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IPF Cell Atlas
Single Cell RNAseq of Whole Lung Dissociates from IPF, COPD and control lungs
Provenance — who produced it, who reused it
Linked to 36 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
Taylor AdamsJonas SchuppNaftali KaminskiIvan Rosas
Reused by
- High-resolution single-cell atlas reveals diversity and plastici... 2022 · 459 cites
- Integrated Single-Cell Atlas of Endothelial Cells of the Human L... 2021 · 454 cites
- Characterization of the COPD alveolar niche using single-cell RN... 2022 · 224 cites
- A cell atlas foundation model for scalable search of similar hum... 2024 · 119 cites
- Precise identification of cell states altered in disease using h... 2023 · 75 cites
30 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
Data type / assay
bulk-RNA-seq
Organism
Homo sapiens
Instrument
Illumina HiSeq 4000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
107 / 78 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok
yes
reported
total bases
2432897333340
reported
total reads
19620139785
reported
n content pct
0.056
measured
pct q20 bases
99.4
measured
pct q30 bases
98
measured
gc content pct
48.6
measured
mean read length
26
measured
mean base quality
39.1
measured
adapter content pct
0
measured
duplication rate pct
14.77
measured
supplementary file types
MTX, RDS, TXT
reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 100/100
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
98
measured
×1
100%
mean base quality
39.1
measured
×0.6
100%
adapter content pct
0
measured
×0.4
100%
duplication rate pct
14.77
measured
×0.4
100%
QC cost
25 s compute
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0