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

Mining functional information associated with expression arrays.

C Blaschke1, J C Oliveros, A Valencia

  • 1Protein Design Group, National Center for Biotechnology, CNB-CSIC, Cantoblanco, Madrid 28049, Spain.

Functional & Integrative Genomics
|January 17, 2002
PubMed
Summary

GEISHA analyzes gene expression data by mining Medline abstracts to identify significant biological terms. This computational system aids researchers in interpreting complex gene expression patterns and network interactions.

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

Selective Pressure by Rifampicin Modulates Mutation Rates and Evolutionary Trajectories of Mycobacterial Genomes.

Microbiology spectrum·2023
Same author

Chromatin network markers of leukemia.

Bioinformatics (Oxford, England)·2020
Same author

Neoantigen prediction and computational perspectives towards clinical benefit: recommendations from the ESMO Precision Medicine Working Group.

Annals of oncology : official journal of the European Society for Medical Oncology·2020
Same author

A systematic review and trial sequential analysis of intravenous vs. oral peri-operative paracetamol.

Anaesthesia·2020
Same author

Development of pipette tip-based poly(methacrylic acid-co-ethylene glycol dimethacrylate) monolith for the extraction of drugs of abuse from oral fluid samples.

Talanta·2019
Same author

Women's interest in a personal breast cancer risk assessment and lifestyle advice at NHS mammography screening.

Journal of public health (Oxford, England)·2016

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Systems Biology

Background:

  • Genomic-scale gene expression monitoring is crucial for understanding molecular interaction networks.
  • Expression array experiments generate large datasets requiring advanced computational analysis.
  • Extracting meaningful biological information from gene expression data is a key challenge for researchers.

Purpose of the Study:

  • To develop a computational strategy for detecting biological terms associated with gene expression clusters.
  • To introduce GEISHA (gene expression information system for human analysis) for mining Medline abstracts.

Main Methods:

  • GEISHA compares the frequency of terms within Medline abstracts linked to specific gene expression clusters.
  • The system identifies statistically significant biological terms related to gene expression patterns.

Related Experiment Videos

  • It facilitates user interpretation by providing context through significant sentences and related terms.

    • Main Results:

    • GEISHA successfully detects biological terms significantly associated with gene expression clusters.
    • The system's output for yeast expression data shows favorable comparison with expert annotations.
    • This demonstrates GEISHA's potential as an analytical assistant for expression array experiments.

    Conclusions:

    • GEISHA offers a valuable computational approach for analyzing gene expression data.
    • The system aids in deciphering molecular interaction networks by identifying key biological terms.
    • GEISHA enhances the interpretation of expression array experiments, supporting biological discovery.