PRJEB13188

BioProject first seen 2017

Provenance — who produced it, who reused it

Linked to 12 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

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

Deep data QC

76/100 · C

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

Bos indicus

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), BAM/CRAM (aligned)

N numbers (samples, groups)

164 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 488201346467 reported

total reads 2997542896 reported

n content pct 0.028 measured

pct q20 bases 95.2 measured

pct q30 bases 85.2 measured

gc content pct 42.7 measured

mean read length 101 measured

mean base quality 34.2 measured

adapter content pct 0 measured

duplication rate pct 67.22 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 76/100

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 85.2 measured ×1 76%

mean base quality 34.2 measured ×0.6 100%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 67.22 measured ×0.4 17%

QC cost 5 s compute

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