ERR440790

ENA first seen 2021

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

87/100 · B

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

What this means

claude:haiku

Illumina HiSeq 2000 bulk RNA-seq from Anopheles gambiae (97.6M reads, 14.8 Gb, 44.9% GC) with substantial depth but lower quality (95.2% Q20, 88.5% Q30, 0.018% N). Very high-depth dataset useful for rare transcript discovery and tissue-specific expression studies. Lower Q30 may limit low-abundance variant detection.

Data type / assay

bulk-RNA-seq

Organism

Anopheles gambiae

Instrument

Illumina HiSeq 2000

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads), BAM/CRAM (aligned)

N numbers (samples, groups)

1 runs

Metrics (value · how obtained)

checksum ok yes reported

total bases 14841513928 reported

total reads 97641539 reported

n content pct 0.018 measured

pct q20 bases 95.2 measured

pct q30 bases 88.5 measured

gc content pct 44.9 measured

mean read length 76 measured

mean base quality 35 measured

adapter content pct 0.03 measured

duplication rate pct 57.21 measured

How this grade was computed

Weighted mean of 4 scored metric(s) → 87/100

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 88.5 measured ×1 93%

mean base quality 35 measured ×0.6 100%

adapter content pct 0.03 measured ×0.4 100%

duplication rate pct 57.21 measured ×0.4 40%

QC cost 17 s compute

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