Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE64703

GEO first seen 2015

Sox10 Binding Analysis in the Central and Peripheral Nervous System

Organism
Rattus norvegicus
Samples
8
Type
Genome binding/occupancy pro...
Submitted
2015-01-06

ChIP-seq of Sox10 in spinal cord and sciatic nerve was performed to determine shared and unique binding sites for Sox10 in oligodendrocytes and Schwann cells, respectively. Sox10 is required for both Schwann cell and oligodendrocyte development. In addition, differentiation of myelinating glia is dependent upon axonal signaling, so these studies were performed in vivo.

Provenance — who produced it, who reused it

Linked to 5 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
Camila Lopez-AnidoRajini SrinivasanGuannan SunSunduz KelesJohn Svaren
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
Rattus norvegicus
Instrument
Illumina Genome Analyzer IIx
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
9 / 8 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 24418856116 reported
total reads 530884793 reported
n content pct 0.013 measured
pct q20 bases 97.3 measured
pct q30 bases 94.2 measured
gc content pct 54.2 measured
mean read length 51 measured
mean base quality 37 measured
adapter content pct 38.66 measured
duplication rate pct 33.22 measured
supplementary file types BED, 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 94.2 measured ×1 100%
QC cost 17 s compute

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