PRJEB14242

BioProject first seen 2017

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.

Reused by

1 further paper cites this accession but reuse could not be confirmed.

Deep data QC

80/100 · B

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

What this means

claude:haiku

Mus musculus RNA-seq severely compromised by pathological duplication rate (87.2%) and elevated adapter content (5.58%), combined with very short reads (51 bp); unsuitable for expression analysis due to duplication-induced bias overwhelming biological signal.

Data type / assay

bulk-RNA-seq

Organism

Mus musculus

Instrument

Illumina Genome Analyzer IIx

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), submitted files

N numbers (samples, groups)

28 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 25253576976 reported

total reads 546164718 reported

n content pct 0.001 measured

pct q20 bases 98.4 measured

pct q30 bases 95.7 measured

gc content pct 51.8 measured

mean read length 51 measured

mean base quality 37.7 measured

adapter content pct 5.58 measured

duplication rate pct 87.21 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 80/100

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.

pct q30 bases 95.7 measured ×1 100%

mean base quality 37.7 measured ×0.6 100%

adapter content pct 5.58 measured ×0.4 80%

duplication rate pct 87.21 measured ×0.4 0%

QC cost 14 s compute

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