Corpus 1,273 assessed · 1,174 scored · 643 reproduced ≥75 · 169 flagged ·∅ 74.1/100
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GSE104257

GEO first seen 2021

Loss of KDM4B Exacerbates Bone-Fat Imbalance and Mesenchymal Stem Cell Exhaustion in Skeletal Aging [ChIP-seq]

Organism
Mus musculus
Samples
8
Type
Genome binding/occupancy pro...
Submitted
2017-09-26

Mesenchymal stem/stromal cells (MSCs) are multipotent progenitor cells with multilineage differentiation potentials. We previously reported histone demethylases KDM4B promoted osteogenesis and inhibited adipogenesis of human MSCs. To identify genome-wide enrichments of KDM4B and the changes in H3K9me3 marks when loss of KDM4B, Primary MSCs were isolated from Prx1Cre; Kdm4bf/f mice and control mice. ChIP-seq assay was performed using KDM4B, H3K9me3 and H3 antibody, respectively.

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
Peng DengTrent SuJing WangCunyu Wang
Reused by

Deep data QC

metadata only · no data-level QC for this type

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained

Data type / assay
ChIP-seq
Organism
Mus musculus
Instrument
Illumina HiSeq 3000
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
8 / 8 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 34198030463 reported
total reads 623435465 reported
supplementary file types BED, BEDGRAPH reported
QC cost 6 s compute

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