PRJEB28449

BioProject first seen 2018

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

86/100 · 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 bulk RNA-seq via Illumina HiSeq 4000 with 222.6 million reads and 66.8 billion bases at solid quality (96.7% Q20, 91.8% Q30). The 47% GC and 0.007% N-content indicate clean library. The substantial read depth suits sensitive expression profiling and isoform quantification across mouse tissues or genotypes in developmental or disease contexts.

Data type / assay

bulk-RNA-seq

Organism

Mus musculus

Instrument

Illumina HiSeq 4000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), submitted files

N numbers (samples, groups)

9 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 66802938900 reported

total reads 222676463 reported

n content pct 0.007 measured

pct q20 bases 96.7 measured

pct q30 bases 91.8 measured

gc content pct 47 measured

mean read length 150 measured

mean base quality 38.2 measured

adapter content pct 10.34 measured

duplication rate pct 47.01 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 86/100

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 91.8 measured ×1 100%

mean base quality 38.2 measured ×0.6 100%

adapter content pct 10.34 measured ×0.4 54%

duplication rate pct 47.01 measured ×0.4 62%

QC cost 21 s compute

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