Corpus 1,276 assessed · 1,177 scored · 644 reproduced ≥75 · 170 flagged ·∅ 74/100
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SRR3341032

SRA first seen 2021

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

60/100 · D

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

What this means
claude:haiku

Whole-genome short-read sequencing of Salmonella enterica serovar Braenderup on the HiSeq 2500 delivers ~1.4 million reads with improved quality (93.7% Q20, 82.8% Q30) compared to related runs, supporting accurate variant calling and epidemiological strain tracking. The dataset enables SNP-based phylogenetics and identification of antibiotic resistance markers in this foodborne pathogen. Good quality metrics permit confident variant annotation and clinical relevance assessment.

Data type / assay
WGS
Organism
Salmonella enterica subsp. enterica serovar Braenderup
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 286163200 reported
total reads 1430816 reported
n content pct 0.006 measured
pct q20 bases 93.7 measured
pct q30 bases 82.8 measured
gc content pct 51.3 measured
mean read length 100 measured
mean base quality 33.3 measured
adapter content pct 3.36 measured
duplication rate pct 29.63 measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 60/100

The D 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 82.8 measured ×1 64%
duplication rate pct 29.63 measured ×0.5 32%
adapter content pct 3.36 measured ×0.4 83%
QC cost 16 s compute

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