Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Integrative epigenetic taxonomy of primary prostate cancer

ABSTRACT: Integrative epigenetic taxonomy of primary prostate cancer

PROVIDER: PRJNA494338 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7949080.fastq.gz	Fastqsanger.gz
	SRR7949090.fastq.gz	Fastqsanger.gz
	SRR7949100.fastq.gz	Fastqsanger.gz
	SRR7949110.fastq.gz	Fastqsanger.gz
	SRR7949120.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 404

Similar Datasets

Integrative epigenetic taxonomy of primary prostate cancer [RNA-Seq]

Project description:Integrative epigenetic taxonomy of primary prostate cancer [RNA-Seq]

| PRJNA494345 | ENA

Integrative epigenetic taxonomy of primary prostate cancer [ChIP-Seq]

Project description:Integrative epigenetic taxonomy of primary prostate cancer [ChIP-Seq]

| PRJNA494344 | ENA

Integrative epigenetic taxonomy of primary prostate cancer [RNA-Seq]

Project description:The Androgen Receptor (AR) is the key-driving transcription factor in prostate cancer, tightly controlled by epigenetic regulation. To date, most epigenetic profiling has been performed in cell lines or limited tissue samples. To comprehensively study the epigenetic landscape, we complemented RNA-seq with ChIP-seq for AR and histone modification marks (H3K27ac, H3K4me3, H3K27me3) in 100 primary prostate carcinomas. Integrative molecular subtyping of the five data streams revealed three major subtypes of which two were clearly TMPRSS2-ERG dictated. Importantly, a third novel subtype was identified, with low AR chromatin binding and activity, even though the receptor was clearly expressed. While positive for neuroendocrine-hallmark genes, these tumors were copy number-neutral with low mutation burden, significantly depleted for genes characteristic of poor-outcome associated luminal B-subtype. We present a rich novel resource on transcriptional and epigenetic control in prostate cancer, revealing a tight control of gene regulation differentially dictated by AR over the three subtypes.

2018-10-03 | GSE120741 | GEO

Integrative epigenetic taxonomy of primary prostate cancer [ChIP-Seq]

2018-10-03 | GSE120738 | GEO

Integrative epigenetic taxonomy of primary prostate cancer.

Project description:The Androgen Receptor (AR) is the key-driving transcription factor in prostate cancer, tightly controlled by epigenetic regulation. To date, most epigenetic profiling has been performed in cell lines or limited tissue samples. Here, to comprehensively study the epigenetic landscape, we perform RNA-seq with ChIP-seq for AR and histone modification marks (H3K27ac, H3K4me3, H3K27me3) in 100 primary prostate carcinomas. Integrative molecular subtyping of the five data streams revealed three major subtypes of which two were clearly TMPRSS2-ERG dictated. Importantly, we identify a third subtype with low chromatin binding and activity of AR, but with high activity of FGF and WNT signaling. While positive for neuroendocrine-hallmark genes, these tumors were copy number-neutral with low mutational burden, significantly depleted for genes characteristic of poor-outcome associated luminal B-subtype. We present a unique resource on transcriptional and epigenetic control in prostate cancer, revealing tight control of gene regulation differentially dictated by AR over three subtypes.

| S-EPMC6249266 | biostudies-other

Integrative epigenetic taxonomy of primary prostate cancer

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

2018-10-03 | GSE120742 | GEO

Integrative taxonomy of Aeromonas media group

Project description:Integrative taxonomy and population genomics of Aeromonas media and related species

| PRJEB12343 | ENA

Integrative taxonomy of Aeromonas media group

Project description:Integrative taxonomy and population genomics of Aeromonas media and related species

| PRJEB12344 | ENA

Integrative taxonomy of Aeromonas media group

Project description:Integrative taxonomy and population genomics of Aeromonas media and related species