PRJNA355614

BioProject

Provenance — who produced it, who reused it

Linked to 2 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

2 further papers cite this accession but reuse could not be confirmed.

Deep data QC

86/100 · B

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

What this means

claude:haiku

Large-scale whole-genome sequencing of tuberculosis strains via Illumina HiSeq 2500 with very high depth (mean coverage ~25.9x) and high quality (95.4% Q20), supporting SNP/indel discovery and drug-resistance profiling. High GC content (64.7%) requires specialized alignment strategies for accurate mapping.

Data type / assay

WGS

Organism

Mycobacterium tuberculosis

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1,635 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 719086577927 reported

total reads 2435042265 reported

n content pct 0.009 measured

pct q20 bases 95.4 measured

pct q30 bases 86.5 measured

gc content pct 64.7 measured

mean read length 148.4 measured

mean base quality 34.2 measured

adapter content pct 0 measured

duplication rate pct 13.49 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 86/100

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 86.5 measured ×1 83%

duplication rate pct 13.49 measured ×0.5 83%

adapter content pct 0 measured ×0.4 100%

QC cost 16 s compute

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