Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (Hi-ChIP-Seq)

ABSTRACT: Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (Hi-ChIP-Seq)

PROVIDER: PRJNA912666 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR22750544_1.fastq.gz	Fastqsanger.gz
	SRR22750544_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers

Project description:Transposable elements as lineage-specific enhancers in endodermal-lineage cancers

| PRJNA912656 | ENA

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ATAC-Seq)

Project description:Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ATAC-Seq)

| PRJNA912664 | ENA

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (STARR-Seq)

Project description:Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (STARR-Seq)

| PRJNA912662 | ENA

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (RNA-Seq)

Project description:Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (RNA-Seq)

| PRJNA912665 | ENA

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ChIP-Seq)

Project description:Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ChIP-Seq)

| PRJNA912663 | ENA

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (Hi-ChIP-Seq)

Project description:Transposable elements (TE) are repetitive genomic elements that harbor binding sites for human transcription factors (TF). A regulatory role for TEs has been suggested in embryonal development and diseases such as cancer but systematic investigation of their functions has been limited by their widespread silencing in the genome. Here, we have utilized unbiased massively parallel reporter assay data using whole human genome library to identify TEs with functional enhancer activity in two human cancer types of endodermal lineage, colorectal and liver cancers. We show that the identified TE enhancers are characterized by genomic features associated with active enhancers, such as epigenetic marks and TF binding. Importantly, we identified distinct TE subfamilies that function as tissue-specific enhancers, namely MER11- and LTR12-elements in colon and liver cancers, respectively. These elements are bound by distinct TFs in each cell type, and they have predicted associations to differentially expressed genes. In conclusion, these data demonstrate how different cancer types can utilize distinct TEs as tissue-specific enhancers.

2023-08-11 | GSE221052 | GEO

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ATAC-Seq)

2023-08-11 | GSE221051 | GEO

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ChIP-Seq)

2023-08-11 | GSE221046 | GEO

Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (STARR-Seq)

2023-08-11 | GSE221045 | GEO