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 Experiment Videos

GeneMANIA: a real-time multiple association network integration algorithm for predicting gene function.

Sara Mostafavi1, Debajyoti Ray, David Warde-Farley

  • 1Department of Computer Science, University of Toronto, King's College Road, Toronto, ON, M5S 3G4, Canada.

Genome Biology
|July 22, 2008
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Long QT Syndrome Type 5 With Coexisting KCNE1 and RYR2 Variants: A Diagnostic Ambiguity.

Clinical case reports·2026
Same author

A scalable approach to investigating sequence-to-function predictions from personal genomes.

Nature methods·2026
Same author

Generalist large language models complement tailor-made predictors for tumor genomics interpretation.

bioRxiv : the preprint server for biology·2026
Same author

Effect of Online Mindfulness-Based Stress Reduction on Psychological Distress and Pregnancy Rate in Infertile Women Undergoing In Vitro Fertilization.

Obstetrics and gynecology international·2026
Same author

Orthrus: toward evolutionary and functional RNA foundation models.

Nature methods·2026
Same author

Intimate Partner Violence (IPV) against women during a public health crisis: Latent class analysis (LCA) of a population-based data.

International journal for equity in health·2026
Same journal

Integrated lipidomic and transcriptomic profiling of the host response in human malaria.

Genome biology·2026
Same journal

Centromeric satellite expansion drives genome evolution in the snowy owl.

Genome biology·2026
Same journal

Mapping the landscape of allele-specific expression in porcine genomes.

Genome biology·2026
Same journal

Genomic sequence evolution underlying human neocortical interareal diversification.

Genome biology·2026
Same journal

Regulatory mechanisms driven by functional 3'-UTR variants in alcohol use disorder and related traits.

Genome biology·2026
Same journal

A longitudinal single-nucleus transcriptomic atlas of bovine placentation reveals dynamic cellular hierarchies and regulatory programs.

Genome biology·2026
See all related articles

GeneMANIA offers accurate, real-time protein function prediction by integrating functional association networks. This fast algorithm is suitable for large genomes, overcoming limitations of existing methods.

Area of Science:

  • Computational biology
  • Genomics
  • Proteomics

Background:

  • Accurate protein function prediction is crucial for understanding biological systems.
  • Existing computational methods integrate multiple data sources but are too slow for real-time analysis.
  • Static databases of predictions can become outdated, limiting their utility.

Purpose of the Study:

  • To develop a novel algorithm, GeneMANIA, for real-time protein function prediction.
  • To achieve accuracy comparable to leading methods while significantly reducing computation time.
  • To enable on-the-fly predictions for large-scale genomic and proteomic datasets.

Main Methods:

  • Developed a fast heuristic algorithm based on ridge regression.
  • Integrated multiple functional association networks.

Related Experiment Videos

  • Employed label propagation on process-specific networks for gene function prediction.

    • Main Results:

    • GeneMANIA demonstrates accuracy on par with or exceeding state-of-the-art methods on benchmark datasets.
    • The algorithm is robust to redundant and irrelevant data.
    • Average computation time is under ten seconds, enabling real-time deployment.

    Conclusions:

    • GeneMANIA provides a fast and accurate solution for on-the-fly gene function prediction.
    • The algorithm's efficiency makes it suitable for real-time applications in large genomes.
    • A prototype webserver is available for public use.