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

HitKeeper, a generic software package for hit list management.

Jörg Hau1, Michael Muller, Marco Pagni

  • 1Swiss Institute of Bioinformatics, Vital-IT group, CH-1015 Lausanne, Switzerland. joerg.hau@rdls.nestle.com

Source Code for Biology and Medicine
|March 30, 2007
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

An innovative approach for anti-respiratory syncytial virus compound discovery from plant extracts, combining high-throughput screening and metabolomics.

Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie·2026
Same author

MetaNetX: a bridge between metabolic resources for enhanced curation and multi-omics data harmonization.

Nucleic acids research·2025
Same author

Prevalence of oxalotrophy in the human microbiome.

BMC genomics·2025
Same author

A large collection of bioinformatics question-query pairs over federated knowledge graphs: methodology and applications.

GigaScience·2025
Same author

Prioritization of novel anti-infective stilbene derivatives by combining metabolomic data organization and a stringent 3R-infection model in a knowledge graph.

RSC advances·2025
Same author

Selective expression of <i>Pneumocystis</i> antigens in different patients during a suspected outbreak of <i>Pneumocystis</i> pneumonia.

mBio·2025
Same journal

2DKD: a toolkit for content-based local image search.

Source code for biology and medicine·2020
Same journal

Computing and graphing probability values of pearson distributions: a SAS/IML macro.

Source code for biology and medicine·2020
Same journal

iPBAvizu: a PyMOL plugin for an efficient 3D protein structure superimposition approach.

Source code for biology and medicine·2019
Same journal

Social support for collaboration and group awareness in life science research teams.

Source code for biology and medicine·2019
Same journal

MZPAQ: a FASTQ data compression tool.

Source code for biology and medicine·2019
Same journal

IPCAPS: an R package for iterative pruning to capture population structure.

Source code for biology and medicine·2019
See all related articles

HitKeeper is a new software package for automatic biological sequence annotation. It efficiently manages large-scale database updates and hit calculations, enabling advanced sequence searching.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Automated annotation of biological sequences (protein, DNA) relies on algorithms to compute hits.
  • Biological databases contain valuable annotations, but require specialized tools for mining due to data heterogeneity and frequent updates.

Purpose of the Study:

  • To present HitKeeper, a software package for automated handling of biological databases and large-scale hit list calculations.
  • To provide a framework for managing redundant and incrementally updated biological data.

Main Methods:

  • HitKeeper implements an asynchronous update system for immediate data integration and hit computation.
  • Features a query interface for searching sequences based on motifs, metamotifs, and taxonomic classification.

Related Experiment Videos

Main Results:

  • The software enables fully automatic handling of multiple biological databases.
  • Facilitates large-scale hit list calculations with an asynchronous update system.
  • Offers advanced querying capabilities including motif and taxonomic filtering.

Conclusions:

  • HitKeeper provides a generic, modular framework for managing biological database updates and redundancy.
  • Includes an original query language for flexible sequence searching.
  • Published under GNU GPL v2 and available at http://hitkeeper.sourceforge.net.