PRJNA305242

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

65/100 · D

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

What this means

claude:haiku

MiSeq whole-genome sequencing of Lacticaseibacillus rhamnosus GG probiotic strain with 49 million short reads and 15.3 Gb at moderate quality (89.9% Q20, 78.2% Q30, 0.623% N content). Sufficient for reference-based genome analysis; elevated N content warrants filtering.

Data type / assay

WGS

Organism

Lacticaseibacillus rhamnosus GG

Instrument

Illumina MiSeq

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

40 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 15296452811 reported

total reads 48816100 reported

n content pct 0.623 measured

pct q20 bases 89.9 measured

pct q30 bases 78.2 measured

gc content pct 46.4 measured

mean read length 306.2 measured

mean base quality 32.9 measured

adapter content pct 0.07 measured

duplication rate pct 12.89 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 65/100

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 78.2 measured ×1 41%

duplication rate pct 12.89 measured ×0.5 85%

adapter content pct 0.07 measured ×0.4 100%

QC cost 32 s compute

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