SRX5900602

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

39/100 · F

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

What this means

claude:haiku

Oxford Nanopore long-read WGS data (Bos taurus), grade F due to catastrophic base quality (Q30 0.1%, mean Q6.9), indicating severe sequencer failure or protocol breakdown. Moderate coverage (13.8x extrapolated) and low duplication cannot salvage data with mean accuracy <99%. Data is unusable for any reuse.

Data type / assay

WGS

Organism

Bos taurus

Instrument

PromethION

Platform

OXFORD_NANOPORE

Read type

long-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 37194695508 reported

total reads 4302617 reported

mean coverage 13.8 extrapolated

n content pct 0 measured

pct q20 bases 3.7 measured

pct q30 bases 0.1 measured

gc content pct 42.3 measured

mean read length 2416.8 measured

mean base quality 6.9 measured

adapter content pct 0.01 measured

duplication rate pct 7.13 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 39/100

The F 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 13.8 extrapolated ×1.2 26%

pct q30 bases 0.1 measured ×1 0%

duplication rate pct 7.13 measured ×0.5 100%

adapter content pct 0.01 measured ×0.4 100%

QC cost 27 s compute

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