Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Interplay between genome topology and gene regulation during somatic cell reprogramming [HiC-seq]

ABSTRACT: Studies of genome topology, chromatin state and transcriptome dynamics during highly-efficient somatic cell reprogramming

ORGANISM(S): Mus musculus

PROVIDER: GSE96553 | GEO | 2018/01/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Interplay between genome topology and gene regulation during somatic cell reprogramming [RNA-seq]

Project description:Studies of genome topology, chromatin state and transcriptome dynamics during highly-efficient somatic cell reprogramming

2018-01-30 | GSE96608 | GEO

Interplay between genome topology and gene regulation during somatic cell reprogramming [ATAC-seq]

Project description:Studies of genome topology, chromatin state and transcriptome dynamics during highly-efficient somatic cell reprogramming

2018-01-30 | GSE96554 | GEO

Interplay between genome topology and gene regulation during somatic cell reprogramming [ChIP-seq]

Project description:Studies of genome topology, chromatin state and transcriptome dynamics during highly-efficient somatic cell reprogramming

2018-01-30 | GSE96548 | GEO

Interplay between genome topology and gene regulation during somatic cell reprogramming [4C-seq]

Project description:Studies of genome topology, chromatin state and transcriptome dynamics during highly-efficient somatic cell reprogramming

2018-01-30 | GSE96546 | GEO

Interplay between genome topology and gene regulation during somatic cell reprogramming

Project description:Interplay between genome topology and gene regulation during somatic cell reprogramming

| PRJNA379168 | ENA

Cell-of-origin specific 3D genome structure acquired during somatic cell reprogramming [HiC-Seq]

Project description:We studied genome topology dynamics during reprogramming of different somatic cell types with highly distinct genome conformations. We find large-scale TAD repositioning and alterations of tissue-restricted genomic neighborhoods and chromatin loops, effectively erasing the somatic cell specific genome structures while establishing an embryonic stem cell-like 3D genome. Yet, early passage iPSCs carry topological hallmarks that enable discerning their cell-of-origin. These hallmarks are not remnants of somatic chromosome topologies. Instead, the distinguishing topological features are acquired during reprogramming, as we also find for cell-of-origin dependent gene expression patterns. Hi-C was performed in somatic cells (NSC, macrophages, MEFs and pre-B cells) and their corresponding early and late induced pluripotent stem cells. In addition Hi-C was performed in E14 embryonic stem cells

2016-03-01 | E-GEOD-76479 | biostudies-arrayexpress

Cell-of-origin specific 3D genome structure acquired during somatic cell reprogramming [HiC-Seq]

2016-03-01 | GSE76479 | GEO

Interplay between genome topology and gene regulation during somatic cell reprogramming

Project description:This SuperSeries is composed of the SubSeries listed below.

2018-01-30 | GSE96611 | GEO

Cell-of-origin specific 3D genome structure acquired during somatic cell reprogramming [ChIP-Seq]

Project description:We studied genome topology dynamics during reprogramming of different somatic cell types with highly distinct genome conformations. We find large-scale TAD repositioning and alterations of tissue-restricted genomic neighborhoods and chromatin loops, effectively erasing the somatic cell specific genome structures while establishing an embryonic stem cell-like 3D genome. Yet, early passage iPSCs carry topological hallmarks that enable discerning their cell-of-origin. These hallmarks are not remnants of somatic chromosome topologies. Instead, the distinguishing topological features are acquired during reprogramming, as we also find for cell-of-origin dependent gene expression patterns. ChIPseq for CTCF and H3K27ac was performed on early and late iPS cells derived from different founders

2016-03-01 | E-GEOD-76478 | biostudies-arrayexpress

Cell-of-origin specific 3D genome structure acquired during somatic cell reprogramming [Expression]

Project description:We studied genome topology dynamics during reprogramming of different somatic cell types with highly distinct genome conformations. We find large-scale TAD repositioning and alterations of tissue-restricted genomic neighborhoods and chromatin loops, effectively erasing the somatic cell specific genome structures while establishing an embryonic stem cell-like 3D genome. Yet, early passage iPSCs carry topological hallmarks that enable discerning their cell-of-origin. These hallmarks are not remnants of somatic chromosome topologies. Instead, the distinguishing topological features are acquired during reprogramming, as we also find for cell-of-origin dependent gene expression patterns. Transcriptome analysis was performed in somatic cells (NSC, macrophages, MEFs and pre-B cells) and their corresponding early and late induced pluripotent stem cells. In addition, expression analysis was performed in E14 embryonic stem cells

2016-03-01 | E-GEOD-76480 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data