Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

4C analysis of 9p21 interaction network in HEK TE cells

ABSTRACT: 4C was performed to identify genomic loci interacting with the 9P21 locus. Subsequently, the effect on cell transformation was furhter investigated upon knockdown/overexpression of the selected candidate targets.

ORGANISM(S): Homo sapiens

PROVIDER: GSE135715 | GEO | 2019/08/13

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

4C analysis of 9p21 interaction network in HEK TE cells

Project description:4C analysis of 9p21 interaction network in HEK TE cells

| PRJNA559841 | ENA

Differential mRNA expression upon 9p21 deletion in HEK TE single-cell derived clones

Project description:RNA sequencing was performed to identify mRNAs that are dysregulated upon loss of 9p21. Subsequently, the effect on cell transformation was investigated upon knockdown/overexpression of the candidate targets found from the RNA sequencing analysis .

2019-08-13 | GSE135716 | GEO

Differential mRNA expression upon 9p21 deletion in HEK TE single-cell derived clones

Project description:Differential mRNA expression upon 9p21 deletion in HEK TE single-cell derived clones

| PRJNA559840 | ENA

MEF2C interaction profiles (4C-seq) in SH-SY5Y and HEK cell lines

Project description:To characterize enhancer elements regulating the MEF2C gene during neurodevelopment, we performed among others Circularized Chromosome Conformation Capture (4C) sequencing in a neuronal cell line, SH-SY5Y, and a non-neuronal control, HEK. We found that, in a neuronal cell line, the MEF2C promoter interacts with several putative enhancer elements in its upstream region, forming a complex interaction network. Moreover, these interactions are completely absent in HEK cells.

2018-10-22 | GSE121549 | GEO

The interactome of POU5F1 upstream enhancer in mouse embryonic stem cells revealed by 4C-Seq

Project description:We report the application of 4C-Seq technique for exploring POU5F1 enhancer interactome in mouse embryonic stem cells. A statistical model was built to identify enriched interacting regions from raw 4C data. The biological replicate data were compared to identify reproducible interacting regions. The interacting sites in the reproducible regions are enriched with active histone marks as well as transcription factors Oct4, Klf4, Esrrb, Tcfcp2i1 and Zfx that are critical for reprogramming and pluripotency. Generation of Illumina HiSeq2000 sequencing data using 4C-Seq protocol

2013-04-28 | E-GEOD-43776 | biostudies-arrayexpress

miR-876 is a tumor suppressor on 9p21 that is inactivated in melanoma and targets ERK

Project description:While melanomas commonly harbor losses of 9p21, on which CDKN2A resides, the presence of additional tumor suppressor elements at this locus is incompletely characterized. Here we assess the expression levels and functional role of microRNA-876 (miR-876), whose gene also maps to 9p21.

2024-08-21 | GSE267789 | GEO

The interactome of POU5F1 upstream enhancer in mouse embryonic stem cells revealed by 4C-Seq

2013-04-28 | GSE43776 | GEO

MEF2C interaction profiles (4C-seq) in SH-SY5Y and HEK cell lines

Project description:MEF2C interaction profiles (4C-seq) in SH-SY5Y and HEK cell lines

| PRJNA497741 | ENA

Chromatin interaction of Cebpa during adipocyte differentiation (4C-Seq)

Project description:Cebpa is a critical transcription factor gene for adipocyte differentiation and adipose tissue development. However, mechanisms controlling Cebpa expression during adipogenic differentiation remain largely unknown. Here, we generated the high-resolution chromatin interaction maps of Cebpa in 3T3-L1 preadipocytes (3T3-L1) and 3T3-L1 adipocytes (3T3-L1-AD) using circularized chromosome conformation capture coupled with next-generation sequencing (4C-seq), and characterized differences in their chromatin interactomes and chromatin status of the interaction sites during adipogenic differentiation. We performed a 4C-seq experiment on inguinal white adipose tissue (iWAT) to evaluate whether chromatin interaction between Cebpa-L1-AD-En2 and Cebpa promoters in 3T3-L1 adipocytes also exists in mouse adipose tissue.

2024-03-07 | GSE222688 | GEO

4C-Seq identify the interaction between IRF8 promoter and rs2280381-containing region

Project description:To test if there is a physical interaction between the IRF8 promoter and the rs2280381-containing region, we conducted circular chromatin conformation capture assay in the U937 cell. For the IRF8 viewpoint group, we used CSP6I as the first digested enzyme and NlaIII as the second enzyme. For the rs2280381-containing region, we used MboI as the first digested enzyme and NlaIII as the second enzyme. We use 4C-PCR primer to construct IRF8 point view and rs2280381-containing region 4C library.

2021-07-01 | E-MTAB-10120 | 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