SRP144531

ENA first seen 2019

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

72/100 · C

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

What this means

claude:haiku

Short-read WGS of activated sludge metagenome. Grade C; acceptable but limited by exceptionally high duplication rate (55.04%), which is typical for metagenomics but problematic for de novo assembly and variant calling. Q30 bases (89.3%) are borderline adequate. Duplication dominates the score; reuse depends on tolerance for duplicate handling in assembly or mapping pipelines.

Data type / assay

WGS

Organism

activated sludge metagenome

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

10 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 44992713800 reported

total reads 224963569 reported

n content pct 0 measured

pct q20 bases 96.7 measured

pct q30 bases 89.3 measured

gc content pct 56 measured

mean read length 100 measured

mean base quality 34.9 measured

adapter content pct 0.06 measured

duplication rate pct 55.04 measured

How this grade was computed

Weighted mean of 3 scored metric(s) → 72/100

The C 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 89.3 measured ×1 97%

duplication rate pct 55.04 measured ×0.5 0%

adapter content pct 0.06 measured ×0.4 100%

QC cost 35 s compute

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