0081-4

Many of the GWAS in this analyses were underpowered so no significant result could simply mean too small sample size. Migraine without aura did have a significant result for the cardiovascular system. EDIT: accidentaly wrote migraine with aura, but it is without aura that I meant.

Yes these are in the supplementary material of the paper, table 6.

One interpretation could be that what sticks out in the (still underpowered) DecodeME results is what every ME/CFS patient has in common. So this may point to the neural networks that produce sickness behavior symptoms such as fatigue. Hence the strong overlap with fibromyalgia. Behind there...

I also did the gene expression data from the Immunological Genome (ImmGen) project that Finucane et al. prepared for their pipeline. Immunological Genome Project Similar results to trafalmadorian97, with the top hit reaching a p-value around 0.005 for 292 cell types tested, not even close to...

I've added the DecodeME into the same pipeline. LDSC-SEG is quite complex to set up (their baseline model has 52 annotations), but I got results that are very similar to what @tralfamadorian97 found...

This was one of the early papers that matched GWAS data with scRNA-seq data from cell types. They used the LDSC method which is based on a regression between the chi-square statistic from GWAS (the association with a SNP and the disease) and LD (Linkage disequilibrium score, how much an SNP is...

Abstract We introduce an approach to identify disease-relevant tissues and cell types by analyzing gene expression data together with genome-wide association study (GWAS) summary statistics. Our approach uses stratified linkage disequilibrium (LD) score regression to test whether disease...

Do we also have a thread where members can indicate their willingness to participate in a research project as a patient representative? The willing and available thread is much broader and also asks about roles in charities, the media, and the forum itself. So perhaps we could create a...

I suppose this is the thread where researchers looking for PPI can make a request on S4ME: https://s4me.info/threads/patient-and-public-involvement-opportunities-in-me-cfs-and-other-research.35017/ The call says that "meaningful involvement of patients and/or patient representatives is...

Can anyone explain how people registering their interest would have changed anything? As Jo already argued the committee probably assumed everyone was interested before making a choice. So is it mainly about resumes and official qualifications not being considered?

The paper also focuses on the subgroup comparison of LC patients with or without PEM. Would be more interesting to focus on the LC versus database control comparison. I suspect that Table 2 shows z-values, which indicate how many standard deviations the mean is from the control data. If you...

Big limitation that the controls were from a database: Well spotted; this makes it more likely that they simply didn't do Bonferroni correction at all.

Great that WE&ME is doing this! It says the call is funded entirely by them, and with 7 x €150,000, that would be around one million euros that they put in. It feels like recognition of S4ME, that they are involving multiple members in the jury that decides how this money will be spent. I think...

See a couple of familiar genes from our DecodeME analysis: DCC on chr18 VRK2 on chr2 SOX6 on chr11 The top hit here was on chromosome 1:73,847,802 (chr1:73382119 on GRCh38 coordinates). DecodeME also seems to have a signal there, which we thought might point to NEGR1. I suspect the...

Stigmatization in ME/CFS being worse than in other diseases, including mental diagnoses such as depression, goes against the entire cognitive behavioral model. One of the central ideas of this model is that ME/CFS patients somatize their life problems because they can't deal with the stigma...

A previous proteomics study mostly pointed to the complement system, so while this is potentially related it's not exactly a replication: Proteomic discoveries in hypermobile Ehlers-Danlos syndrome reveal insights into disease pathophysiology - PubMed

Main results in Figure 2:

Abstract Background Hypermobile Ehlers-Danlos syndrome (hEDS) and hypermobility spectrum disorders (HSD) are prevalent conditions characterized by symptomatic joint hypermobility and a substantial public health burden, for which no causal treatment is currently available. In the absence of a...

One very minor thing: could it be that you used MAGMA v.1.08 rather than v1.10? Because 1.08 is what the FUMA SNP2GENE website uses when I try it. When I used MAGMA v.1.10 on my laptop without the FUMA website, I got slightly different results.