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Identification of the tumour transition states occurring during EMT
scRNAseq of YFP+ Epcam+ and Epcam- skin squamous cell carcinoma cells
Provenance — who produced it, who reused it
Linked to 7 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.
Deposited / produced by
Ievgenia PastushenkoAudrey BrisebarreCedric BlanpainAlejandro SifrimThierry Voet
Reused by
- Immunosuppressive Traits of the Hybrid Epithelial/Mesenchymal Ph... 2021 · 83 cites
- Inference and multiscale model of epithelial-to-mesenchymal tran... 2020 · 72 cites
5 further papers cite this accession but reuse could not be confirmed.
Deep data QC
96/100 · AStandardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured
Data type / assay
bulk-RNA-seq
Organism
Mus musculus
Instrument
Illumina HiSeq 4000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
383 / 383 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok
yes
reported
total bases
12666970215
reported
total reads
248371965
reported
n content pct
0.013
measured
pct q20 bases
98.4
measured
pct q30 bases
95
measured
gc content pct
48.7
measured
mean read length
51
measured
mean base quality
38.8
measured
adapter content pct
0.02
measured
duplication rate pct
41.66
measured
supplementary file types
CSV
reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 96/100
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.
pct q30 bases
95
measured
×1
100%
mean base quality
38.8
measured
×0.6
100%
adapter content pct
0.02
measured
×0.4
100%
duplication rate pct
41.66
measured
×0.4
74%
QC cost
23 s compute
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0