innatedb

is a Data Source.

InnateDB is a publicly available database of genes, proteins, experimentally-verified interactions and signaling pathways involved in the innate immune response of humans, mice and bovines to microbial infection, with over 18,780 manually curated interactions and integrated bioinformatics and visualization tools for systems-level analysis.

Compare
Domains

immunology, biological systems, systems biology

License

Varies

Homepage

innatedb

Repository

Unknown

Infores ID

infores:innatedb

FAIRsharing ID

Unknown

Product Summary

Products

From this Resource
ID Name URL Category Format Description
innatedb.portal InnateDB Web Portal www.innatedb.com GraphicalInterface http Web interface for searching and analy...
innatedb.downloads InnateDB Data Downloads www.innatedb.com Product ❔ Downloadable data files for interacti...
From other Resources
ID Name URL Category Format Relation Description
pathwaycommons.biopax Integrated BioPAX Model pc-biopax.owl.gz (1.6 GB) Product biopax was derived from PC v14 integrated BioPAX Level 3 unif...
pathwaycommons.downloads Pathway Commons Data Downloads v14 Product mixed was derived from Download directory for Pathway Common...
pathwaycommons.sif SIF Network Format pc-hgnc.sif.gz (9.4 MB) Product sif was derived from PC v14 Simple Interaction Format netw...
pathwaycommons.gmt GMT Gene Set Format pc-hgnc.gmt.gz (256.4 KB) Product ❔ was derived from PC v14 Gene Matrix Transposed gene se...
pathwaycommons.txt Extended SIF TXT Format pc-hgnc.txt.gz (110.3 MB) Product txt was derived from PC v14 tab-delimited extended SIF nod...

Details

InnateDB

Overview

InnateDB is a publicly available knowledge resource dedicated to the innate immune response. It provides comprehensive information about genes, proteins, experimentally-verified molecular interactions, and signaling pathways involved in innate immunity across humans, mice, and bovines. The database integrates data from major public databases with extensive manually-curated content to create a centralized resource for innate immunity research.

Key Features

  • Extensive Manual Curation: Over 18,780 interactions manually curated by the InnateDB team
  • Multi-Species Coverage: Data for humans, mice, and bovines
  • Integrated Data: Combines known interactions and pathways from major public databases
  • Systems Biology Tools: Integrated bioinformatics and visualization tools for systems-level analysis
  • Comprehensive Content: Genes, proteins, protein-protein interactions, and signaling pathways

Content Coverage

Molecular Entities

  • Innate immunity-related genes
  • Protein annotations
  • Experimentally-verified protein-protein interactions
  • Signaling pathways

Analysis Capabilities

  • Gene Ontology analysis
  • Pathway analysis
  • Network analysis
  • Protein-protein interaction networks
  • Integration with visualization tools

Applications

  • Immunology Research: Understanding innate immune responses to infection
  • Systems Biology: Systems-level analysis of immune signaling networks
  • Drug Discovery: Identifying potential therapeutic targets in innate immunity
  • Comparative Immunology: Cross-species analysis of immune responses
  • Pathway Analysis: Studying signaling cascades in immune responses
  • Network Biology: Analyzing interaction networks in immunity

Development Team

InnateDB is developed jointly by:

  • Brinkman Laboratory - Simon Fraser University, British Columbia, Canada
  • Hancock Laboratory - University of British Columbia, Vancouver, British Columbia
  • Lynn EMBL Australia Group - South Australian Health & Medical Research Institute and Flinders University, Adelaide, Australia

Funding

Supported by:

  • Allergen NCE
  • EMBL Australia
  • Previously: Genome Canada, Genome BC, Foundation for NIH (Grand Challenges in Global Health), Teagasc

Data Licensing

  • InnateDB curated interactions: Design Science License
  • Other data: Licensed under terms of originating databases

Citation

Breuer et al., InnateDB: systems biology of innate immunity and beyond - recent updates and continuing curation. Nucleic Acids Research (2013) 41 (D1): D1228-D1233.

Information Resource ID

This resource has the Information Resource identifier: infores:innatedb

Is this information incorrect or incomplete? Request an update.

Created: October 30, 2025 | Last modified: April 16, 2026