I want to run experiments on the data used in PatternMarkers & GWCoGAPS for novel data-driven biomarkers via whole transcriptome NMF link
So far, the paper has reduced the dimension to
- ammon's horn
- anterior cingulate cortex
- caudate nucleus
- dorsolateral prefrontal cortex
- first cervical spinal cord segment
- frontal cortex
- substantia nigra
on the samples/patients GTEX-[11GSP, 11O72, 11OF3, 11TUW, Q2AG, QDT8, XAB4]
I assume they are using it.
Gene read count. GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_reads.gct.gz
A small amount of the data is
Name Description GTEX-111CU-1826-SM-5GZYN GTEX-111FC-0226-SM-5N9B8 GTEX-111VG-2326-SM-5N9BK ... ENSG00000223972.4 DDX11L1 0 0 0 ...
From what I can gather,
ENSG00000223972.4 DDX11L1 is the
DEAD/H-box helicase 11 like 1
Therefore, I assumed that looking for the term
first cervical spinal cord segment would give me the name and description.
Therefore, I am wondering if I have the correct data set.