Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Epigenetic Regulation01:37

Epigenetic Regulation

Epigenetic changes alter the physical structure of the DNA without changing the genetic sequence and often regulate whether genes are turned on or off. This regulation ensures that each cell produces only proteins necessary for its function. For example, proteins that promote bone growth are not produced in muscle cells. Epigenetic mechanisms play an essential role in healthy development. Conversely, precisely regulated epigenetic mechanisms are disrupted in diseases like cancer.
X-chromosome...

You might also read

Related Articles

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

Sort by
Same author

Biophysical Constraints Dictate the Stability of Social Traits in <i>Pseudomonas aeruginosa</i> Aggregates.

bioRxiv : the preprint server for biology·2026
Same author

Association of SULT2A1 Locus With Abiraterone Clearance in the Alliance A031201: Randomized Phase III Study of Enzalutamide Compared With Enzalutamide Plus Abiraterone for Metastatic Castration-Resistant Prostate Cancer.

Clinical and translational science·2025
Same author

Exome Sequencing Enhances Screening for Familial Hypercholesterolemia Within a Multi-Site Healthcare System.

Circulation. Genomic and precision medicine·2025
Same author

Spatial Mass Spectrometry-Based Proteomic Analysis of Normal-Appearing Glomeruli from Young and Old Adults.

Kidney360·2025
Same author

Molecular Breast Imaging and Digital Breast Tomosynthesis for Dense Breast Screening: The Density MATTERS Trial.

Radiology·2025
Same author

A Multiomics Study of Circulating Proteins and Kidney Stone Risk.

Journal of the American Society of Nephrology : JASN·2025
Same journal

Whole-Embryo 3D Quantification Reveals Conserved Topological Design and Scaling of Germ Layers in Xenopus.

bioRxiv : the preprint server for biology·2026
Same journal

scRNA-seq and genomics analyses reveal key mechanisms of inverted papilloma-associated sinonasal squamous cell carcinoma malignant transformation.

bioRxiv : the preprint server for biology·2026
Same journal

M1C IS NECESSARY FOR DARAXONRASIB RESISTANCE OF NSCLC KRAS(G12C) MUTANT CELLS.

bioRxiv : the preprint server for biology·2026
Same journal

A human-specific genetic modifier reconfigures large-scale cortical network dynamics underlying behavioral performance.

bioRxiv : the preprint server for biology·2026
Same journal

<i>Staphylococcus aureus</i> uses a eukaryotic-like uridyltransferase to make UDP-GlcNAc for cell wall synthesis.

bioRxiv : the preprint server for biology·2026
Same journal

Dynamic redistribution of eIF4F controls cap-dependent translation initiation.

bioRxiv : the preprint server for biology·2026
See all related articles

Related Experiment Video

Updated: Jul 4, 2026

Methyl-binding DNA capture Sequencing for Patient Tissues
08:40

Methyl-binding DNA capture Sequencing for Patient Tissues

Published on: October 31, 2016

nanoASM: Long-Read Allele-Specific DNA Methylation Profiling Enables Functional Annotation of Regulatory Noncoding

Yijun Tian, Jodie Wong, Shannon K McDonnell

    Biorxiv : the Preprint Server for Biology
    |July 3, 2026
    PubMed
    Summary
    This summary is machine-generated.

    Long-read nanopore sequencing reveals allele-specific methylation patterns in prostate cancer. This method, nanoASM, identifies functional noncoding variants and their regulatory roles in cancer progression.

    More Related Videos

    Targeted DNA Methylation Analysis by Next-generation Sequencing
    08:38

    Targeted DNA Methylation Analysis by Next-generation Sequencing

    Published on: February 24, 2015

    Laser-capture Microdissection of Human Prostatic Epithelium for RNA Analysis
    07:42

    Laser-capture Microdissection of Human Prostatic Epithelium for RNA Analysis

    Published on: November 26, 2015

    Related Experiment Videos

    Last Updated: Jul 4, 2026

    Methyl-binding DNA capture Sequencing for Patient Tissues
    08:40

    Methyl-binding DNA capture Sequencing for Patient Tissues

    Published on: October 31, 2016

    Targeted DNA Methylation Analysis by Next-generation Sequencing
    08:38

    Targeted DNA Methylation Analysis by Next-generation Sequencing

    Published on: February 24, 2015

    Laser-capture Microdissection of Human Prostatic Epithelium for RNA Analysis
    07:42

    Laser-capture Microdissection of Human Prostatic Epithelium for RNA Analysis

    Published on: November 26, 2015

    Area of Science:

    • Genomics
    • Epigenetics
    • Cancer Biology

    Background:

    • Long-read nanopore sequencing allows simultaneous detection of genetic variations and DNA base modifications.
    • Allele-specific epigenetic regulation plays a crucial role in various biological processes, including cancer.

    Purpose of the Study:

    • To characterize differential methylation, methylation entropy, and allele-specific methylation (ASM) in prostate cancer using whole-genome nanopore sequencing.
    • To develop and validate a novel framework (nanoASM) for identifying ASM from long-read data.
    • To investigate the functional impact of noncoding variants on gene regulation in prostate cancer.

    Main Methods:

    • Whole-genome nanopore sequencing of normal and tumor prostate tissues.
    • Analysis of differential methylation, methylation entropy (5mCG and 5hmCG), and ASM.
    • Development of the nanoASM framework for allele-specific methylation analysis.
    • Integration with transcriptomic and publicly available datasets (TCGA, GTEx).

    Main Results:

    • Identified extensive cancer-associated differentially methylated regions (DMRs), enriched near transcription start sites.
    • Demonstrated inverse correlation between promoter methylation and gene expression, and positive correlation of 5hmC with gene body activity.
    • Cancer-hypermethylated DMRs showed reduced methylation entropy, indicating clonal fixation.
    • The nanoASM framework improved statistical efficiency for ASM detection compared to population-level mQTL analysis.
    • Identified allele-specific methylation patterns at prostate cancer risk loci (IRX4, PSCA) linked to regulatory elements and gene expression.

    Conclusions:

    • Nanopore-based ASM analysis is a powerful approach for resolving functional noncoding variants in prostate cancer.
    • ASM analysis provides insights into allele-specific epigenetic regulation and its role in tumor progression.
    • The nanoASM framework facilitates the identification of regulatory elements controlled by noncoding variants.