PRJEB12607

BioProject first seen 2016

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

61/100 · D

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

What this means

claude:haiku

This metagenome amplicon dataset from 454 GS FLX Titanium generated 3.9 million reads (2.05 gigabases) with 90.3% Q20 and 78.3% Q30 base quality, and 54.1% GC. The lower Q30 rate and elevated N-content (2.12%) are characteristic of 454 pyrosequencing; suitable for taxonomic profiling of mixed microbial communities despite technical limitations.

Data type / assay

amplicon

Organism

metagenome

Instrument

454 GS FLX Titanium

Platform

LS454

Files available

FASTQ (raw reads), submitted files

N numbers (samples, groups)

158 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 2049861704 reported

total reads 3879355 reported

n content pct 2.124 measured

pct q20 bases 90.3 measured

pct q30 bases 78.3 measured

gc content pct 54.1 measured

mean read length 644.1 measured

mean base quality 34.2 measured

adapter content pct 0 measured

duplication rate pct 96.41 measured

How this grade was computed

Weighted mean of 2 scored metric(s) → 61/100

The D 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 78.3 measured ×1 42%

adapter content pct 0 measured ×0.5 100%

QC cost 2 s compute

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