HOMECAT: Consensus homologs mapping for interspecific knowledge transfer and functional genomic data integration

Bioinformatics

Volumn 29, Issue 12, 2013, Pages 1574-1576

  Zorzan, Simone ^a   Lorenzetto, Erika ^a   Ettorre, Michele ^a   Pontelli, Valeria ^a   Laudanna, Carlo ^a   Buffelli, Mario ^a,b  

^a UNIVERSITY OF VERONA   (Italy)

^b National Institute of Neuroscience   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; ARTICLE; COMPUTER PROGRAM; DNA MICROARRAY; GENOMICS; METHODOLOGY; MOUSE; RAT; SYSTEM ANALYSIS;

ANIMALS; GENOMICS; MICE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; RATS; SOFTWARE; SYSTEMS INTEGRATION;

EID: 84878819024     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btt189     Document Type: Article

References (14)

1. Aitman, T.J. et al. (2011) The future of model organisms in human disease research. Nat. Rev. Genet., 12, 575-582.
2. Altenhoff, A.M. and Dessimoz, C. (2009) Phylogenetic and functional assessment of orthologs inference projects and methods. PLoS Comput. Biol., 5, e1000262.
3. Chen, F. et al. (2007) Assessing performance of orthology detection strategies applied to eukaryotic genomes. PLoS One, 2, e383.
4. Hulsen, T. et al. (2006) Benchmarking ortholog identification methods using functional genomics data. Genome Biol., 7, R31.
5. Kapushesky, et al.(2012) Gene Expression Atlas update-a value-added database of microarray and sequencing-based functional genomics experiments. Nucleic Acids Res.,40, D1077-D1081.
6. Li, L. et al. (2003) OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res., 13, 2178-2189.
7. Loman, N.J. et al. (2012) High-throughput bacterial genome sequencing: an embarrassment of choice, a world of opportunity. Nat. Rev. Microbiol., 10, 599-606.
8. Romero, I.G. et al. (2012) Comparative studies of gene expression and the evolution of gene regulation. Nat. Rev. Genet., 13, 505-516.
9. Roth, A.C.J. et al. (2008) Algorithm of OMA for large-scale orthology inference. BMC Bioinformatics, 9, 518.
10. Schuster, S.C. (2008) Next-generation sequencing transforms today's biology. Nat. Methods, 5, 16-18.
11. Shannon, P. et al. (2003) Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res., 13, 2498-2504.
12. Van Iersel, M.P. et al. (2010) The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. BMC Bioinformatics, 11, 5.
13. Vilella, A.J. et al. (2009) EnsemblCompara GeneTrees: complete, duplication-aware phylogenetic trees in vertebrates. Genome Res., 19, 327-335.
14. Wheeler, D.L. et al. (2007) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 35, D5-D12.