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

Application of parameter optimization to molecular comparison problems.

C Lemmen1, A Zien, R Zimmer

  • 1GMD-German National Research Center for Information Technology, Institute for Algorithms and Scientific Computing (SCAI), Sankt Augustin, Germany. Christian.Lemmen,Alexander.Zien,Ralf.Zimmer,Thomas.Lengauer@gmd.de

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|June 25, 1999
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

Assessing the implementation of a comprehensive quality management system for cross-sectoral psycho-oncology in Germany.

Journal of healthcare quality research·2023
Same author

Framing future trajectories of human activities in the German North Sea to inform cumulative effects assessments and marine spatial planning.

Journal of environmental management·2023
Same author

Effect of a Toothpaste for Sensitive Teeth on the Sensitivity and Effectiveness of In-office Dental Bleaching: A Randomized Clinical Trial.

Operative dentistry·2023
Same author

Effect of Time and Temperature of Air Jet on the Mechanical and Biological Behavior of a Universal Adhesive System.

Operative dentistry·2021
Same author

Feasibility and safety profile of posterior retroperitoneoscopic adrenalectomy in high-risk patients - A retrospective analysis.

International journal of surgery (London, England)·2020
Same author

Long-term outcomes of orthotopic heart transplantation for hypertrophic cardiomyopathy.

Transplantation proceedings·2014
Same journal

Trust, Reproducibility, and Progress: The Roles of Independent Blind Prediction and Assessment and Benchmarking in Computational Biology.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

The Evolving Cyberinfrastructure at the National Institutes of Health to Support Data and AI in Biomedical Research.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

Applications of AI & ML in Biomanufacturing of Cell and Gene Therapies.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

AI for Health: Leveraging Artificial Intelligence to Revolutionize Healthcare.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

Workshop Introduction: Advances of AI Methods in Single Cell Spatial Omics.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

DRIVE-KG: Enhancing variant-phenotype association discovery in understudied complex diseases using heterogeneous knowledge graphs.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
See all related articles

Optimizing scoring functions in bioinformatics, like protein threading and small molecule superposition, significantly improves results. This study shows that adjusting weights based on known preferences enhances multivariate optimization for these complex comparison problems.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Biochemistry

Background:

  • Multivariate optimization in bioinformatics often uses linear objective functions to score solution candidates.
  • Determining optimal weights for different properties in these scoring functions is a significant challenge.
  • Existing methods often lack clear models for score parameterization.

Purpose of the Study:

  • To optimize parameterization of empirical scoring functions for molecular comparison problems.
  • To investigate strategies for adjusting weights using preference data from training sets.
  • To improve the accuracy of protein threading and small molecule superposition methods.

Main Methods:

  • Applied various strategies to optimize scoring function parameterization.

Related Experiment Videos

  • Utilized preference data (partial ordering) from training sets to adjust weights.
  • Evaluated performance using established methods for protein threading and small molecule superposition.

    • Main Results:

    • Systematically determined optimal weights for scoring function contributions.
    • Demonstrated significant improvements in both protein threading and small molecule superposition.
    • Showcased the effectiveness of using preference data for weight optimization.

    Conclusions:

    • Optimized scoring function weights lead to substantial performance gains in molecular comparison.
    • Preference-based weight adjustment is a viable and effective strategy in bioinformatics.
    • This approach enhances the reliability and accuracy of computational biology tools.