Corpus 1,273 assessed · 1,174 scored · 643 reproduced ≥75 · 169 flagged ·∅ 74.1/100
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GSE53998

GEO first seen 2014

NF-kB coordinates rapid, BRD4-dependent remodeling of proinflammatory super-enhancers [ChIP-Seq]

Organism
Homo sapiens
Samples
21
Type
Genome binding/occupancy pro...
Submitted
2014-01-10

Proinflammatory stimuli rapidly and globally remodel chromatin landscape, thereby enabling transcriptional responses. Yet, the mechanisms coupling chromatin regulators to the master regulatory inflammatory transcription factor NF-kB remain poorly understood.  We report in human endothelial cells (ECs) that activated NF-kB binds to enhancers, provoking a rapid, global redistribution of BRD4 preferentially at super-enhancers, large enhancer domains highly bound by chromatin regulators.  Newly esta...

Provenance — who produced it, who reused it

Linked to 3 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
Jonathan D BrownCharles Y LinJames E Bradner
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
Homo sapiens
Metrics (value · how obtained)
n content pct 0.01 measured
pct q20 bases 94.3 measured
pct q30 bases 92.2 measured
gc content pct 42.7 measured
mean read length 40 measured
mean base quality 36.2 measured
adapter content pct 2.88 measured
duplication rate pct 10.05 measured
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 92.2 measured ×1 100%
QC cost 26 s compute

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