SRR452448

ENA 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

68/100 · D

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

What this means

claude:haiku

Hydrothermal vent metagenome with D-grade quality limited by two factors: high duplication (72.29%, scored 6/100) and low mean base quality (30, scored 33/100). In a metagenome context, such duplication will skew community composition estimates regardless of perfect Q20/Q30 percentiles.

Data type / assay

bulk-RNA-seq

Organism

hydrothermal vent metagenome

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

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 20615751600 reported

total reads 103078758 reported

n content pct 0.001 measured

pct q20 bases 100 measured

pct q30 bases 100 measured

gc content pct 52.4 measured

mean read length 100 measured

mean base quality 30 measured

adapter content pct 0.68 measured

duplication rate pct 72.29 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 68/100

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

pct q30 bases 100 measured ×1 100%

mean base quality 30 measured ×0.6 33%

adapter content pct 0.68 measured ×0.4 100%

duplication rate pct 72.29 measured ×0.4 6%

QC cost 40 s compute

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