SRX5136398

SRA first seen 2019

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

84/100 · B

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

What this means

claude:haiku

Bos taurus short-read WGS with adequate coverage and good base quality. Mean coverage (23.2x, extrapolated) supports variant discovery in association studies, and Q30 bases (95.5%, measured) are excellent; mild duplication (15.58%, measured) reflects expected PCR bias. Suitable for livestock genomics. Evidence strength 0.61 is provisional.

Data type / assay

WGS

Organism

Bos taurus

Instrument

Illumina HiSeq 4000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 62685952156 reported

total reads 207569378 reported

mean coverage 23.2 extrapolated

n content pct 0.005 measured

pct q20 bases 98.3 measured

pct q30 bases 95.5 measured

gc content pct 43.3 measured

mean read length 151 measured

mean base quality 39.3 measured

adapter content pct 0.16 measured

duplication rate pct 15.58 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 84/100

The B grade is a transparent weighted average. Each metric below scored from 0–100% against the published WGS thresholds, weighted by its importance; nothing is hidden or subjective.

mean coverage 23.2 extrapolated ×1.2 69%

pct q30 bases 95.5 measured ×1 100%

duplication rate pct 15.58 measured ×0.5 76%

adapter content pct 0.16 measured ×0.4 100%

QC cost 26 s compute

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