Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Genomics

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Tumor Microenvironment Hijacks and Accelerates a Physiological Myeloid Senescence Signature Associated with Pan-Cancer Immunosuppression and Prognostic Stratification.

International journal of molecular sciences·2026

Same author

Dynamic single-cell transcriptomic analysis of peripheral blood mononuclear cells identifies novel biomarkers for autoimmune encephalitis.

Molecular psychiatry·2026

Same author

Phytochemistry, pharmacology, toxicology, and applications of the genus Dendrobium: An updated review from bioactive constituents and mechanisms to translational perspectives.

Phytomedicine : international journal of phytotherapy and phytopharmacology·2026

Same author

Cardiovascular Health Change Patterns After Multifaceted Antihypertensive Intervention and Cardiovascular Outcomes: A Post Hoc Analysis of CRHCP Trial.

Journal of the American College of Cardiology·2026

Same author

Population Demographic History of Taihangshan Macaques (Macaca mulatta tcheliensis) in the Wulongkou Area, Jiyuan, China.

American journal of primatology·2026

Same author

Unravelling the key factors governing O<sub>2</sub> evolution upon charging a reversible LiOH-based nonaqueous Li | |O<sub>2</sub> battery.

Nature communications·2026

Search research articles

Related Experiment Video

Updated: Aug 23, 2025

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Published on: May 17, 2019

Identifying enhancer-driven subtype-specific prognostic markers in breast cancer based on multi-omics data.

Hongying Zhao¹, Siwen Zhang¹, Xiangzhe Yin¹

¹College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China.

Frontiers in Immunology

|October 28, 2022

Summary

This study reveals copy number variations (CNVs) in breast cancer enhancers significantly impact gene expression and patient prognosis across subtypes. Identifying specific enhancer-gene and enhancer-lncRNA pairs offers new prognostic biomarkers and therapeutic targets for breast cancer.

Keywords:

breast cancer subtype copy number variation enhancer lncRNA prognostic marker

More Related Videos

Optimization of a Multiplex RNA-based Expression Assay Using Breast Cancer Archival Material

Optimization of a Multiplex RNA-based Expression Assay Using Breast Cancer Archival Material

Published on: August 1, 2018

Author Spotlight: Unveiling Transmembrane Protein Family-Related Markers in Gastric Cancer and Implications for Targeted Therapies

Author Spotlight: Unveiling Transmembrane Protein Family-Related Markers in Gastric Cancer and Implications for Targeted Therapies

Published on: September 15, 2023

Related Experiment Videos

Last Updated: Aug 23, 2025

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases

Published on: May 17, 2019

Optimization of a Multiplex RNA-based Expression Assay Using Breast Cancer Archival Material

Optimization of a Multiplex RNA-based Expression Assay Using Breast Cancer Archival Material

Published on: August 1, 2018

Author Spotlight: Unveiling Transmembrane Protein Family-Related Markers in Gastric Cancer and Implications for Targeted Therapies

Author Spotlight: Unveiling Transmembrane Protein Family-Related Markers in Gastric Cancer and Implications for Targeted Therapies

Published on: September 15, 2023

Area of Science:

Genomics
Cancer Biology
Molecular Oncology

Background:

Breast cancer is a complex disease with heterogeneous subtypes, impacting patient prognosis and survival.
Copy number variations (CNVs) in enhancer regions are key drivers of tumorigenesis by altering target gene expression.

Purpose of the Study:

To identify copy number alteration (CNA)-driven enhancers and their target genes in four breast cancer subtypes.
To reconstruct subtype-specific regulatory networks involving CNV-driven enhancers, long non-coding RNAs (lncRNAs), and messenger RNAs (mRNAs).
To evaluate the prognostic value of identified enhancer-gene and enhancer-lncRNA-mRNA pairs as biomarkers.

Main Methods:

Integrated analysis of gene expression, copy number, and H3K27ac ChIP-seq data across breast cancer subtypes.
Identification of CNA-driven enhancer-gene and enhancer-lncRNA pairs.
Reconstruction of regulatory networks and functional enrichment analysis.
Prognostic value assessment of identified biomarkers using patient survival data.

Main Results:

Identified numerous CNA-driven enhancer-gene and enhancer-lncRNA pairs specific to Basal-like, Her2, LumA, and LumB breast cancer subtypes.
Functional analysis revealed CNA-driven enhancers influence key signaling pathways (e.g., P53, MAPK) crucial for subtype progression.
Discovered prognostic biomarkers, including MUM1 and AC016876.1, and enhancer-related lncRNA-mRNA pairs, correlating with patient survival outcomes.

Conclusions:

CNAs within enhancers significantly contribute to breast cancer heterogeneity and progression.
Subtype-specific regulatory networks highlight the role of CNA-driven enhancers and lncRNA-mRNA interactions.
Identified enhancer-related genes and lncRNA-mRNA pairs serve as potential prognostic markers and therapeutic targets for breast cancer subtypes.