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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
58/100 · FStandardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured
Data type / assay
bulk-RNA-seq
Organism
Oryza sativa Japonica Group
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
Read type
hybrid (short+long)
Files available
FASTQ (raw reads), submitted files
N numbers (samples, groups)
25 runs
Metrics (value · how obtained)
checksum ok
yes
reported
total bases
810332154600
reported
total reads
3693569844
reported
n content pct
0.014
measured
pct q20 bases
88.6
measured
pct q30 bases
76.7
measured
gc content pct
50.4
measured
mean read length
100
measured
mean base quality
31.3
measured
adapter content pct
0.08
measured
duplication rate pct
38.71
measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 58/100
The F 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
76.7
measured
×1
34%
mean base quality
31.3
measured
×0.6
55%
adapter content pct
0.08
measured
×0.4
100%
duplication rate pct
38.71
measured
×0.4
81%
QC cost
31 s compute
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0