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 Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

5.8K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.8K
Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

836
Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
836
DNA Microarrays02:34

DNA Microarrays

16.8K
Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
16.8K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Developing a Supplementary Diagnostic Tool for Breast Cancer Risk Estimation Using Ensemble Transfer Learning.

Diagnostics (Basel, Switzerland)·2023
Same author

Enhanced Intrusion Detection with Data Stream Classification and Concept Drift Guided by the Incremental Learning Genetic Programming Combiner.

Sensors (Basel, Switzerland)·2023
Same author

Over-the-Counter Breast Cancer Classification Using Machine Learning and Patient Registration Records.

Diagnostics (Basel, Switzerland)·2022
Same author

Factors Influencing Mammographic Density in Asian Women: A Retrospective Cohort Study in the Northeast Region of Peninsular Malaysia.

Diagnostics (Basel, Switzerland)·2022
Same author

Evaluating the effects of electronic health records system adoption on the performance of Malaysian health care providers.

BMC medical informatics and decision making·2021
Same author

Predicting generalized anxiety disorder among women using Shapley value.

Journal of infection and public health·2020
Same journal

In silico analysis, annotation and characterisation of putative ESTs from Sorghum bicolor associated with heat stress.

International journal of bioinformatics research and applications·2015
Same journal

Docking analysis of gallic acid derivatives as HIV-1 protease inhibitors.

International journal of bioinformatics research and applications·2015
Same journal

Automatic segmentation of Potyviridae family polyproteins.

International journal of bioinformatics research and applications·2015
Same journal

Neural network and rough set hybrid scheme for prediction of missing associations.

International journal of bioinformatics research and applications·2015
Same journal

On the interconnection of stable protein complexes: inter-complex hubs and their conservation in Saccharomyces cerevisiae and Homo sapiens networks.

International journal of bioinformatics research and applications·2015
Same journal

Diversity and evolution of the envelope gene of dengue virus type 1 circulating in India in recent times.

International journal of bioinformatics research and applications·2015
See all related articles

Related Experiment Video

Updated: Apr 30, 2026

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
09:14

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Published on: June 28, 2018

6.7K

Fast decision tree-based method to index large DNA-protein sequence databases using hybrid distributed-shared memory

Khalid Mohammad Jaber1, Rosni Abdullah2, Nur'Aini Abdul Rashid2

  • 1Faculty of Science and Information Technology, Al-Zaytoonah University of Jordan, Amman, Jordan.

International Journal of Bioinformatics Research and Applications
|May 6, 2014
PubMed
Summary
This summary is machine-generated.

This study parallelized a decision tree indexing model (PDTIM) using hybrid memory and parallel programming techniques (MPI and PThread). The optimized PDTIM significantly accelerates index building time for large biological databases.

Keywords:
DNADNA–protein sequence databasesbioinformaticsdata miningdecision treedistributed memoryindex buildingindexing approacheslarge data setsproteinssearching algorithmssequencesshared memory programming

More Related Videos

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
05:08

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins

Published on: July 8, 2025

1.3K
DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling
08:04

DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling

Published on: October 8, 2019

8.0K

Related Experiment Videos

Last Updated: Apr 30, 2026

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
09:14

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Published on: June 28, 2018

6.7K
Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
05:08

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins

Published on: July 8, 2025

1.3K
DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling
08:04

DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling

Published on: October 8, 2019

8.0K

Area of Science:

  • Bioinformatics
  • Computer Science

Background:

  • Biological databases are rapidly growing in size, reaching terabytes.
  • Increased database size necessitates faster data access and query rates.

Purpose of the Study:

  • To accelerate the index building time for large biological databases.
  • To evaluate a parallelized decision tree indexing model (PDTIM).

Main Methods:

  • Parallelization of the PDTIM using a hybrid distributed and shared memory approach.
  • Implementation with Message Passing Interface (MPI) and POSIX Threads (PThread).
  • Testing on varying numbers of processors (1, 2, 4, 5) and threads (1, 2, 3, 4).

Main Results:

  • The hybrid parallelization technique demonstrated improved speedup compared to a sequential approach.
  • The parallelized PDTIM effectively reduced index building time.

Conclusions:

  • The proposed parallelized decision tree indexing model (PDTIM) is suitable for efficiently handling large datasets.
  • The hybrid approach enhances performance for biological database indexing.