Alliance of Genome Resources

Name

Alliance of Genome Resources

Legal name

Alliance of Genome Resources

Website

https://www.alliancegenome.org

Company type

Private

Operating status

Operating

Headcount range

101–250 employees

Short description

Nonprofit research consortium providing a unified web portal integrating curated comparative genomics data from seven Model Organism Databases and the Gene Ontology Consortium for the global life sciences research community.

Ownership category

akta.pro rank

Product category

Bioinformatics / Comparative Genomics Database Platform

NAICS

Computer Systems Design and Related Services (54151), Web Search Portals, Libraries, Archives, and Other Information Services (519)

SIC

Services-Commercial Physical & Biological Research (8731), Services-Computer Programming, Data Processing, Etc. (7370)

akta.pro primary industry

Bioinformatics & Multi-omics Analysis Software (HLAGAJAD)

akta.pro secondary industries

Genomics & Next-Generation Sequencing (NGS) Services (HLAGANAA), Molecular & Genetic Testing (PCR/NGS/qPCR) (HLAGADAF)

Keywords

• Comparative genomics
• Model organism databases
• Bioinformatics knowledgebase
• Genomic data platform
• Gene ontology resources

Headquarters

HQ city

Pasadena

HQ country

United States

HQ region

North America

Offices1 record

Markets served

GTM type

B2B

Offering type

Software

Cost components

Personnel, Technology or R&D, Infrastructure, Operations, Others

Revenue model

1. NIH Funding: The Alliance is a non-profit research consortium funded primarily by NIH NHGRI and NHLBI grants. Primary funding is through U24HG010859, with additional support from specific grants to member organizations (FlyBase, MGD, RGD, SGD, WormBase, Xenbase, ZFIN, and GOC). No commercial revenue is generated.

Go-to-market motion3 records

Distribution channels5 records

Marketing channels10 records

Core offering

The Alliance of Genome Resources operates a unified web-based portal (alliancegenome.org) that integrates genetic and genomic data from seven Model Organism Databases (FlyBase, MGD, RGD, SGD, WormBase, Xenbase, ZFIN) and the Gene Ontology Consortium. It provides free public access to standardized cross-species orthology, disease associations, gene descriptions, expression annotations, variants, and molecular/genetic interactions through downloadable datasets, REST APIs, and interactive tools such as BLAST, JBrowse 2, AllianceMine, SimpleMine, Textpresso, and the Disease Portal.

Product overview

The Alliance of Genome Resources is a knowledgebase consortium providing a unified portal for comparative genomics, integrating data from seven Model Organism Databases (FlyBase, MGD, RGD, SGD, WormBase, Xenbase, ZFIN) and the Gene Ontology Consortium. The core offering is the Alliance Portal (alliancegenome.org), which provides unified search, gene pages, disease pages, and cross-species data visualization. The product suite is organized as a platform-plus-modules architecture: the Portal serves as the central interface, supported by data access tools (Downloads, API), specialized browsers (JBrowse 2), batch query tools (SimpleMine, AllianceMine), literature mining (Textpresso), sequence search (BLAST Service), exploratory disease portals (Disease Portal), and supplementary research tools (Tools and Prototypes). Community features include a User Community Forum, Event Calendar with recorded webinars, and member-specific data pages.

Differentiator

Problem solved

Functional benefit

Products and services

• Alliance of Genome Resources Portal Unified web portal providing integrated search, gene pages, disease pages, and cross-species data visualization across 9 species (human, mouse, rat, zebrafish, Drosophila, C. elegans, yeast, X. laevis, X. tropicalis). Used by researchers conducting comparative genomics studies.
• Alliance Downloads Bulk downloadable data files in JSON, TSV, and VCF formats covering disease associations, expression annotations, gene descriptions, molecular and genetic interactions, orthology, and variants for computational biologists and bioinformaticians.
• Alliance REST API Public REST API accessible via Swagger/OpenAPI UI providing programmatic access to Alliance gene, allele, disease, phenotype, and download data. Built on Quarkus 3.13.3 with LinkML-compliant JSON responses. For developers and computational researchers.
• Disease Portal Exploratory disease-focused portal providing hierarchical view of disease coverage at the Alliance, including specialized portals for Diabetes Mellitus and Alzheimer's Disease. Covers 28,540 models, 356,181 genes, and 13,035 alleles.
• BLAST Service Basic Local Alignment Search Tool (BLAST) service enabling sequence similarity searches against Alliance genomes. Supports separate environments for Fly, Worm, Yeast, Rat, and a unified Alliance environment.
• AllianceMine InterMine-based data mining platform (BlueGenes 2.0) allowing researchers to query Alliance data including genes, genome coordinates, Gene Ontology, Disease data, orthologs, and alleles/variants via pre-made template queries.
• SimpleMine Batch download tool that retrieves essential gene information (identifiers, descriptions, disease associations, expression, variants, interactions, orthologs) for lists of genes across multiple species, output in HTML or tab-delimited format.
• JBrowse 2 Genome Browser Genome browser for visualizing and exploring genomic sequence data across Alliance species, supporting variant display and integration with gene and allele detail pages.
• Textpresso Literature Mining Text mining tool for searching published scientific literature using keywords combined with ontology categories, returning results in the context of full-text publications. Hosted instances for FlyBase, MGI, SGD, WormBase, and ZFIN.

Quantifiable outcome

• 28,540 disease models and 356,181 genes cross-referenced in Disease Portal
• +1 more outcomes

Segments4 records

Ideal customer profiles4 records

Technology focussed Yes

API detail

Has API

Yes

API docs

API detail

Core technology

AI maturity

App detail

AI capability3 records

Feature8 records

Partnerships

Eight partnerships are on record, tiered core.

• XenbasecoreStrategic or Co-development Partner · 1 January 2022Xenbase provides comprehensive, integrated genomic, expression, and functional data for Xenopus research (African clawed frog X. laevis and Western clawed frog X. tropicalis). Also serves as a critical data sharing infrastructure for NIH-funded projects. Joined the Alliance in 2022 as its seventh member.
• FlyBasecoreStrategic or Co-development Partner · 1 January 2016FlyBase is the Model Organism Database for Drosophila melanogaster and a founding member of the Alliance of Genome Resources. It provides essential online database resources for researchers using fruit flies as a model organism, including genetic, molecular, genomic, and reagent data. Located at Indiana University and Harvard University.
• Mouse Genome Database (MGD)coreStrategic or Co-development Partner · 1 January 2016MGD is the database resource for the laboratory mouse at The Jackson Laboratory, providing integrated biological data to facilitate the study of human health and disease. A founding member and core database in the Mouse Genome Informatics (MGI) consortium.
• Rat Genome Database (RGD)coreStrategic or Co-development Partner · 1 January 2016RGD is the primary site for genetic, genomic, phenotype, and disease-related data from rat research at Medical College of Wisconsin. It has expanded to include additional species including human, mouse, chinchilla, bonobo, and others. A founding member of the Alliance.
• Saccharomyces Genome Database (SGD)coreStrategic or Co-development Partner · 1 January 2016SGD provides comprehensive integrated biological information for Saccharomyces cerevisiae (budding yeast) at Stanford University. Enables discovery of functional relationships between sequence and gene products in fungi and higher organisms. A founding member of the Alliance.
• WormBasecoreStrategic or Co-development Partner · 1 January 2016WormBase provides accurate, current, accessible information concerning the genetics, genomics, and biology of C. elegans and related nematodes. Led by Paul Sternberg (Caltech), Matt Berriman (University of Glasgow), Sarah Dyer (EMBL-EBI), and Lincoln Stein (Ontario Institute for Cancer Research). A founding member.
• Zebrafish Information Network (ZFIN)coreStrategic or Co-development Partner · 1 January 2016ZFIN is the database of genetic and genomic data for zebrafish (Danio rerio) at University of Oregon. Provides expertly curated, organized, and cross-referenced zebrafish research data. Led by Monte Westerfield. A founding member of the Alliance.
• Gene Ontology Consortium (GOC)coreStrategic or Co-development Partner · 1 January 2016GOC develops the Gene Ontology knowledgebase, the world's largest source of information on gene functions. Led by Chris Mungall (Lawrence Berkeley National Laboratory) and J. Michael Cherry (Stanford University). The GO knowledgebase provides both human-readable and machine-readable functional annotations. A founding member.

Scale indicators4 records

Recent moves8 records

Expansion highlights5 records

Broad incumbents

• NCBI (National Center for Biotechnology Information): NCBI hosts Entrez, GenBank, dbSNP, ClinVar, and numerous cross-species genomic resources that overlap directly with Alliance gene, variant, and disease content. Comparable as a foundational NIH-funded bioinformatics platform serving the same research community.

Direct peers

• Ensembl (EMBL-EBI): Ensembl provides genome browsers, gene annotation, and variant data across vertebrate species; Alliance imports Ensembl human high-throughput variants. Both are primary sources for annotated comparative genomics data consumed by the same research audience.
• UCSC Genome Browser: UCSC Genome Browser offers genome visualization, gene tracks, and cross-species genomic data. Directly comparable visualization layer for the same researcher base, although Alliance pairs JBrowse 2 with integrated MOD data.
• UniProt: UniProt is the leading protein sequence and functional information resource. Both Alliance and UniProt provide standardized functional annotations (gene/protein-centric) to the same life sciences community and increasingly cross-link.
• WormBase: WormBase is both a member MOD and a standalone database for C. elegans. It is directly comparable as a model organism knowledgebase that overlaps with Alliance gene, allele, and disease content for nematode research.
• FlyBase: FlyBase is the primary Drosophila knowledgebase and a founding Alliance member. Directly comparable in scope (genetic, genomic, reagent data for a single model organism) and integrates into the Alliance's gene and disease pages.
• BioGRID: BioGRID curates protein and genetic interactions across species and contributes SARS-CoV-2 PPI data to Alliance gene pages. Comparable as a curated interaction knowledgebase for the same research community.

Others

• Gene Ontology Consortium: GO Consortium is itself a founding member of the Alliance, providing the functional annotation backbone used across gene pages. Highly integrated, technically adjacent, and partially overlapping governance.
• Reactome: Reactome provides pathway models that the Alliance directly imports and displays on gene pages. Closely integrated enabling data source rather than direct competitor; comparable in mission of standardized biological knowledge.
• ClinVar: ClinVar is the primary public repository of clinical variant significance; Alliance imports ~2.5M ClinVar variants. Upstream data provider for Alliance human variant collections, serving overlapping translational research users.

Market position

Strengths5 records

Weaknesses5 records

Competitive moat5 records

Key risks5 records

Key highlights7 records

Customer concentration

• Xx.com/alliancegenome
• GitHubgithub.com/alliance-genome
• YouTubeyoutube.com/@AllianceOfGenomeResources/videos
• Facebookfacebook.com/alliancegenome

Revenue estimate

Valuation estimate

Number of profiles

Profiles13 records

Funding overview

Funding rounds

Investors

Funding detail is available on the Subscription and Enterprise plan.Contact sales →

M&A

Investments

M&A and investment is available on the Subscription and Enterprise plan.Contact sales →

Frequently asked questions about Alliance of Genome Resources