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

QPath: a method for querying pathways in a protein-protein interaction network.

Tomer Shlomi1, Daniel Segal, Eytan Ruppin

  • 1School of Computer Science, Tel-Aviv University, Tel-Aviv 69978, Israel. shlomito@post.tau.ac.il

BMC Bioinformatics
|April 12, 2006
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

Histopathology-inferred spatial transcriptomics characterizes the tumor microenvironment in 1,500 head and neck tumors and predicts clinical outcomes.

bioRxiv : the preprint server for biology·2026
Same author

Trials for Rare Cancers Are More Successful than those for Common Cancers.

ESMO rare cancers·2026
Same author

Liquid surrogates of spatial tumor ecosystems.

Cell research·2026
Same author

Longitudinal validation of ENLIGHT, an AI predictor of immunotherapy response and resistance, in pan-cancer cohorts.

NPJ precision oncology·2026
Same author

Initial Experience with Sodium Acetate as a Renoprotective Agent During Robotic Partial Nephrectomy.

Journal of endourology·2026
Same author

Author Correction: The ubiquitin ligase RNF5 determines acute myeloid leukemia growth and susceptibility to histone deacetylase inhibitors.

Nature communications·2026

This study introduces QPath, a novel framework for searching protein networks. QPath efficiently identifies homologous pathways, enabling the mapping of conserved protein pathways in organisms like the fly.

Area of Science:

  • Bioinformatics
  • Systems Biology
  • Computational Biology

Background:

  • Sequence comparison is vital for understanding gene function and evolution.
  • High-throughput protein interaction data necessitates network-level analysis.

Purpose of the Study:

  • To develop a comprehensive framework for protein network searches using pathway queries.
  • To efficiently identify homologous pathways within biological networks, allowing for variations.

Main Methods:

  • The QPath algorithm searches protein networks for homologous pathways using linear query pathways.
  • It allows for insertions and deletions of proteins and scores matches based on variation, sequence similarity, and interaction reliability.
  • QPath was applied to yeast pathways to infer conserved pathways in fly.

Related Experiment Videos

Main Results:

  • QPath identified 69 conserved pathways in fly from 271 yeast pathways.
  • These conserved pathways exhibited functional enrichment and coherent expression.
  • The identified pathways largely preserved the function of the original yeast query pathways.

Conclusions:

  • Pathway homology searches with QPath are effective for identifying significant pathways and inferring function.
  • The QPath framework is crucial for analyzing the increasing volume of protein interaction data in public databases.