PRJNA547866

BioProject 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

100/100 · A

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

What this means

claude:haiku

HiSeq 2500 amplicon sequencing of Rattus norvegicus with 1.02 million short reads and 399 Mb at high quality (96.4% Q20, 93.9% Q30). Enables targeted genetic analysis and locus-specific variant discovery in rat models.

Data type / assay

amplicon

Organism

Rattus norvegicus

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

12 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 399645074 reported

total reads 1023272 reported

n content pct 0.013 measured

pct q20 bases 96.4 measured

pct q30 bases 93.9 measured

gc content pct 52.5 measured

mean read length 199.2 measured

mean base quality 37.5 measured

adapter content pct 0.04 measured

duplication rate pct 93.45 measured

mean target coverage 7.3 extrapolated

How this grade was computed

Weighted mean of 2 scored metric(s) → 100/100

The A grade is a transparent weighted average. Each metric below scored from 0–100% against the published amplicon thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 93.9 measured ×1 100%

adapter content pct 0.04 measured ×0.5 100%

QC cost 4 s compute

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