Transcriptomic and epigenetic analysis of breast cancer stem cells

Epigenomics
Guochao LiYingli Sun

Abstract

Cancer stem cells (CSCs) drive triple-negative breast cancer recurrence via their properties of self-renewal, invasiveness and radio/chemotherapy resistance. This study examined how CSCs might sustain these properties. Transcriptomes, DNA methylomes and histone modifications were compared between CSCs and non CSCs. Transcriptome analysis revealed several pathways that were activated in CSCs, whereas cell cycle regulation pathways were inhibited. Cell development and signaling genes were differentially methylated, with histone methylation analysis suggesting distinct H3K4me2 and H3K27me3 enrichment profiles. An integrated analysis revealed several tumor suppressor genes downregulated in CSCs. Differential activation of various signaling pathways and genes contributes to the tumor-promoting properties of CSCs. Therapeutic targets identified in the analysis may contribute to improving treatment options for patients.

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Citations

Dec 17, 2019·Antioxidants & Redox Signaling·Jia Yu LeungReshma Taneja
Mar 7, 2019·Frontiers in Pharmacology·Emma CazalyJing Tang
Mar 1, 2020·Molecular Biology Reports·Hasan Onur Caglar, Cigir Biray Avci
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Apr 8, 2020·Seminars in Cancer Biology·Michela BiancolellaGiuseppe Novelli
Aug 17, 2021·Frontiers in Cell and Developmental Biology·Magdalena RichterTomasz Trzeciak

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Datasets Mentioned

BETA
CRA000465

Methods Mentioned

BETA
immunoprecipitation
flow cytometry
electrophoresis
PCR
WGBS
RNA-seq
ChIP-seq
xenograft

Software Mentioned

R
GREAT
TopHat2
trim
UpSetR package R
seqMINER
galore
samtools
DiffBind
Bismark

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