GSE97857

GEO first seen 2017

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

Predicting gene regulatory networks by combining spatial and tem... 2017 · 111 cites

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

Arabidopsis bulk RNA-seq recoverable with preprocessing; very high adapter contamination (39.46%, scored 0/100) is a library-prep artifact, as base quality is strong (Q30=94.2%, mean=36.5). Requires rigorous adapter trimming but longer reads (125bp) aid recovery.

Data type / assay

bulk-RNA-seq

Organism

Arabidopsis thaliana

Metrics (value · how obtained)

n content pct 0.008 measured

pct q20 bases 96.6 measured

pct q30 bases 94.2 measured

gc content pct 45 measured

mean read length 125 measured

mean base quality 36.5 measured

adapter content pct 39.46 measured

duplication rate pct 11.86 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 94.2 measured ×1 100%

mean base quality 36.5 measured ×0.6 100%

adapter content pct 39.46 measured ×0.4 0%

duplication rate pct 11.86 measured ×0.4 100%

QC cost 27 s compute

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