PRJNA433647

BioProject 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

33/100 · F

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

What this means

claude:haiku

Human amplicon-seq via Ion Torrent PGM generates only 235 million bases (1 million reads) with lower quality (60.6% Q30 bases), representing a small-scale targeted experiment. The modest size and Ion Torrent platform characteristics limit utility to focused marker-gene or validation studies; platform-specific error patterns (homopolymer indels) require careful interpretation.

Data type / assay

amplicon

Organism

Homo sapiens

Instrument

Ion Torrent PGM

Platform

ION_TORRENT

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

17 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 235479784 reported

total reads 1024312 reported

n content pct 0 measured

pct q20 bases 92.5 measured

pct q30 bases 60.6 measured

gc content pct 63.5 measured

mean read length 249.2 measured

mean base quality 29.2 measured

adapter content pct 0 measured

duplication rate pct 97.61 measured

mean target coverage 3.8 extrapolated

How this grade was computed

Weighted mean of 2 scored metric(s) → 33/100

The F grade is a transparent weighted average. Each metric below scored from 0–100% against the published amplicon thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 60.6 measured ×1 0%

adapter content pct 0 measured ×0.5 100%

QC cost 6 s compute

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