Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Dissection of transcriptional and cis-regulatory control of differentiation in human pancreatic cancer.

ABSTRACT: Dissection of transcriptional and cis-regulatory control of differentiation in human pancreatic cancer.

PROVIDER: PRJNA271295 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR1736440.fastq.gz	Fastqsanger.gz
	SRR1736450.fastq.gz	Fastqsanger.gz
	SRR1736460.fastq.gz	Fastqsanger.gz
	SRR1736470.fastq.gz	Fastqsanger.gz
	SRR1736480.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 114

Similar Datasets

Dissection of transcriptional and cis-regulatory control of differentiation in human pancreatic cancer [RNA-seq]

Project description:The histological grade of carcinomas describes the ability of tumor cells to organize differentiated epithelial structures and has prognostic impact. Molecular control of differentiation in normal and cancer cells relies on lineage-determining transcription factors (TFs) that activate the repertoire of cis-regulatory elements controlling cell type-specific transcriptional outputs. TF recruitment to cognate genomic DNA binding sites results in the deposition of histone marks characteristic of enhancers and other cis-regulatory elements. Here we integrated transcriptomics and genome-wide analysis of chromatin marks in human pancreatic ductal adenocarcinoma (PDAC) cells of different grade to identify first, and then experimentally validate the sequence-specific TFs controlling grade-specific gene expression. We identified a core set of TFs with a pervasive binding to the enhancer repertoire characteristic of differentiated PDACs and controlling different modules of the epithelial gene expression program. Defining the regulatory networks that control the maintenance of epithelial differentiation of PDAC cells will help determine the molecular basis of PDAC heterogeneity and progression.

2016-01-18 | GSE64558 | GEO

Dissection of transcriptional and cis-regulatory control of differentiation in human pancreatic cancer [ChIP-seq]

2016-01-18 | GSE64557 | GEO

Dissection of transcriptional and cis-regulatory control of differentiation in human pancreatic cancer.

Project description:The histological grade of carcinomas describes the ability of tumor cells to organize in differentiated epithelial structures and has prognostic and therapeutic impact. Here, we show that differential usage of the genomic repertoire of transcriptional enhancers leads to grade-specific gene expression programs in human pancreatic ductal adenocarcinoma (PDAC). By integrating gene expression profiling, epigenomic footprinting, and loss-of-function experiments in PDAC cell lines of different grade, we identified the repertoires of enhancers specific to high- and low-grade PDACs and the cognate set of transcription factors acting to maintain their activity. Among the candidate regulators of PDAC differentiation, KLF5 was selectively expressed in pre-neoplastic lesions and low-grade primary PDACs and cell lines, where it maintained the acetylation of grade-specific enhancers, the expression of epithelial genes such as keratins and mucins, and the ability to organize glandular epithelia in xenografts. The identification of the transcription factors controlling differentiation in PDACs will help clarify the molecular bases of its heterogeneity and progression.

| S-EPMC4801945 | biostudies-literature

Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages

Project description:Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages

| PRJNA490018 | ENA

Conserved pleiotropy of an ancient plant homeobox gene uncovered by cis-regulatory dissection

Project description:Conserved pleiotropy of an ancient plant homeobox gene uncovered by cis-regulatory dissection

| PRJNA689817 | ENA

Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages [ATAC-Seq]

Project description:Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages [ATAC-Seq]

| PRJNA490021 | ENA

Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages [ChIP-Seq]

Project description:Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages [ChIP-Seq]

| PRJNA490020 | ENA

Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic

Project description:Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic

| PRJNA397062 | ENA

Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages [chromatin-associated RNA-Seq]

Project description:Dissection of nucleosome remodeling at cis-regulatory elements in stimulated macrophages [chromatin-associated RNA-Seq]

| PRJNA490019 | ENA

Dissection of transcriptional and cis-regulatory control of differentiation in human pancreatic cancer.

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

2016-01-18 | GSE64560 | GEO

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