Proteogenomic characterization of human early-onset gastric cancer
We report proteogenomic analysis of diffuse gastric cancers (GCs) in young population. Phosphoproteome data elucidated signaling pathways associated with somatic mutations based on mutation-phosphorylation correlations. Moreover, correlations between mRNA and protein abundances provided potential oncogenes and tumor suppressors associated with patient survival. Furthermore, integrated clustering of mRNA, protein, phosphorylation, and N-glycosylation data identified four subtypes of diffuse GCs....
Provenance — who produced it, who reused it
Linked to 11 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.
- ChimerDB 4.0: an updated and expanded database of fusion genes 2019 · 120 cites
- Helicobacter pylori–induced RASAL2 Through Activation of Nuclear... 2022 · 89 cites
9 further papers cite this accession but reuse could not be confirmed.
Deep data QC
100/100 · AStandardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured
Human bulk-RNA-seq with 101 bp reads achieved 98.1% Q20 and 95.1% Q30 across 751 million bases, providing ample read length for transcript isoform resolution. The 51.1% GC, mean quality 36.5, and minimal adapter contamination (0.17%) enable robust mapping and expression quantification for studying tissue-specific splicing.
The A grade is a transparent weighted average. Each metric below scored from 0–100% against the published bulk-RNA-seq thresholds, weighted by its importance; nothing is hidden or subjective.
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0
Scientific quality
Based on hands-on reproduction of the papers that use this dataset. A reproducible paper that stands on this data is positive evidence; a flagged one is a prompt to look closer — never a verdict on the dataset itself without the evidence.