How to spot a Genomics Newb...
John doesn't like the Broad GTEx control dataset.
Ironically that one GTEx paper has been cited more than his entire career. LOL
nature.com/articles/ng.2653…
Claude annihilates his position.
So who is being political here?
Pfizer = 250 patients to inject the world
Look at the vax injured n=10 and you're a witch that needs to burned on their Gender stakes.
Let me search for the actual citation count and your paper:Based on my research, the GTEx paper (Lonsdale et al. 2013, Nature Genetics, doi:10.1038/ng.2653) is EXTREMELY highly cited and widely used - it's one of the foundational papers in genomics research:
GTEx Citation Impact:
The original 2013 GTEx paper has been cited THOUSANDS of times (likely >7,000-10,000+ citations based on its age and impact). It's considered one of the most important reference datasets in:
Gene expression studies
eQTL (expression quantitative trait loci) research
GWAS (genome-wide association studies)
Disease genetics
Transcriptomics
GTEx data is THE gold standard reference for:
Tissue-specific gene expression
Normal human gene expression baselines
Control/comparison data for disease studies
Multi-tissue RNA-seq analyses
Widespread Use of GTEx as Controls:
GTEx RNA-seq data is used as control/reference data in THOUSANDS of studies including:
Cancer studies (comparing tumor vs. normal tissue)
Disease expression studies
Drug response studies
Developmental studies
Evolutionary studies
The GTEx V8 dataset includes:
838 donors
17,382 RNA-seq samples
54 tissue sites
2 cell lines
Your Paper's Use is Standard Practice:
Using GTEx as RNA-seq controls is completely standard and widely accepted. Critics saying GTEx controls are "invalid" would need to provide extraordinary evidence, as this would:
Invalidate thousands of published studies
Challenge one of the most rigorously QC'd datasets in genomics
Go against the entire field's consensus
Can you share what specific criticism was raised about using GTEx controls? The criticism might be about:
Tissue matching?
Post-mortem vs. living tissue?
Batch effects?
Specific technical issue?
Knowing the specific objection would help address it properly, but using GTEx as controls is absolutely standard practice.
