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

GSE60270

GEO first seen 2014

Enhancer Activation Requires Trans-Recruitment of a Mega Transcription Factor Complex (ChIP-seq)

Organism
Homo sapiens
Samples
48
Type
Genome binding/occupancy pro...
Submitted
2014-08-08

Enhancers provide critical information directing cell-type specific transcriptional programs, regulated by binding of signal-dependent transcription factors and their associated cofactors. Here we report that the most strongly activated estrogen (E2)-responsive enhancers are characterized by trans-recruitment and in situ assembly of a large 1-2MDa complex of diverse DNA-binding transcription factors by ERα at ERE-containing enhancers. We refer to enhancers recruiting these factors as mega transc...

Provenance — who produced it, who reused it

Linked to 4 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
Zhijie LiuDaria MerkurjevMichael G Rosenfeld
Reused by

3 further papers cite this accession but reuse could not be confirmed.

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
Instrument
Illumina Genome Analyzer IIx
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
48 / 48 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 95421702015 reported
total reads 1800550598 reported
n content pct 0.018 measured
pct q20 bases 95.4 measured
pct q30 bases 92.4 measured
gc content pct 43.1 measured
mean read length 48 measured
mean base quality 36.6 measured
adapter content pct 0.04 measured
duplication rate pct 4.28 measured
supplementary file types BEDGRAPH 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 92.4 measured ×1 100%
QC cost 22 s compute

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