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ERR1248458
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
67/100 · DStandardized, 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
9.69
measured
checksum ok
yes
reported
total bases
191948350
reported
total reads
3838967
reported
n content pct
0.007
measured
pct q20 bases
96.6
measured
pct q30 bases
92.9
measured
pct reads q30
93.1
measured
sampled bases
50000000
measured
sampled reads
1000000
measured
gc content pct
55.9
measured
polyg tail pct
0
measured
read length sd
0
measured
quality dropoff
-6
measured
read length max
50
measured
read length min
50
measured
read length n50
50
measured
max base quality
41
measured
mean read length
50
measured
max n pct per pos
0.026
measured
mean base quality
36.8
measured
pct reads lt 100bp
100
measured
read length median
50
measured
adapter content pct
20.87
measured
median read quality
38.4
measured
duplication rate pct
76.5
measured
overrepresented top pct
5.91
measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 67/100
The D 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
92.9
measured
×1
100%
mean base quality
36.8
measured
×0.6
100%
adapter content pct
20.87
measured
×0.4
0%
duplication rate pct
76.5
measured
×0.4
0%
QC cost
19 s compute
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0