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ERR1248464
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
82/100 · BStandardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured
Data type / assay
bulk-RNA-seq
Organism
Listeria monocytogenes EGD-e
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
1 runs
Metrics (value · how obtained)
gc sd
8.83
measured
checksum ok
yes
reported
total bases
338258048
reported
total reads
5876190
reported
n content pct
0.096
measured
pct q20 bases
93.4
measured
pct q30 bases
86.9
measured
pct reads q30
90.1
measured
sampled bases
57611256
measured
sampled reads
1000000
measured
gc content pct
46.6
measured
polyg tail pct
0.06
measured
read length sd
10.4
measured
quality dropoff
1.6
measured
read length max
65
measured
read length min
32
measured
read length n50
65
measured
max base quality
37
measured
mean read length
57.6
measured
max n pct per pos
1.412
measured
mean base quality
33.8
measured
pct reads lt 100bp
100
measured
read length median
64
measured
adapter content pct
0.08
measured
median read quality
34.9
measured
duplication rate pct
57.72
measured
overrepresented top pct
13.38
measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 82/100
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
86.9
measured
×1
85%
mean base quality
33.8
measured
×0.6
97%
adapter content pct
0.08
measured
×0.4
100%
duplication rate pct
57.72
measured
×0.4
38%
QC cost
43 s compute
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0