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

DNA Microarrays

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

You might also read

Related Articles

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

Sort by

Same author

Ensartinib in Resected <i>ALK</i>-Positive Non-Small-Cell Lung Cancer.

The New England journal of medicine·2026

Same author

Prognostic impact of epidermal growth factor receptor mutation in grade 3 stage IA lung adenocarcinomas.

World journal of surgical oncology·2026

Same author

Targeting IRF1-TRIM21 axis enhances anti-tumor immunity by promoting ubiquitin-mediated degradation of FGL1 in non-small cell lung cancer.

Communications biology·2026

Same author

Genome-Wide InDel Marker Development and Genetic Diversity Analysis of 52 Tomato Germplasm Accessions.

Plants (Basel, Switzerland)·2026

Same author

Exploration of multi-omics liquid biopsy approaches for multi-cancer early detection: The PROMISE study.

Innovation (Cambridge (Mass.))·2026

Same author

A New N2 Descriptor for Resectable Non-Small Cell Lung Cancer: The Classification Based on Skip Metastasis and the Number of N2 Station Involvement.

World journal of surgery·2026

Search research articles

Related Experiment Video

Updated: Jan 2, 2026

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Published on: May 6, 2022

The SMART App: an interactive web application for comprehensive DNA methylation analysis and visualization.

Yin Li¹, Di Ge¹, Chunlai Lu²

¹Department of Thoracic Surgery, Zhongshan Hospital, Fudan University, 180 Fenglin Road, Shanghai, 200032, People's Republic of China.

Epigenetics & Chromatin

|December 7, 2019

Summary

This summary is machine-generated.

The SMART App simplifies DNA methylation analysis for The Cancer Genome Atlas (TCGA) data, offering biologists an accessible tool for cancer research. This web application enables multi-dimensional analysis of methylation patterns across various cancer types.

Keywords:

DNA methylation Gene expression TCGA Web application

More Related Videos

Enhanced Reduced Representation Bisulfite Sequencing for Assessment of DNA Methylation at Base Pair Resolution

Enhanced Reduced Representation Bisulfite Sequencing for Assessment of DNA Methylation at Base Pair Resolution

Published on: February 24, 2015

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer

Published on: September 18, 2020

Related Experiment Videos

Last Updated: Jan 2, 2026

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Published on: May 6, 2022

Enhanced Reduced Representation Bisulfite Sequencing for Assessment of DNA Methylation at Base Pair Resolution

Enhanced Reduced Representation Bisulfite Sequencing for Assessment of DNA Methylation at Base Pair Resolution

Published on: February 24, 2015

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer

Genome-Wide Analysis of DNA Methylation in Gastrointestinal Cancer

Published on: September 18, 2020

Area of Science:

Genomics
Bioinformatics
Cancer Research

Background:

The Cancer Genome Atlas (TCGA) data mining has advanced cancer genome research.
Existing DNA methylation analysis tools lack comprehensive functions for experimental biologists.

Purpose of the Study:

To develop a user-friendly web application for comprehensive DNA methylation analysis of TCGA data.
To provide experimental biologists with enhanced data mining capabilities.

Main Methods:

Developed the Shiny Methylation Analysis Resource Tool (SMART) App.
Integrated multi-omics and clinical data with DNA methylation data.
Implemented functions for CpG visualization, pan-cancer profiles, differential methylation, correlation, and survival analysis.

Main Results:

The SMART App offers a user-friendly interface for analyzing TCGA DNA methylation data.
The tool supports multi-dimensional analysis across diverse cancer types.
Key interactive functions include visualization, differential analysis, and survival analysis.

Conclusions:

The SMART App provides a novel approach for analyzing large-scale cancer genomic data.
It empowers wet-bench scientists without programming backgrounds to perform complex data mining.
The SMART App is accessible at http://www.bioinfo-zs.com/smartapp.