Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Hnf4a chromatin interactions in PDAC [ChIP-seq]

ABSTRACT: Hnf4a chromatin interactions in PDAC [ChIP-seq]

PROVIDER: PRJNA575891 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Hnf4a chromatin interactions in PDAC [ChIP-seq]

Project description:Pancreatic ductal adenocarcinoma is aggressive disease with a dismal five-year survival of 5%. Gene expression profiling has been instrumental for subtype classification in cancer, highlighting fundamental differences in tumors at the molecular level. Over the last years, multiple genomics studies have led to the classification of PDAC into two major subtypes: classical and basal-type. The classical subtype expresses higher levels of endodermal lineage specifiers, including HNF4A, GATA6, FOXA2, FOXA3 than the basal-type. The basal-type confers a worse prognosis, raising the possibility that loss of these lineage specifiers might enhance the malignant potential of PDAC. We found that the lineage specifier HNF4a plays a key role in maintaining a transcriptional network that characterizes the classical subtype, restraining growth in different PDAC models. Additionally, we demonstrated that HNF4a controls PDAC cell identity and proliferation, and represses the expression of SIX family members, two mesodermal lineage specifiers highly expressed in basal-type.

2021-01-14 | GSE138452 | GEO

Changes in chromatin accessibility landscape induced by Hnf4a in PDAC [ATAC-seq]

2021-01-14 | GSE138451 | GEO

Hnf4a regulated transcriptome in murine PDAC autochthonous tumors [FFPE tumors]

Project description:Pancreatic ductal adenocarcinoma is an aggressive disease with a dismal five-year survival of 5%. Gene expression profiling has been instrumental for subtype classification in cancer, highlighting fundamental differences in tumors at the molecular level. Over the last years, multiple genomics studies have led to the classification of PDAC into two major subtypes: classical and basal-type. The classical subtype expresses higher levels of endodermal lineage specifiers, including HNF4A, GATA6, FOXA2, FOXA3 than the basal-type. The basal-type confers a worse prognosis, raising the possibility that loss of these lineage specifiers might enhance the malignant potential of PDAC. We found that the lineage specifier HNF4a plays a key role in maintaining a transcriptional network that characterizes the classical subtype, restraining growth in different PDAC models. Additionally, we demonstrated that HNF4a controls PDAC cell identity and proliferation, and represses the expression of SIX family members, two mesodermal lineage specifiers highly expressed in basal-type.

2021-01-14 | GSE138144 | GEO

Changes in chromatin accessibility landscape induced by Hnf4a in PDAC [ATAC-seq]

Project description:Changes in chromatin accessibility landscape induced by Hnf4a in PDAC [ATAC-seq]

| PRJNA575890 | ENA

Chromatin profiling of normal and HNF4A KO liver and NIH 3T3 mouse fibroblast cells

Project description:We analyzed the effect on HNF4A loss on Histone modifications (H3K4me1, H3K27ac) by ChIP-seq and CUT&Tag using control and HNF4A KO livers samples. We also examined chromatin accessibility by ATAC-seq in control and HNF4A KO livers. We also performed CUT&Tag and ATAC-seq of mouse fibroblast cells (NIH 3T3) treated with control or HNF4A expression vector.

2024-01-15 | GSE211123 | GEO

Hnf4a regulated transcriptome in murine PDAC autochthonous tumors [FFPE tumors]

Project description:Hnf4a regulated transcriptome in murine PDAC autochthonous tumors [FFPE tumors]

| PRJNA574924 | ENA

ChIP-seq of HNF4A and GATA6 in oesophageal adenocaricnoma OE19 cells

Project description:The genome-wide binding sites of transcription factors provide insight into their regulatory function. We used chromatin immunoprecipitaition with high-throughput sequencing (ChIP-seq) to identify the genomic binding sites of HNF4A and GATA6 in OE19 cells.

2019-02-09 | E-MTAB-6858 | biostudies-arrayexpress

HNF4A defines tissue-specific circadian rhythms by beaconing BMAL1::CLOCK chromatin binding and shaping rhythmic chromatin landscape

Project description:ChIP-seqs of BMAL1, HNF4A, FOXA2, H3K4me1, and H3K27ac were profiled in mouse liver tissues upon Hnf4a or Bmal1 knockout. BMAL1, H3K4me1, and H3K27ac ChIP-seq were profiled in U2OS cells ectopically expressing HNF4A.

2021-09-23 | GSE157452 | GEO

Characterization of genome-wide DNA binding rhythms of HNF4A

Project description:HNF4A mRNA cycles over the coure of 24 h. To understand whether the chromatin binding of the transcription factor is also rhythmic, we performed ChIP-seq for HNF4A using mouse liver samples of ZT4 and ZT16. By analysing this dataset, we conclude that HNF4A binds chromatin much more robustly during the evening ( at ZT16).

2018-08-02 | GSE118007 | GEO

MYC regulates chromatin interactions in prostate cancer [ChIP-seq]

Project description:MYC regulates chromatin interactions in prostate cancer [ChIP-seq]

| PRJNA823375 | ENA