PRJEB44456

BioProject first seen 2022

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

43/100 · F

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

What this means

claude:haiku

Illumina HiSeq 2000 marine metagenomic WGS yields 194.8 billion bases but with degraded Q-scores (80.9% Q20, 70.1% Q30)—typical quality loss in environmental samples. Still suitable for phylogenetic profiling and abundance estimation, though SNP-level resolution compromised by lower accuracy.

Data type / assay

WGS

Organism

marine metagenome

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

58 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 194781153300 reported

total reads 649270511 reported

n content pct 0.001 measured

pct q20 bases 80.9 measured

pct q30 bases 70.1 measured

gc content pct 49.8 measured

mean read length 150 measured

mean base quality 29.2 measured

adapter content pct 0.25 measured

duplication rate pct 13.2 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 43/100

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 70.1 measured ×1 1%

duplication rate pct 13.2 measured ×0.5 84%

adapter content pct 0.25 measured ×0.4 100%

QC cost 24 s compute

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