RNA-seq of MDA-MB-231 cells with TET1 knockout
DNA hypermethylation is known to contribute to the formation of cancer. However, DNA hypomethylation has received far less attention and the factors controlling the balance between hypo and hypermethylation and its impact on tumorigenesis remains unclear. Triple negative breast cancer (TNBC), a subtype of breast cancer that does not overexpress the hormone receptors or HER2/NEU, is one of the most hypomethylated cancers observed. Importantly, TNBCs are often a therapeutic challenge because of...
Provenance — who produced it, who reused it
Linked to 1 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.
Deep data QC
87/100 · BStandardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured
Human bulk RNA-seq with exceptionally high measured quality (99% Q20, 98% Q30) across 3.3k samples at 50 bp mean read length, but metadata unavailable (HTTP fetch error). Measured Q-scores are extraordinary; experimental design and biological context essential for determining suitability for reuse.
The B 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