PRJNA548154

BioProject first seen 2020

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

83/100 · B

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

What this means

claude:haiku

Bulk RNA-seq of C. elegans. Grade B (83/100) — usable but with limitations. Duplication is extremely high at 81.93% (measured, scored 0/100), which severely biases relative abundance estimates toward overrepresented transcripts and undermines downstream DE analysis; quality bases (93.3% Q30, measured) are strong but cannot overcome duplication bias.

Data type / assay

bulk-RNA-seq

Organism

Caenorhabditis elegans

Instrument

Illumina HiSeq 4000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

27 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 48163919965 reported

total reads 667652966 reported

n content pct 0 measured

pct q20 bases 95.5 measured

pct q30 bases 93.3 measured

gc content pct 48.6 measured

mean read length 76 measured

mean base quality 34.2 measured

adapter content pct 0.09 measured

duplication rate pct 81.93 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 83/100

The B 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 93.3 measured ×1 100%

mean base quality 34.2 measured ×0.6 100%

adapter content pct 0.09 measured ×0.4 100%

duplication rate pct 81.93 measured ×0.4 0%

QC cost 15 s compute

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