PRJNA169903

BioProject first seen 2020

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

89/100 · B

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

What this means

claude:haiku

E. coli WGS (whole-genome amplified). Good reusability (grade B) despite elevated duplication at 21.94% (scored 56/100)—the primary drag from WGA library prep. Q30 is solid (92.6%) and adapters minimal, permitting use in assembly and variant discovery if copy-number analysis is not required.

Data type / assay

WGS

Organism

Escherichia coli J96

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

3 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 23562226774 reported

total reads 116644687 reported

n content pct 0.005 measured

pct q20 bases 97.4 measured

pct q30 bases 92.6 measured

gc content pct 49.4 measured

mean read length 101 measured

mean base quality 35.7 measured

adapter content pct 0.12 measured

duplication rate pct 21.94 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 89/100

The B 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 92.6 measured ×1 100%

duplication rate pct 21.94 measured ×0.5 56%

adapter content pct 0.12 measured ×0.4 100%

QC cost 25 s compute

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