Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE61888

GEO first seen 2016

High resolution chromatin dynamics during a yeast stress response

Organism
Saccharomyces cerevisiae
Samples
201
Type
Genome binding/occupancy pro...
Submitted
2014-09-30

Covalent histone modifications are highly conserved and play multiple roles in eukaryotic transcription regulation. Because of extensive crosstalk between transcriptional processes and histone modifications, steady state observations are insufficient to fully disentangle histone modification networks. As transient perturbation of feedback mechanisms can reveal network structure, we mapped 26 histone modifications genome-wide over a time course following dramatic transcriptional reprogramming – r...

Provenance — who produced it, who reused it

Linked to 7 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
Assaf WeinerTsung-Han S HsiehAlon AppleboimHsiuyi V ChenAyelet RahatIdo AmitOliver J RandoNir Friedman
Reused by

4 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
Saccharomyces cerevisiae
Metrics (value · how obtained)
n content pct 0.037 measured
pct q20 bases 98.1 measured
pct q30 bases 94.3 measured
gc content pct 40.3 measured
mean read length 60 measured
mean base quality 36.8 measured
adapter content pct 0 measured
duplication rate pct 20.5 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 94.3 measured ×1 100%
QC cost 38 s compute

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