ERR552872

ENA first seen 2015

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

94/100 · A

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

What this means

claude:haiku

Mycobacterium tuberculosis complex short-read WGS via HiSeq 2500 with 109 million bases and 64.7% GC—appropriate for molecular epidemiology, drug-resistance profiling (rpoB, katG, inhA), and phylogenetic lineage assignment. Strong base quality (96.9% Q20, 92.7% Q30) supports confident SNP calling essential for resistance prediction in this high-GC pathogen.

Data type / assay

WGS

Organism

Mycobacterium tuberculosis complex sp.

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), submitted files

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 108994500 reported

total reads 363315 reported

n content pct 0.002 measured

pct q20 bases 96.9 measured

pct q30 bases 92.7 measured

gc content pct 64.7 measured

mean read length 150 measured

mean base quality 34.5 measured

adapter content pct 3.74 measured

duplication rate pct 10.56 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 94/100

The A 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 92.7 measured ×1 100%

duplication rate pct 10.56 measured ×0.5 92%

adapter content pct 3.74 measured ×0.4 80%

QC cost 1.3 min compute

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