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ERR004027
ENAProvenance — who produced it, who reused it
Linked to 0 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.
No linked papers found in the corpus yet.
Deep data QC
57/100 · 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
Danio rerio
Instrument
Illumina Genome Analyzer II
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
gc sd
10.12
measured
checksum ok
yes
reported
total bases
518354496
reported
total reads
7199368
reported
n content pct
0.182
measured
pct q20 bases
75.3
measured
sampled bases
36000000
measured
sampled reads
1000000
measured
gc content pct
46.1
measured
polyg tail pct
0
measured
read length sd
0
measured
quality dropoff
-6.5
measured
read length max
36
measured
read length min
36
measured
read length n50
36
measured
max base quality
29
measured
mean read length
36
measured
max n pct per pos
0.532
measured
mean base quality
23.2
measured
pct reads lt 100bp
100
measured
read length median
36
measured
adapter content pct
0.01
measured
median read quality
23.7
measured
duplication rate pct
15.29
measured
overrepresented top pct
0.05
measured
How this grade was computed
Weighted mean of 3 scored metric(s) → 57/100
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.
mean base quality
23.2
measured
×0.6
0%
adapter content pct
0.01
measured
×0.4
100%
duplication rate pct
15.29
measured
×0.4
100%
QC cost
52 s compute
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0