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

Advanced query mechanisms for biological databases

I M Chen1, A S Kosky, V M Markowitz

  • 1Bioinformatics Systems Division, Gene Logic Inc., Berkeley, CA 94704, USA.

Proceedings. International Conference on Intelligent Systems for Molecular Biology
|October 23, 1998
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

Elevated levels of cleaved soluble forms of urokinase-type plasminogen activator receptor are associated with poor survival in advanced pancreatic cancer.

European journal of cancer (Oxford, England : 1990)·2025
Same author

Circulating immune-related proteins associated with immune checkpoint inhibitor efficacy in patients with pancreatic ductal adenocarcinoma.

ESMO open·2024
Same author

Enhanced Risk Stratification for Children and Young Adults with B-Cell Acute Lymphoblastic Leukemia: A Children's Oncology Group Report.

Leukemia·2024
Same author

Genomic landscape of treatment refractory metastatic colorectal cancer.

Acta oncologica (Stockholm, Sweden)·2021
Same author

Postoperative and long-term survival in relation to life-expectancy after pancreatic surgery in elderly patients (cohort study).

Annals of medicine and surgery (2012)·2021
Same author

Thrombotic Ringed Polytetrafluoroethylene Graft With Infection After Living-Donor Liver Transplantation.

Transplantation proceedings·2018
Same journal

Analysis of gene expression data with pathway scores.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Towards a complete map of the protein space based on a unified sequence and structure analysis of all known proteins.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Mining for putative regulatory elements in the yeast genome using gene expression data.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

A multiple alignment algorithm for metabolic pathway analysis using enzyme hierarchy.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Sequence database search using jumping alignments.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Linear modeling of genetic networks from experimental data.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
See all related articles

This study introduces new tools for biological database exploration, enabling intuitive ad-hoc querying across diverse data sources without needing complex query language knowledge. These tools simplify access to biological data, enhancing research accessibility.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Database Management

Background:

  • Current biological database interfaces are restrictive, using fixed forms or complex query languages.
  • These systems lack integration for application-specific complex biological data (e.g., DNA, proteins).
  • Users face challenges in querying heterogeneous data without deep technical knowledge.

Purpose of the Study:

  • To develop generic tools for flexible and uniform exploration of biological databases.
  • To provide intuitive interfaces for ad-hoc querying across heterogeneous data.
  • To integrate operations on complex biological data within query interfaces.

Main Methods:

  • Utilized the Object-Protocol Model (OPM) framework.
  • Developed a Java graphical query construction tool with automatic Web form generation.

Related Experiment Videos

  • Implemented query processors for complex objects and heterogeneous databases.
  • Created utilities for automatic HTML result page generation.

    • Main Results:

    • Introduced tools supporting interactive exploration of biological databases.
    • Enabled uniform querying via common data models, formats, and notations.
    • Facilitated ad-hoc queries across multiple heterogeneous databases and file systems.
    • Generated browsable HTML query results.

    Conclusions:

    • The developed tools overcome limitations of traditional interfaces.
    • Users can formulate complex queries intuitively without understanding underlying data models or languages.
    • Enhanced accessibility and flexibility for biological data exploration and research.