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

GIS Software, Hardware, and Sources of GIS Data01:23

GIS Software, Hardware, and Sources of GIS Data

777
A Geographic Information System (GIS) combines specialized software and hardware to effectively manage, analyze, and present spatial and related data. GIS software includes critical functionalities such as a user interface for easy navigation, database management tools for handling spatial and attribute data, and data retrieval features for efficient access. Analytical tools transform raw data into insights, while display functions produce maps and reports in various formats for effective...
777
Protein-protein Interfaces02:04

Protein-protein Interfaces

14.6K
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
14.6K
Protein-Protein Interfaces02:04

Protein-Protein Interfaces

4.4K
No description available
4.4K
Statistical Software for Data Analysis and Clinical Trials01:12

Statistical Software for Data Analysis and Clinical Trials

1.4K
Statistical software is pivotal in data analysis and clinical trials by providing tools to analyze data, draw conclusions, and make predictions. These software packages range from simple data management applications to complex analytical platforms, supporting various statistical tests, models, and simulation techniques. Their significance lies in their ability to handle vast amounts of data with precision and efficiency, enabling researchers to validate hypotheses, identify trends, and make...
1.4K
Genomics02:02

Genomics

39.9K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
39.9K
Protein Networks02:26

Protein Networks

4.5K
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
4.5K

You might also read

Related Articles

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

Sort by
Same author

Distinct fibroblast and perivascular senotypes define spatial niches that regulate fibrosis.

bioRxiv : the preprint server for biology·2026
Same author

Prospective longitudinal observational study at an academic medical centre of lifestyle and cognition in older adults with a cochlear implant or hearing aid: study protocol.

BMJ open·2026
Same author

A layered standards framework for integrating single-cell and spatial omics data into brain cell atlases.

bioRxiv : the preprint server for biology·2026
Same author

A Community Standard Multispecies Cell Atlas of the Basal Ganglia.

bioRxiv : the preprint server for biology·2026
Same author

NeMO Analytics: a compendium of transcriptomic data for the exploration of neocortical development.

Nature neuroscience·2026
Same author

Pilot randomised controlled trial of a novel form of exercise on parkinsonism symptoms.

BMJ neurology open·2026
Same journal

3DICE: Interpretable 3D Cross-Modal Learning for Drug-Target Interaction Prediction and Large-Scale Drug Discovery.

Bioinformatics (Oxford, England)·2026
Same journal

KASSPer: Kinase Active Site Structure Prediction using Protein and Ligand Language Models and Its Application to Virtual Screening.

Bioinformatics (Oxford, England)·2026
Same journal

IDR searcher: a search engine solution for public image resources.

Bioinformatics (Oxford, England)·2026
Same journal

KCFtools: Rapid alignment-free method for introgression screening and GWAS using k-mer profiles.

Bioinformatics (Oxford, England)·2026
Same journal

Meta2DB: Curated shotgun metagenomic feature sets and metadata for health state prediction.

Bioinformatics (Oxford, England)·2026
Same journal

conMItion: an R package adjusting confounding factors for associations in multi-omics.

Bioinformatics (Oxford, England)·2026
See all related articles

Related Experiment Video

Updated: Jan 26, 2026

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease
09:52

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

Published on: January 10, 2025

1.3K

Ergatis: a web interface and scalable software system for bioinformatics workflows.

Joshua Orvis1, Jonathan Crabtree, Kevin Galens

  • 1Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA. jorvis@users.sourceforge.net

Bioinformatics (Oxford, England)
|April 24, 2010
PubMed
Summary
This summary is machine-generated.

Ergatis is a new workflow management system designed for analyzing large genomics datasets on distributed computer clusters. It simplifies bioinformatics analysis, making it accessible and reproducible for researchers.

More Related Videos

Author Spotlight: IntelliSleepScorer — A High-Accuracy, Accessible GUI Software for Automated Sleep Stage Scoring in Mice and its Application in Psychiatric Research
04:54

Author Spotlight: IntelliSleepScorer — A High-Accuracy, Accessible GUI Software for Automated Sleep Stage Scoring in Mice and its Application in Psychiatric Research

Published on: November 8, 2024

994
Scalable Biomanufacturing Workflow to Produce and Isolate Natural Killer Cell-Derived Extracellular Vesicle-Based Cancer Biotherapeutics
08:50

Scalable Biomanufacturing Workflow to Produce and Isolate Natural Killer Cell-Derived Extracellular Vesicle-Based Cancer Biotherapeutics

Published on: August 16, 2024

1.3K

Related Experiment Videos

Last Updated: Jan 26, 2026

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease
09:52

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

Published on: January 10, 2025

1.3K
Author Spotlight: IntelliSleepScorer — A High-Accuracy, Accessible GUI Software for Automated Sleep Stage Scoring in Mice and its Application in Psychiatric Research
04:54

Author Spotlight: IntelliSleepScorer — A High-Accuracy, Accessible GUI Software for Automated Sleep Stage Scoring in Mice and its Application in Psychiatric Research

Published on: November 8, 2024

994
Scalable Biomanufacturing Workflow to Produce and Isolate Natural Killer Cell-Derived Extracellular Vesicle-Based Cancer Biotherapeutics
08:50

Scalable Biomanufacturing Workflow to Produce and Isolate Natural Killer Cell-Derived Extracellular Vesicle-Based Cancer Biotherapeutics

Published on: August 16, 2024

1.3K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Increasing volume of sequence data necessitates robust analysis on distributed systems.
  • Large-scale bioinformatics requires scalable and reproducible data management software.
  • User-friendly tools are needed to make complex analyses accessible.

Purpose of the Study:

  • To develop a workflow management system for computational genomics data analysis.
  • To provide scalable and robust software for managing large datasets on clusters.
  • To enhance accessibility and reproducibility of bioinformatics analyses.

Main Methods:

  • Developed Ergatis, a workflow management system.
  • Integrated preconfigured components and template pipelines for common bioinformatics tasks.
  • Designed a user-friendly, web-based interface for accessibility.

Main Results:

  • Ergatis enables building, executing, and monitoring genomics data analysis pipelines.
  • The system supports common tasks like prokaryotic genome annotation and comparisons.
  • Outputs are compatible with Chado relational databases.
  • Ergatis facilitates high-throughput batch processing on distributed compute clusters.

Conclusions:

  • Ergatis provides a scalable and accessible solution for large-scale genomics data analysis.
  • The system enhances reproducibility and simplifies complex bioinformatics workflows.
  • Ergatis is suitable for genome annotation and comparative genomics projects.