SRX727358

SRA

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

95/100 · A

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

What this means

claude:haiku

RNA-seq of marine microbial communities via 454 GS FLX Titanium with longer reads (~218 bp) but very limited depth (114k reads) and high error rates (0.554% N content), reflecting 454 chemistry challenges with environmental samples. Limited utility for modern studies; primarily historical reference for marine metatranscriptomics methods.

Data type / assay

bulk-RNA-seq

Organism

marine metagenome

Instrument

454 GS FLX Titanium

Platform

LS454

Files available

FASTQ (raw reads)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 24976914 reported

total reads 114323 reported

n content pct 0.554 measured

pct q20 bases 97.6 measured

pct q30 bases 87.7 measured

gc content pct 47.3 measured

mean read length 218.5 measured

mean base quality 36.6 measured

adapter content pct 0 measured

duplication rate pct 8.62 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 95/100

The A 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 87.7 measured ×1 89%

mean base quality 36.6 measured ×0.6 100%

adapter content pct 0 measured ×0.4 100%

duplication rate pct 8.62 measured ×0.4 100%

QC cost 7 s compute

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