Orthology, refining the concept of homology, is the cornerstone of evolutionary comparative studies. With the ever-increasing availability of genomic data, inference of orthology has become instrumental for generating hypotheses about gene functions crucial to many…
VOCS
Desktop

VOCS Viral Orthologous Clusters

Searches and extracts genome, gene and protein data from the Viral…

Searches and extracts genome, gene and protein data from the Viral Bioinformatics Resource Center (VBRC) database. VOCS includes Asfarviridae, Baculoviridae, Iridoviridae, and Poxviridae. It compares…

OrthoDisease
Data

OrthoDisease

Provides a database of human disease orthologs. OrthoDisease contains 2935…

Provides a database of human disease orthologs. OrthoDisease contains 2935 distinct human disease phenotypes from OMIM, mapped to 2313 out of 21 673 human genes and their orthologs in 99 other…

pVOGs
Data

pVOGs prokaryotic Virus Orthologous Groups

Represents a comprehensive set of orthologous gene families shared across…

Represents a comprehensive set of orthologous gene families shared across multiple complete genomes of viruses that infect bacterial or archaeal hosts. The uses of pVOGs include functional annotation…

HieranoiDB
Data

HieranoiDB

An online database for hierarchical groups of orthologs inferred by the…

An online database for hierarchical groups of orthologs inferred by the Hieranoid algorithm. HieranoiDB with a web interface makes it easy to search and visualize the output of Hieranoid, and to…

OrthoDB
Data

OrthoDB

Provides orthologs, genes inherited by extant species from a single gene in…

Provides orthologs, genes inherited by extant species from a single gene in their last common ancestor. OrthoDB includes a total of 5756 species, providing ortholog groups for the clades of: 3663…

FUNGIpath
Data

FUNGIpath

A tool built using a two-stage approach. Groups of orthologous proteins…

A tool built using a two-stage approach. Groups of orthologous proteins predicted using complementary methods of detection were collected in a relational database. Each group was further mapped on to…

MicrobesOnline
Data

MicrobesOnline

Includes over 1000 complete genomes of bacteria, archaea and fungi and…

Includes over 1000 complete genomes of bacteria, archaea and fungi and thousands of expression microarrays from diverse organisms. To assist in annotating genes and in reconstructing their…

PGDBj
Data

PGDBj Plant Genome DataBase Japan

Aims to integrate plant genome-related information from databases (DBs) and the…

Aims to integrate plant genome-related information from databases (DBs) and the literature. The PGDBj is comprised of three component DBs and a cross-search engine, which provides a seamless search…

EchinoDB
Data

EchinoDB

A repository of orthologous transcripts from echinoderms that is searchable via…

A repository of orthologous transcripts from echinoderms that is searchable via keywords and sequence similarity. From transcripts we identified 749,397 clusters of orthologous loci. We have…

Ensembl Compara
Data

Ensembl Compara

Provides cross-species resources and analyses, at both the sequence level and…

Provides cross-species resources and analyses, at both the sequence level and the gene level. Data can be accessed using the Compara Perl API, BioMart, or comparative genomics pages on the browser.…

HCOP
Data

HCOP HGNC Comparison of Orthology Predictions

Provides a useful method to integrate, compare and access a variety of…

Provides a useful method to integrate, compare and access a variety of disparate sources of human orthology data.

HOGENOM
Data

HOGENOM

A database of homologous genes from fully sequenced organisms (bacteria,…

A database of homologous genes from fully sequenced organisms (bacteria, archeaea and eukarya), structured under ACNUC sequence database management system.

KO
Data

KO KEGG Orthology

Consisting of manually defined ortholog groups (KO entries) for all proteins…

Consisting of manually defined ortholog groups (KO entries) for all proteins and functional RNAs that correspond to KEGG pathway nodes, BRITE hierarchy nodes, and KEGG module nodes.

PhyloFacts
Data

PhyloFacts

A structural phylogenomic encyclopedia containing almost 10,000…

A structural phylogenomic encyclopedia containing almost 10,000 'books' for protein families and domains, with pre-calculated structural, functional and evolutionary analyses. PhyloFacts…

P-POD
Data

P-POD Princeton Protein Orthology Database

Offers a simple way to visualize and analyze the relationships between…

Offers a simple way to visualize and analyze the relationships between homologous proteins in order to infer function.

HOMOLENS
Data

HOMOLENS

A database of homologous genes from Ensembl organisms and Ensembl families,…

A database of homologous genes from Ensembl organisms and Ensembl families, structured under ACNUC sequence database management system.

HOVERGEN
Data

HOVERGEN

A database of homologous vertebrate genes, structured under ACNUC sequence…

A database of homologous vertebrate genes, structured under ACNUC sequence database management system.

InParanoid
Data

InParanoid

Developed to address the need to identify orthologs. InParanoid uses the…

Developed to address the need to identify orthologs. InParanoid uses the pairwise similarity scores, calculated using NCBI-Blast, between two complete proteomes for constructing orthology groups. An…

MetaPhOrs
Data

MetaPhOrs

A public repository of phylogeny-based orthologs and paralogs that were…

A public repository of phylogeny-based orthologs and paralogs that were computed using phylogenetic trees available in twelve public repositories.

OGO
Data

OGO

Allows users to retrieve integrated results when querying orthology…

Allows users to retrieve integrated results when querying orthology information, providing a gene product-oriented output instead of a traditional information resource-oriented one.

OrtholugeDB
Data

OrtholugeDB

Contains Ortholuge-based orthology predictions for completely sequenced…

Contains Ortholuge-based orthology predictions for completely sequenced bacterial and archaeal genomes.

PhylomeDB
Data

PhylomeDB

A public database for complete catalogs of gene phylogenies (phylomes).

A public database for complete catalogs of gene phylogenies (phylomes).

PLAZA
Data

PLAZA

Makes comparative genomics data for plants available through a user-friendly…

Makes comparative genomics data for plants available through a user-friendly web interface. Structural and functional annotation, gene families, protein domains, phylogenetic trees and detailed…

TreeFam
Data

TreeFam

A database composed of phylogenetic trees inferred from animal genomes.

A database composed of phylogenetic trees inferred from animal genomes.

QuartetS-DB
Data

QuartetS-DB

Orthology predictions among 1621 complete genomes (1365 bacterial, 92 archaeal,…

Orthology predictions among 1621 complete genomes (1365 bacterial, 92 archaeal, and 164 eukaryotic), covering >7 million proteins and 4 million pairwise orthologs.

COGs
Data

COGs

Phylogenetic classification of proteins encoded in complete genomes.

Phylogenetic classification of proteins encoded in complete genomes.

eggNOG
Data

eggNOG evolutionary genealogy of genes: Non-supervised Orthologous Groups

Provides orthologous groups (OGs) of proteins at different taxonomic levels,…

Provides orthologous groups (OGs) of proteins at different taxonomic levels, each with integrated and summarized functional annotations. Developments since the latest public release include changes…

NCBI HomoloGene
Data

NCBI HomoloGene

An automated system for constucting putative homology groups from the complete…

An automated system for constucting putative homology groups from the complete genes sets of a wide range of eukaryotic species.

OrthoMCL-DB
Data

OrthoMCL-DB

Provides a centralized warehouse for orthology prediction among multiple…

Provides a centralized warehouse for orthology prediction among multiple species.

GOOD
Data

GOOD Gene-Oriented Ortholog Database

Employs genomic locations of transcripts to cluster alternative…

Employs genomic locations of transcripts to cluster alternative splicing-derived isoforms prior to ortholog delineation to eliminate the interference from AS.

ProGMap
Data

ProGMap Protein Group Mappings

A web-tool designed to help researchers and database annotators to assess the…

A web-tool designed to help researchers and database annotators to assess the coherence of protein groups defined in various databases and thereby facilitate the annotation of newly sequenced…

YOGY
Data

YOGY

A web-based resource for retrieving orthologous proteins from ten eukaryotic…

A web-based resource for retrieving orthologous proteins from ten eukaryotic organisms and one prokaryote.

MBGD
Data

MBGD Microbial genome database for comparative analysis

A comprehensive ortholog database for flexible comparative analysis of…

A comprehensive ortholog database for flexible comparative analysis of microbial genomes, where the users are allowed to create an ortholog table among any specified set of organisms. The MyMBGD…

Roundup
Data

Roundup

A database of orthologs and their evolutionary distances.

A database of orthologs and their evolutionary distances.

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