Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The role of AIB1D4 cistrome in early breast cancer progression

ABSTRACT: We report the global occupancy by ChIP-seq of AIB1 in MCF10A, MCF10A-D4, MCFDCIS and MCFDCIS-D4 cells. We performed ChIP and library preparation with the ActiveMotif Low Cell ChIP-seq kit. Data was aligned to hg19 with rsubread, data was sorted and de-duplicated with SAMTOOLS, and peaks were called with CSAW. Analysis was done with ChIP-seeker in R.

ORGANISM(S): Homo sapiens

PROVIDER: GSE144632 | GEO | 2020/11/08

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

The role AIB1D4 cistrome in early breast cancer progression

Project description:We report the global occupancy by ChIP-seq of the histone marks (H3K4me1, H3K4me3, H3K427ac) in MCFDCIS and MCFDCIS-D4 cells. DNA sequencing libraries were prepared using the Kapa Hyper DNA library prep (Roche). ChIP-Seq data were aligned to hg19 using Rsubread and the differential genomic binding was established using csaw

2020-11-08 | GSE139367 | GEO

AIB1 and TEAD ChIP-seq

Project description:We report the global occupancy by ChIP-seq of AIB1 and TEAD4 in normal mammary epithelial cells (MCF10A). We performed ChIP and library preparation with the ActiveMotif Low Cell ChIP-seq kit. Data was aligned to Hg38 with BWA-MEM, data was sorted and de-duplicated with SAMTOOLS, and peaks were called with MACS2. Analysis was done with ChIP-seeker in R.

2019-11-01 | GSE137284 | GEO

Analysis of genetic changes in MCF10A series cells and MCFDCIS derived xenografts

Project description:MCF10A series is one of the few human models of breast tumor progression. A derivative of MCF10A cells is the MCFDCIS, which reproducibly forms comedo DCIS-like lesions that spontaneously progress to invasive tumors. We used this model to explore the relative importance of myoepithelial cells and stromal fibroblasts in the in situ to invasive breast carcinoma transition. We use Affymetrix 11K XbaI or 250K StyI SNP arrays to analyze the MCF10A series cells and MCFDCIS derived xenografts for copy number changes and LOH (loss of heterozygosity). Keywords: Cell line, xenografts of time course/co-injection groups, different cell types isolated from xenografts

2008-03-07 | GSE10747 | GEO

The tumor suppressive role of ANCO1 in early-stage triple negative breast cancer [ChIP-seq]

Project description:To examine the impact of ANCO1 reduction on H3K27Ac modification and its association with gene expression changes, we performed ChIP-seq experiments in shANCO1 and control MCF10A and MCFDCIS cells. We report ANCO1 knockdown causes global changes to H3K27Ac pattern and enhances accessibility of breast cancer enhancers. Altered H3K27Ac signal is associated with gene expression changes.

2023-07-31 | GSE230061 | GEO

Loss of ANCO1 repression of AIB1/YAP drives breast cancer progression

Project description:We report the role of AIB1 in regulated YAP driven transcription and repression in normal mammary epithelial cells (MCF10A). We generated six cell lines by sequential infection and selection and extracted RNA for sequencing. Data was aligned to Hg38 with STAR and processed with EdgeR.

2019-11-01 | GSE132475 | GEO

Identification of p63 binding regions in a p63 expressing basal-subtype breast cancer cell line, MCFDCIS.

Project description:p63 ChIP-SEQ in a p63 expressing basal-subtype breast cancer cell line, MCFDCIS and in a p63 deficient claudin-low subtype breast cancer cell line, MDA-MB-231 p63 ChIP-SEQ on MCFDCIS and MDA-MB-231 cell lines

2016-08-11 | E-GEOD-72009 | biostudies-arrayexpress

AIB1D4 role in early breast cancer progression

Project description:We report the role of AIB1D4 in early stage breast cancer progression. Using CRISPR editing, we generated isogeneic cell lines that only express AIB1D4 and not full length AIB1 then extracted RNA for sequencing from cell lines and mamary fat pad xenografts in SCID/Beige mice. Data was aligned to Hg19 with STAR and processed with EdgeR.

2020-11-08 | GSE139270 | GEO

The tumor suppressive role of ANCO1 in early-stage triple-negative breast cancer [RNA-seq]

Project description:To understand the impact of ANCO1 reduction on gene expressions, we performed RNA-seq experiments in shANCO1 and shCTRL MCF10A and MCFDCIS cells in 2D and 3D culture. We report ANCO1 knockdown leads to altered gene expression profiles. Enriched gene sets including chr1q21.3 and mTORC1 signaling may be responsible for phenotypical changes in shANCO1 cell lines.

2023-07-31 | GSE230062 | GEO

AIB1 and TEAD ChIP-seq

Project description:AIB1 and TEAD ChIP-seq

| PRJNA565007 | ENA

Bivalency - Histone H3 Lysine4 and Histone H3 Lysine27 Methylation Dynamics

Project description:The molecular signature at histone H3K4me3 and H3K27me3 involved in epigenetic regulation of normal (MCF10A) and transformed (MCF7, MDA-MB-231) breast cells using ChIP-Seq technology. This study examines the dynamic distribution of H3K4me3, associated with active chromatin, and H3K27me3, associated with repressed chromatin, histone modifications to provide an understanding of the changes in epigenetic regulation associated with the unique breast cancer subtypes. histone H3K4me3 and H3K27me3 ChIP-seq normal (MCF10A) and transformed (MCF7, MDA-MB-231) breast cells Please note that the 'H3K4me3' and 'input' data are duplicated records of the samples represented in GSE69377 for the convenient retrieval of the complete raw data from SRA.

2016-03-24 | E-GEOD-77772 | 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