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Created on: 09-Sep-2012   Last updated on: 09-Sep-2012  |  How to cite this?
Total resources - 36
A list of resources for orthologs
Sravanthi Davuluri and Akhilesh Bajpai (Correspondence: Acharya KK, kshitish@ibab.ac.in)

Resources
Short description*Rank by usage frequency Click to Edit / Add comments
GOOD - Gene-Oriented Ortholog Database
http://goods.ibms.sinica.edu.tw/goods
For comparing paired orthologous genomic loci in the transcriptional and functional aspects
1
PANTHER - Protein ANalysis THrough Evolutionary Relationships
http://www.pantherdb.org
Classifies genes by their functions, using published scientific experimental evidence and evolutionary relationships
50
COGs - Clusters of Orthologous Groups of proteins
http://www.ncbi.nlm.nih.gov/COG
Phylogenetic classification of proteins encoded in complete genomes
74
HomoloGene
http://www.ncbi.nlm.nih.gov/homologene
Automated detection of homologs among the annotated genes
76
Plaza
http://bioinformatics.psb.ugent.be/plaza
Evolutionary analyses and data mining within the green plant lineage
89
InParanoid - Eukaryotic Ortholog Groups
http://inparanoid.sbc.su.se
94
POGs - Putative Orthologous Groups
http://cas-pogs.uoregon.edu/#/
97
eggNOG - evolutionary genealogy of genes: Non-supervised Orthologous Groups
http://eggnog.embl.de
Orthologous groups of genes
98
KEGG ORTHOLOGY (KO) Database
http://www.genome.jp/kegg/ko.html
Linking genomes to pathways by ortholog annotation
98
PhylomeDB
http://phylomedb.org
Complete collections of gene phylogenies
98
OrthoDB - The Hierarchical Catalog of Eukaryotic Orthologs
http://cegg.unige.ch/orthodb5
Catalog of eukaryotic orthologous protein-coding genes
99
ATGCs - Alignable Tight Genomic Clusters
http://atgc.lbl.gov/atgc
Closely Related Prokaryotic Genomes
100
BLASTO - BLAST on Orthologous groups
http://oxytricha.princeton.edu/BlastO
100
DOOP - Database of Orthologous Promoters
http://doop.abc.hu
Eukaryotic promoter sequences that facilitates the recognition of regulatory sites conserved between species
100
EGO - Eukaryotic Gene Orthologues
http://compbio.dfci.harvard.edu/tgi/ego
100
Ensembl Compara
http://www.ensembl.org/info/docs/compara
100
Evola
http://www.h-invitational.jp/evola/search.html
Ortholog information between human and fourteen vertebrates
100
GreenPhyl
http://www.greenphyl.org/cgi-bin/index.cgi
A catalog of gene families and comparative and functional genomics in plants
100
HCOP - HGNC Comparison of Orthology Predictions
http://www.genenames.org/cgi-bin/hcop.pl
100
HOBACGEN - Homologous Bacterial Genes Database
http://pbil.univ-lyon1.fr/databases/hobacgen.html
100
HOGENOM - Database of Complete Genome Homologous Genes Families
http://pbil.univ-lyon1.fr/databases/hogenom
100
Isobase - IsoRank PPI Network Alignment Based Ortholog Database
http://groups.csail.mit.edu/cb/mna/isobase
Functionally related orthologs
100
KEGG SSDB Database
http://www.kegg.jp/kegg/ssdb
Orthologs/paralogs, conserved gene clusters, and sequence motifs
100
MetaPhOrs
http://orthology.phylomedb.org
Rpository of phylogeny-based orthology and paralogy predictions
100
OrthoDisease - A Database of Human Disease Orthologs
http://orthodisease.sbc.su.se
100
OrthoInspector
http://lbgi.igbmc.fr/orthoinspector
Orthology/paralogy analysis
100
OrthologID
http://nypg.bio.nyu.edu/orthologid
Automates gene orthology determination within a character-based phylogenetic framework
100
OrthoMaM - Orthologous Mammalian Markers
http://www.orthomam.univ-montp2.fr
A database of orthologous genomic markers for placental mammal phylogenetics
100
OrthoMCL DB
http://www.orthomcl.org/cgi-bin/OrthoMclWeb.cgi
Ortholog Groups of Protein Sequences from Multiple Genomes
100
P-POD - Princeton Protein Orthology Database
http://ppod.princeton.edu
100
Primate Orthologous Exon Database
http://giladlab.uchicago.edu/orthoExon
A catalog of unique, non-overlapping, orthologous exon regions in the genomes of human, chimpanzee, and rhesus macaque
100
ProGmap
http://www.bioinformatics.nl/progmap
100
Proteinortho - Orthology detection tool
http://www.bioinf.uni-leipzig.de/Software/proteinortho
100
Roundup
http://roundup.hms.harvard.edu
Orthologs and their evolutionary distances
100
TreeFam - Tree families database
http://www.treefam.org
Curated resource that gives reliable information about ortholog and paralog assignments
100
YOGY
http://www.bahlerlab.info/YOGY
Orthologous proteins
100
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