Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE86788

GEO first seen 2017

Actively translating transcriptome (Ribotag) profiling of mouse retinal endothelial cells during postnatal development

Organism
Mus musculus
Samples
20
Type
Expression profiling by high...
Submitted
2016-09-09

Angiogenesis, a process mediating the expansion of vascular beds in many physiological and pathological settings, requires dynamic changes in endothelial cell (EC) behavior. The molecular mechanisms governing EC activity during different phases of vascular growth, remodeling, maturation, and quiescence remain elusive. Here, we have employed actively translating transcriptome analysis of mouse retinal ECs for the characterization of dynamic gene expression changes during postnatal development and...

Provenance — who produced it, who reused it

Linked to 2 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.

Deposited / produced by
Hyun-Woo JeongRalf H Adams
Reused by

Deep data QC

insufficient data to score

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained

Data type / assay
ChIP-seq
Organism
Mus musculus
Instrument
Illumina MiSeq
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
20 / 20 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 28471981285 reported
total reads 191088015 reported
n content pct 0.003 measured
pct q20 bases 99 measured
pct q30 bases 96.1 measured
gc content pct 50.5 measured
mean read length 74.5 measured
mean base quality 36.6 measured
adapter content pct 0 measured
duplication rate pct 22.65 measured
supplementary file types TXT, XLSX reported
How this grade was computed

The insufficient grade is a transparent weighted average. Each metric below scored from 0–100% against the published ChIP-seq thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 96.1 measured ×1 100%
QC cost 8 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0