SRR1948177

ENA first seen 2018

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

45/100 · F

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

What this means

claude:haiku

Whole-genome sequencing on Ion Torrent PGM from Mycobacterium tuberculosis with 857,759 reads and moderate quality (84.3% Q20, 44.4% Q30). Ion Torrent platform introduces homopolymer biases and low Q30; careful error-handling is essential but dataset supports strain typing and drug resistance profiling in this critical pathogen.

Data type / assay

WGS

Organism

Mycobacterium tuberculosis

Instrument

Ion Torrent PGM

Platform

ION_TORRENT

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 228272681 reported

total reads 857759 reported

n content pct 0 measured

pct q20 bases 84.3 measured

pct q30 bases 44.4 measured

gc content pct 64.7 measured

mean read length 267.6 measured

mean base quality 27.4 measured

adapter content pct 0 measured

duplication rate pct 10.63 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 45/100

The F 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 44.4 measured ×1 0%

duplication rate pct 10.63 measured ×0.5 92%

adapter content pct 0 measured ×0.4 100%

QC cost 22 s compute

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