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

Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

16.7K
Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...
16.7K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

7.2K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
7.2K
Epistasis Analysis01:09

Epistasis Analysis

6.2K
Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
6.2K
Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

8.4K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
8.4K

You might also read

Related Articles

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

Sort by
Same author

MRI acute/sub-acute ischemic stroke segmentation with deep learning: A comprehensive review.

International review of cell and molecular biology·2026
Same author

A Review and Experimental Analysis of Supervised Learning Systems and Methods for Protein-Protein Interaction Detection.

International journal of molecular sciences·2026
Same author

Tree-based ensemble learning models for protein-protein interactions detection: a review and experimental evaluation.

BioData mining·2025
Same author

A multi-label visualisation approach for malware behaviour analysis.

Scientific reports·2025
Same author

Protein-protein interaction detection using deep learning: A survey, comparative analysis, and experimental evaluation.

Computers in biology and medicine·2024
Same author

Employing Machine Learning Techniques to Detect Protein Function: A Survey, Experimental, and Empirical Evaluations.

IEEE/ACM transactions on computational biology and bioinformatics·2024

Related Experiment Video

Updated: Apr 4, 2026

Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays
14:06

Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays

Published on: November 12, 2012

47.1K

Determining Semantically Related Significant Genes.

Kamal Taha

    IEEE/ACM Transactions on Computational Biology and Bioinformatics
    |September 11, 2015
    PubMed
    Summary

    This study introduces RSGSearch, a novel biological search engine. It leverages Gene Ontology (GO) existence dependency to improve gene set enrichment analysis by considering structural relationships.

    Area of Science:

    • Bioinformatics
    • Computational Biology
    • Genomics

    Background:

    • Gene Ontology (GO) relations include existence dependency, where GO term y presence implies GO term x presence.
    • Existing gene set enrichment analysis methods often ignore GO term structural dependencies and existence dependency.
    • GO term specificity influences existence dependency, with terms of equal specificity not being existence-dependent.

    Purpose of the Study:

    • To propose RSGSearch, a biological search engine for identifying enriched gene sets.
    • To incorporate the concept of GO term existence dependency into gene set enrichment analysis.
    • To improve the identification of functionally and semantically related genes.

    Main Methods:

    • Developed RSGSearch, a biological search engine utilizing GO existence dependency.

    More Related Videos

    Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization
    08:27

    Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization

    Published on: July 27, 2021

    5.0K
    Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay EMSA and DNA-affinity Precipitation Assay DAPA
    11:35

    Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay EMSA and DNA-affinity Precipitation Assay DAPA

    Published on: August 21, 2016

    13.7K

    Related Experiment Videos

    Last Updated: Apr 4, 2026

    Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays
    14:06

    Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays

    Published on: November 12, 2012

    47.1K
    Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization
    08:27

    Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization

    Published on: July 27, 2021

    5.0K
    Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay EMSA and DNA-affinity Precipitation Assay DAPA
    11:35

    Screening for Functional Non-coding Genetic Variants Using Electrophoretic Mobility Shift Assay EMSA and DNA-affinity Precipitation Assay DAPA

    Published on: August 21, 2016

    13.7K
  • Encoded GO term contributions to lowest common ancestors (LCAs) into a numeric format.
  • Employed microarray data to identify significant LCAs annotating gene sets.

    • Main Results:

    • RSGSearch effectively identifies enriched gene sets by considering existence dependency.
    • The method demonstrated marked improvement compared to five existing gene set enrichment systems.
    • RSGSearch successfully leverages structural dependencies within the GO graph.

    Conclusions:

    • RSGSearch offers a significant advancement in gene set enrichment analysis by incorporating existence dependency.
    • The engine provides a more accurate and sensitive approach to identifying functionally related genes.
    • Considering structural relationships in GO enhances the biological interpretation of gene sets.