SRP042013

ENA first seen 2016

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

84/100 · 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 from Lepisosteus oculatus (spotted gar) on HiSeq 2000 with >370 million reads and good quality (90.4% Q20, 84.9% Q30), providing substantial coverage for comparative genomic studies of gene expression in this basal ray-finned fish.

Data type / assay

bulk-RNA-seq

Organism

Lepisosteus oculatus

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

20 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 76512488794 reported

total reads 378774697 reported

n content pct 0.068 measured

pct q20 bases 90.4 measured

pct q30 bases 84.9 measured

gc content pct 46.9 measured

mean read length 101 measured

mean base quality 33.5 measured

adapter content pct 0.03 measured

duplication rate pct 39.46 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 84/100

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 84.9 measured ×1 75%

mean base quality 33.5 measured ×0.6 92%

adapter content pct 0.03 measured ×0.4 100%

duplication rate pct 39.46 measured ×0.4 79%

QC cost 21 s compute

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