Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA Sequencing of two Breast Cancer Cell Lines in Comparison to Healthy Epithelial Breast Cells

ABSTRACT: We studied genes, that are differentially expressed between malignant and normal breast tissue, to find weak spots for anti-cancer therapy development. RNA sequencing of three cell lines was performed: MCF-7 (epithelial breast cancer cell line), BCC (primary breast tumour cell line) and MCF-10A (epithelial breast cell line).

ORGANISM(S): Homo sapiens

PROVIDER: GSE223718 | GEO | 2023/01/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Cancer-Selective Mechanistic Targets of Diallyl Trisulfide (DATS) in Human Breast Cancer Cells Identified by RNA-seq Analysis

Project description:We report differentially expressed genes by DATS exposure in MCF-10A human epithelial cell line and SK-BR-3 human breast cancer cell line

2022-04-20 | GSE200872 | GEO

Small RNAs subcellular distribution in breast cancer and normal cell lines

Project description:We detect the small RNAs subcellular distribution in breast cancer cell lines MCF-7 and MDA-MB-231, and normal cell line MCF-10A.

2009-06-16 | GSE15937 | GEO

4D label-free quantitative lactylproteomics analysis of breast cancer cells.

Project description:4D label-free quantitative lactylproteomics analysis was performed to identify the differentially lactylated proteins between human normal mammary epithelial cell line (MCF 10A) and BC cells (MCF7, T-47D, and MDA-MB-468)

2025-01-24 | PXD060185 |

Chromatin interaction analysis reveals changes in small chromosome and telomere clustering between epithelial and breast cancer cells

Project description:Background: Higher-order chromatin structure is often perturbed in cancer and other pathological states. Although several genetic and epigenetic differences have been charted between normal and breast cancer tissues, changes in higher-order chromatin organization during tumorigenesis have not been fully explored. To probe the differences in higher-order chromatin structure between mammary epithelial and breast cancer cells, we performed Hi-C analysis on MCF-10A mammary epithelial and MCF-7 breast cancer cell lines. Results: Our studies reveal that the small, gene-rich chromosomes chr16 through chr22 in the MCF-7 breast cancer genome display decreased interaction frequency with each other compared to the inter-chromosomal interaction frequency in the MCF-10A epithelial cells. Interestingly, this finding is associated with a higher occurrence of open compartments on chr16-22 in MCF-7 cells. Pathway analysis of the MCF-7 up-regulated genes located in altered compartment regions on chr16-22 reveals pathways related to repression of WNT signalling. There are also differences in intra-chromosomal interactions between the cell lines; telomeric and sub-telomeric regions in the MCF-10A cells display more frequent interactions than are observed in the MCF-7 cells. Conclusions: We show evidence of an intricate relationship between chromosomal organization and gene expression between epithelial and breast cancer cells. Importantly, this work provides a genome-wide view of higher-order chromatin dynamics and a resource for studying higher-order chromatin interactions in two cell lines commonly used to study the progression of breast cancer. Hi-C experiments were conducted in MCF-7 and MCF-10A parental cells. The RNA-seq data associated with this study is deposited under the GEO accession number GSE71862.

2015-09-02 | E-GEOD-66733 | biostudies-arrayexpress

Chromatin interaction analysis reveals changes in small chromosome and telomere clustering between epithelial and breast cancer cells

2015-09-02 | GSE66733 | GEO

Small RNAs subcellular distribution in breast cancer and normal cell lines

Project description:We detect the small RNAs subcellular distribution in breast cancer cell lines MCF-7 and MDA-MB-231, and normal cell line MCF-10A. Each cell line, we detected the nuclear and cytoplasmic small RNAs expression intensity; and then we could get the nuclear-cytoplasmic-ratio.

2010-05-18 | E-GEOD-15937 | biostudies-arrayexpress

Lipid Metabolism (LiMe) genes and the genesis of estrogen receptor negative breast cancer [ATAC-seq]

Project description:MCF-10A breast epithelial cells were exposed to fatty acids to determine if lipids engender changes in gene expression associated with malignant transformation.

2021-12-12 | GSE190573 | GEO

One-pot comparative analysis and characterization of MCF-7 and MCF-10A cell lines

Project description:A comparison of different energetics based techniques for the characterization of two mammalian breast cell lines, MCF-7 a luminal A breast cancer cell line and MCF-10A a normal human breast cell line. The techniques of stability of proteins from rates of oxidation (SPROX), thermal proteome profiling (TPP), and conventional expression level analyses were compared and the relative advantages and disadvantages are discussed.

2023-02-22 | PXD036268 | Pride

DNA methylation epigenome analysis of non-transformed breast cells following lipid exposure.

Project description:The DNA methylation landscape of MCF-10A breast epithelial cells upon octanoic acid (OA) exposure, in the presence or absence of CBR5884, was analyzed using the Illumina Infinium HumanMethylationEPIC microarray.

2025-01-01 | GSE283780 | GEO

Fibroblasts transcriptome altered by breast cell lines

Project description:Interactions between epithelial cells and their associated stroma, mainly the fibroblasts therein have been implicated in breast malignancy. Our aim was to verify the effect of soluble factors resulting from the co-culture of normal (NAF) or associated breast cancer fibroblasts (CAF) with a normal (MCF-10A) or a metastatic (MDA-MB231) breast epithelial cell line on fibroblast gene expression profiles. Fibroblast primary cultures were established and co-culture of these cell types separated by inserts, which allow the passage of soluble factors, was performed. Total RNA was extracted, amplified and subjected to microarray gene expression profiling using microarrays in which 4,608 ORESTES (open reading frame expressed sequence tags) were spotted. Differentially expressed genes, at a False Discovery Ratio (FDR) less then 0.01 and fold variation greater than 2, were selected. CAF molecular signature was characterized by down regulation of 62% (29/47) of genes as compared to NAF, represented mainly by those related to vesicular transport, cytoskeleton plasticity and cell motility. CAF responded to co-culture with MCF-10A cells by up regulation of 63.5% (89/140) of genes, including those involved with cytoskeleton remodelling, lipid synthesis and members of the PI3K pathway. Contrarywise, MDA-MB231 cells affected the gene expression profile of CAF by down regulation of 65% (102/156) of genes, including those associated to tumor suppression and antiangiogenic potential. Up regulated genes, were mainly implicated with cell cycle progression and proliferation. NAF signature was altered by MDA-MB231 presence resulting in down regulation of suppressor genes, integrins and angiogenic factors, but it was modestly affected by MCF-10A. Keywords: Fibroblasts transcriptome altered by breast cell lines

2006-09-10 | GSE4708 | 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