Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSM4625996

GEO first seen 2022

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

100/100 · A

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

What this means
claude:haiku

This Arabidopsis thaliana bulk-RNA-seq from Illumina NovaSeq 6000 generated 6.5 billion short reads (587 gigabases) with 97.6% Q20 and 93.8% Q30 base quality. The high-throughput capacity and quality metrics enable comprehensive plant gene expression analysis and transcript abundance estimation in Arabidopsis.

Data type / assay
bulk-RNA-seq
Organism
Arabidopsis thaliana
Instrument
Illumina NovaSeq 6000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
76 / 19 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 587866909903 reported
total reads 6460075933 reported
n content pct 0.006 measured
pct q20 bases 97.6 measured
pct q30 bases 93.8 measured
gc content pct 44.4 measured
mean read length 91 measured
mean base quality 35.9 measured
adapter content pct 0.02 measured
duplication rate pct 27.92 measured
supplementary file types RDS, TAR reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 100/100

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 93.8 measured ×1 100%
mean base quality 35.9 measured ×0.6 100%
adapter content pct 0.02 measured ×0.4 100%
duplication rate pct 27.92 measured ×0.4 100%
QC cost 7 s compute

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