GSM3150468

GEO first seen 2018

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

94/100 · A

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

What this means

claude:haiku

Rattus norvegicus RNA-Seq on HiSeq 2500 with 6.06 billion short reads and 915 Gb at moderate quality (92.2% Q20, 89.6% Q30). Repeats exceptional depth from related rat samples; suitable for comprehensive expression mapping.

Data type / assay

bulk-RNA-seq

Organism

Rattus norvegicus

Instrument

Illumina HiSeq 2500

Platform

ILLUMINA

Read type

short-read

Files available

FASTQ (raw reads)

N numbers (samples, groups)

138 / 138 runs

Completeness

100%

Metrics (value · how obtained)

checksum ok yes reported

total bases 915261513834 reported

total reads 6062559288 reported

n content pct 0.002 measured

pct q20 bases 92.2 measured

pct q30 bases 89.6 measured

gc content pct 49.6 measured

mean read length 75 measured

mean base quality 33.3 measured

adapter content pct 0.15 measured

duplication rate pct 36.97 measured

supplementary file types TXT reported

How this grade was computed

Weighted mean of 4 scored metric(s) → 94/100

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 89.6 measured ×1 98%

mean base quality 33.3 measured ×0.6 88%

adapter content pct 0.15 measured ×0.4 100%

duplication rate pct 36.97 measured ×0.4 85%

QC cost 32 s compute

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