Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE212966

GEO first seen 2023

Single-cell RNA-seq reveals immune landscape of pancreatic cancer

Organism
Homo sapiens
Samples
12
Type
Expression profiling by high...
Submitted
2022-09-08

Pancreatic ductal adenocarcinoma (PDAC) has complex tumor immune microenvironment (TIME), the clinical values of which remains to be explored. This study aimed to delineate the immune landscape of PDAC and determine the clinical value of immune features in TIME. There was a significant difference in immune profiles between PDAC and adjacent normal pancreatic tissues. Several novel immune features were captured by quantitative pathology analysis on mIHC, some of which were significantly correlate...

Provenance — who produced it, who reused it

Linked to 13 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
Kai Chen
Reused by

12 further papers cite this accession but reuse could not be confirmed.

Deep data QC

33/100 · F

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured

Data type / assay
bulk-RNA-seq
Organism
Homo sapiens
Instrument
Illumina NovaSeq 6000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
52 / 12 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 1681000288200 reported
total reads 5603334294 reported
n content pct 0.004 measured
pct q20 bases 59.1 measured
pct q30 bases 40.9 measured
gc content pct 24.1 measured
mean read length 150 measured
mean base quality 24.2 measured
adapter content pct 0.1 measured
duplication rate pct 0.06 measured
supplementary file types MTX, TSV reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 33/100

The F 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 40.9 measured ×1 0%
mean base quality 24.2 measured ×0.6 0%
adapter content pct 0.1 measured ×0.4 100%
duplication rate pct 0.06 measured ×0.4 100%
QC cost 29 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0