SRP067030

ENA first seen 2016

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

43/100 · F

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

What this means

claude:haiku

Saccharomyces cerevisiae whole-genome sequencing with compromised quality. Poor QC (43/100, F) driven by Q30 of only 75.3% (inadequate for variant calling) and high adapter content of 9.37% (indicating incomplete trimming or contamination); these combine to elevate false-positive variant calls. Not recommended without prior re-trimming and QC re-assessment.

Data type / assay

WGS

Organism

Saccharomyces cerevisiae S288C

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

333 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 242525860829 reported

total reads 1171781469 reported

n content pct 0.11 measured

pct q20 bases 89 measured

pct q30 bases 75.3 measured

gc content pct 40.4 measured

mean read length 100 measured

mean base quality 31.3 measured

adapter content pct 9.37 measured

duplication rate pct 15.15 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 43/100

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.

pct q30 bases 75.3 measured ×1 27%

duplication rate pct 15.15 measured ×0.5 78%

adapter content pct 9.37 measured ×0.4 40%

QC cost 38 s compute

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