PRJNA255922

BioProject

Provenance — who produced it, who reused it

Linked to 0 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.

No linked papers found in the corpus yet.

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

Whole-genome metagenomic sequencing of human saliva microbiota via Illumina Genome Analyzer IIx with 140 bp reads and high quality (97.7% Q20), enabling species profiling and functional annotation of oral bacteria. Substantial depth (2.0B reads) supports recovery of rare taxa and assembly of oral genome bins from this complex environment.

Data type / assay

WGS

Organism

human oral metagenome

Instrument

Illumina Genome Analyzer IIx

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

95 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 289988372485 reported

total reads 2067197583 reported

n content pct 0.001 measured

pct q20 bases 97.7 measured

pct q30 bases 91.8 measured

gc content pct 48.5 measured

mean read length 99.5 measured

mean base quality 35.9 measured

adapter content pct 4.93 measured

duplication rate pct 1.54 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 91.8 measured ×1 100%

duplication rate pct 1.54 measured ×0.5 100%

adapter content pct 4.93 measured ×0.4 72%

QC cost 22 s compute

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