Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE103953

GEO first seen 2018

PU.1 represses and activates gene expression in early T cells by redirection of transcription factor ensembles [ChIP-Seq]

Organism
Mus musculus
Samples
8
Type
Genome binding/occupancy pro...
Submitted
2017-09-18

Transcription factors normally regulate gene expression through their action at sites where they bind to DNA. However, the balance of activating and repressive functions that a transcription factor can mediate is not completely understood. Here, we show that PU.1 regulates gene expression in early stages of T-cell development both by recruiting partner transcription factors to its own binding sites and by depleting them from the binding sites that they may prefer when PU.1 is absent. Importantly...

Provenance — who produced it, who reused it

Linked to 1 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
Hiroyuki HosokawaJonas UngerbäckXun WangMasaki MatsumotoKeiichi I NakayamaTomoaki TanakaEllen V Rothenberg
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
Metrics (value · how obtained)
n content pct 0.046 measured
pct q20 bases 97 measured
pct q30 bases 95 measured
gc content pct 40.2 measured
mean read length 50 measured
mean base quality 37.9 measured
adapter content pct 0.03 measured
duplication rate pct 6.16 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 95 measured ×1 100%
QC cost 32 s compute

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