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

Overview of DNA Repair02:25

Overview of DNA Repair

In order to be passed through generations, genomic DNA must be undamaged and error-free. However, every day, DNA in a cell undergoes several thousand to a million damaging events by natural causes and external factors. Ionizing radiation such as UV rays, free radicals produced during cellular respiration, and hydrolytic damage from metabolic reactions can alter the structure of DNA. Damages caused include single-base alteration, base dimerization, chain breaks, and cross-linkage.
Chemically...
Overview of DNA Repair02:25

Overview of DNA Repair

In order to be passed through generations, genomic DNA must be undamaged and error-free. However, every day, DNA in a cell undergoes several thousand to a million damaging events by natural causes and external factors. Ionizing radiation such as UV rays, free radicals produced during cellular respiration, and hydrolytic damage from metabolic reactions can alter the structure of DNA. Damages caused include single-base alteration, base dimerization, chain breaks, and cross-linkage.
Chemically...
Base-pairing and DNA Repair02:27

Base-pairing and DNA Repair

Erwin Chargaff’s rules on DNA equivalence paved the way for the discovery of base pairing in DNA. Chargaff’s rules state that in a double-stranded DNA molecule,
Nucleotide Excision Repair01:08

Nucleotide Excision Repair

Overview
Nucleotide Excision Repair01:38

Nucleotide Excision Repair

DNA Distortion and Damage
Cells are regularly exposed to mutagens—factors in the environment that can damage DNA and generate mutations. UV radiation is one of the most common mutagens and is estimated to introduce a significant number of changes in DNA. These include bends or kinks in the structure, which can block DNA replication or transcription. If these errors are not fixed, the damage can cause mutations, which in turn can result in cancer or disease depending on which sequences are...
Nucleotide Excision Repair01:08

Nucleotide Excision Repair

Overview

You might also read

Related Articles

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

Sort by
Same author

In-Depth Proteomic Quantification of Cell Secretome in Serum-Containing Conditioned Medium.

Analytical chemistry·2016
Same author

Homoharringtonine, aclarubicin and cytarabine (HAA) regimen as the first course of induction therapy is highly effective for acute myeloid leukemia with t (8;21).

Leukemia research·2016
Same author

[Morphology and Spectral Properties Study of LaCeF3:Tb Microcrystalline].

Guang pu xue yu guang pu fen xi = Guang pu·2016
Same author

A highly selective fluorogenic probe for the detection and in vivo imaging of Cu/Zn superoxide dismutase.

Chemical communications (Cambridge, England)·2016
Same author

Development of a disaggregation-induced emission probe for the detection of RecA inteins from Mycobacterium tuberculosis.

Chemical communications (Cambridge, England)·2016
Same author

Bias-polarity-dependent resistance switching in W/SiO2/Pt and W/SiO2/Si/Pt structures.

Scientific reports·2016
Same journal

Assessment of lower incisor position and symphysis dimensions among different skeletal patterns in the Chhattisgarh population.

Bioinformation·2026
Same journal

Low T3 syndrome and short-term outcomes in patients with acute decompensated heart failure: A retrospective observational study.

Bioinformation·2026
Same journal

Cardiovascular risk prevention awareness and practices in type 2 diabetes: Linking HbA1c and lipid levels.

Bioinformation·2026
Same journal

Assessment of periodontal condition using basic periodontal examination scores: A retrospective clinical study.

Bioinformation·2026
Same journal

Comparative evaluation of osseointegration among different surface modification techniques in dental implants.

Bioinformation·2026
Same journal

Micro-osteoperforations' impact on orthodontic tooth movement rate: Split mouth research.

Bioinformation·2026
See all related articles

Related Experiment Video

Updated: May 27, 2026

Using Next Generation Sequencing to Identify Mutations Associated with Repair of a CAS9-induced Double Strand Break Near the CD4 Promoter
06:59

Using Next Generation Sequencing to Identify Mutations Associated with Repair of a CAS9-induced Double Strand Break Near the CD4 Promoter

Published on: March 31, 2022

Classifying DNA repair genes by kernel-based support vector machines.

Hao Jiang1, Wai-Ki Ching

  • 1Advanced Modeling and Applied Computing Laboratory, Department of Mathematics, University of Hong Kong, Pokfulam Road, Hong Kong.

Bioinformation
|November 30, 2011
PubMed
Summary
This summary is machine-generated.

This study enhances DNA repair gene analysis for human longevity research using Support Vector Machines (SVM). SVM with a combined kernel achieved higher accuracy, identifying key genes like PCNA and novel candidates PARP and MLH1 for ageing insights.

More Related Videos

Genetic Studies of Human DNA Repair Proteins Using Yeast as a Model System
14:09

Genetic Studies of Human DNA Repair Proteins Using Yeast as a Model System

Published on: March 18, 2010

Characterizing DNA Repair Processes at Transient and Long-lasting Double-strand DNA Breaks by Immunofluorescence Microscopy
08:31

Characterizing DNA Repair Processes at Transient and Long-lasting Double-strand DNA Breaks by Immunofluorescence Microscopy

Published on: June 8, 2018

Related Experiment Videos

Last Updated: May 27, 2026

Using Next Generation Sequencing to Identify Mutations Associated with Repair of a CAS9-induced Double Strand Break Near the CD4 Promoter
06:59

Using Next Generation Sequencing to Identify Mutations Associated with Repair of a CAS9-induced Double Strand Break Near the CD4 Promoter

Published on: March 31, 2022

Genetic Studies of Human DNA Repair Proteins Using Yeast as a Model System
14:09

Genetic Studies of Human DNA Repair Proteins Using Yeast as a Model System

Published on: March 18, 2010

Characterizing DNA Repair Processes at Transient and Long-lasting Double-strand DNA Breaks by Immunofluorescence Microscopy
08:31

Characterizing DNA Repair Processes at Transient and Long-lasting Double-strand DNA Breaks by Immunofluorescence Microscopy

Published on: June 8, 2018

Area of Science:

  • Genetics and Bioinformatics
  • Computational Biology
  • Gerontology

Background:

  • Human longevity is influenced by genetic factors, with ageing potentially linked to accumulated DNA damage.
  • Understanding DNA repair genes is crucial for ageing research.
  • Existing data-mining methods like Decision Trees and Naive Bayesian Algorithm have limitations in analyzing complex gene data.

Purpose of the Study:

  • To develop and evaluate a Support Vector Machine (SVM) model with a combined kernel for improved classification of ageing-related DNA repair genes.
  • To identify significant ageing-related genes with potential implications for longevity research.

Main Methods:

  • Utilized a Support Vector Machine (SVM) algorithm with a linearly combined kernel (linear and polynomial degree 3).
  • Applied the SVM model to a dataset of human DNA repair genes to discriminate between ageing-related and non-ageing-related genes.
  • Compared the performance of the SVM model against Decision Trees and Naive Bayesian Algorithm using Area Under the ROC Curve (AUC).

Main Results:

  • The SVM model with the proposed kernel achieved a 65% AUC, outperforming Decision Trees (51.1%) and Naive Bayesian Algorithm (52.1%).
  • Identified five significant ageing-related genes: PCNA, PARP, APEX1, MLH1, and XRCC6.
  • The SVM model successfully identified PCNA, a gene missed by other methods, and two novel ageing-related genes, PARP and MLH1.

Conclusions:

  • Support Vector Machine (SVM) with a carefully selected kernel offers superior accuracy for classifying ageing-related DNA repair genes.
  • The identified genes, particularly novel candidates PARP and MLH1, may offer new insights into the biological mechanisms of ageing.
  • This approach can aid in discovering potential biomarkers for ageing and longevity research.