Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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SRX1660368

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

83/100 · B

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

What this means
claude:haiku

This Bos taurus WGS on HiSeq 2500 covers 55.5 Gb with 222 million reads at ~20.6× extrapolated depth, delivering comprehensive livestock genome coverage with good base quality (95.5% Q20, 91.1% Q30). The dataset enables detection of both common polymorphisms and rare variants relevant to cattle genomic selection and breeding decisions. Agricultural genomics and population-level cattle-genome studies can draw on this high-depth, large-animal WGS for allele-frequency estimation and marker discovery.

Data type / assay
WGS
Organism
Bos taurus
Instrument
Illumina HiSeq 2500
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 55514257750 reported
total reads 222057031 reported
mean coverage 20.6 extrapolated
n content pct 0.001 measured
pct q20 bases 95.5 measured
pct q30 bases 91.1 measured
gc content pct 42.1 measured
mean read length 125 measured
mean base quality 35.8 measured
adapter content pct 0 measured
duplication rate pct 4.66 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 83/100

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 20.6 extrapolated ×1.2 57%
pct q30 bases 91.1 measured ×1 100%
duplication rate pct 4.66 measured ×0.5 100%
adapter content pct 0 measured ×0.4 100%
QC cost 1.4 min compute

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