SRR1779083

ENA first seen 2015

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

57/100 · F

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

What this means

claude:haiku

Low-coverage whole-genome sequencing on Illumina HiSeq 2500 from Homo sapiens with 13.1 million reads providing only 0.9x mean coverage. Shallow depth severely limits variant calling sensitivity but may enable detection of very large structural variants or copy-number changes with specialized analysis approaches.

Data type / assay

WGS

Organism

Homo sapiens

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 2639692772 reported

total reads 13067786 reported

mean coverage 0.9 extrapolated

n content pct 0 measured

pct q20 bases 93.8 measured

pct q30 bases 87.1 measured

gc content pct 39.9 measured

mean read length 101 measured

mean base quality 34.6 measured

adapter content pct 0.01 measured

duplication rate pct 1 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 57/100

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 0.9 extrapolated ×1.2 0%

pct q30 bases 87.1 measured ×1 86%

duplication rate pct 1 measured ×0.5 100%

adapter content pct 0.01 measured ×0.4 100%

QC cost 12 s compute

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