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

GSE100347

GEO first seen 2018

Recognition of histone acetylation by the GAS41 YEATS domain promotes H2A.Z deposition and tumorigenesis of non-small cell lung cancer

Organism
Homo sapiens
Samples
12
Type
Expression profiling by high...
Submitted
2017-06-22

Histone acetylation is associated with active transcription in eukaryotic cells. It helps to open up the chromatin by neutralizing the positive charge of histone lysine residues, and by providing binding platforms for “reader” proteins. The bromodomain (BRD) has long been thought to be the sole protein module that recognizes acetylated histones. Recently, we identified the YEATS domain of AF9 as a novel acetyllysine-binding module, and showed that the ENL YEATS domain is an essential acetyl-hist...

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
Jiejun ShiChih-Chao HsuXiaobing Shi
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
Instrument
Illumina HiSeq 2000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
12 / 12 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 51307311637 reported
total reads 583704804 reported
n content pct 0.004 measured
pct q20 bases 98.9 measured
pct q30 bases 96 measured
gc content pct 63.4 measured
mean read length 36 measured
mean base quality 37.3 measured
adapter content pct 0 measured
duplication rate pct 2.63 measured
supplementary file types BW, TSV 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 measured ×1 100%
QC cost 16 s compute

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