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ERR1248455
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
68/100 · 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
11.41
measured
checksum ok
yes
reported
total bases
30608500
reported
total reads
612170
reported
n content pct
0.005
measured
pct q20 bases
92.4
measured
pct q30 bases
89.2
measured
pct reads q30
87.8
measured
sampled bases
30608500
measured
sampled reads
612170
measured
gc content pct
53.1
measured
polyg tail pct
0
measured
read length sd
0
measured
quality dropoff
-6.9
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
0.034
measured
mean base quality
35.6
measured
pct reads lt 100bp
100
measured
read length median
50
measured
adapter content pct
26.85
measured
median read quality
38.6
measured
duplication rate pct
67.06
measured
overrepresented top pct
4.45
measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 68/100
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
89.2
measured
×1
96%
mean base quality
35.6
measured
×0.6
100%
adapter content pct
26.85
measured
×0.4
0%
duplication rate pct
67.06
measured
×0.4
18%
QC cost
10 s compute
measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0