PRJNA431313

BioProject

Provenance — who produced it, who reused it

Linked to 0 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.

No linked papers found in the corpus yet.

Deep data QC

79/100 · C

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

What this means

claude:haiku

Large human transcriptome dataset from Illumina HiSeq 2500 with moderate quality metrics (85.6% Q20, notably lower than peer datasets) and substantial depth (698M reads), raising concerns about read reliability or potential contamination. Despite quality caveats, large scale enables detection of modest expression changes.

Data type / assay

bulk-RNA-seq

Organism

Homo sapiens

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

9 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 106221319440 reported

total reads 698824470 reported

n content pct 0.004 measured

pct q20 bases 85.6 measured

pct q30 bases 83.1 measured

gc content pct 17.1 measured

mean read length 76 measured

mean base quality 32.6 measured

adapter content pct 2.35 measured

duplication rate pct 2.92 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 79/100

The C 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 83.1 measured ×1 66%

mean base quality 32.6 measured ×0.6 77%

adapter content pct 2.35 measured ×0.4 98%

duplication rate pct 2.92 measured ×0.4 100%

QC cost 25 s compute

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