Automatic clustering of orthologs and in-paralogs from pairwise species comparisons

Journal of Molecular Biology

Volumn 314, Issue 5, 2001, Pages 1041-1052

  Remm, Maido ^a,b   Storm, Christian E V ^a   Sonnhammer, Erik L L ^a  

^a KAROLINSKA INSTITUTE   (Sweden)

^b UNIVERSITY OF TARTU   (Estonia)

Author keywords

Automatic clustering; Genome comparison; Orthologs; Paralogs

Indexed keywords

MEMBRANE PROTEIN;

ALGORITHM; ANALYTIC METHOD; ARTICLE; AUTOMATION; CLUSTER ANALYSIS; CONTROLLED STUDY; GENETIC ANALYSIS; HUMAN; INTERNET; MAMMAL; METHODOLOGY; NONHUMAN; ORTHOLOGY; PARALOGY; PHYLOGENY; PRIORITY JOURNAL; WORM;

EUKARYOTA; INVERTEBRATA; MAMMALIA;

EID: 0035861990     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2000.5197     Document Type: Article

References (13)

1. Distinguishing homologous from analogous proteins
2. Towards detection of orthologues in sequence databases
3. Comparison of the complete protein sets of worm and yeast: Orthology and divergence
4. Comparative genomics of the eukaryotes
5. Human and nematode orthologs - Lessons from the analysis of 1800 human genes and the proteome of Caenorhabditis elegans
6. Large-scale taxonomic profiling of eukaryotic model organisms: A comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes
7. Metabolism and evolution of Haemophilus influenzae deduced from a whole-genome comparison with Escherichia coli
8. A genomic perspective on protein families
9. The COG database: New developments in phylogenetic classification of proteins from complete genomes
10. The COG database: A tool for genome-scale analysis of protein functions and evolution
11. Evolutionary parameters of the transcribed mammalian genome: An analysis of 2820 orthologous rodent and human sequences
12. Classification of transmembrane protein families in the Caenorhabditis elegans genome and identification of human orthologs
13. Estimation of confidence in phylogeny: The complete-and-partial bootstrap techniques