Identifying parent-daughter relationships among duplicated genes

Pacific Symposium on Biocomputing 2009, PSB 2009

Volumn , Issue , 2009, Pages 114-125

  Han, Mira V ^a   Hahn, Matthew W ^a  

^a INDIANA UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DUPLICATED GENES; EXPECTATION MAXIMIZATION; HIDDEN VARIABLE; HUMAN GENOMES; ORTHOLOGS; PARALOGS; SYNTENY;

GENES;

ANIMAL; ARTICLE; BIOLOGICAL MODEL; BIOMETRY; CLUSTER ANALYSIS; EVOLUTION; FEMALE; GENE DUPLICATION; GENETICS; HUMAN; HUMAN GENOME; MACACA; MALE; MULTIGENE FAMILY; PARENT; PEDIGREE; STATISTICAL MODEL;

ANIMALS; BIOMETRY; CLUSTER ANALYSIS; EVOLUTION; FEMALE; GENE DUPLICATION; GENOME, HUMAN; HUMANS; MACACA; MALE; MODELS, GENETIC; MODELS, STATISTICAL; MULTIGENE FAMILY; PARENTS; PEDIGREE;

EID: 61949351485     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: None     Document Type: Conference Paper

References (16)

1. Fitch, W.M., Distinguishing homologous from analogous proteins. Systematic Zoology, 1970. 19(2): p. 99-113.
2. Sonnhammer, E.L.L. and E.V. Koonin, Orthology, paralogy and proposed classification for paralog subtypes. Trends in Genetics, 2002. 18(12): p. 619-620. (Pubitemid 35346684)
3. Hahn, M.W., J.P. Demuth, and S.-G. Han, Accelerated rate of gene gain and loss in primates. Genetics, 2007.177: p. 1941-1949. (Pubitemid 350277083)
4. Betran, E., K. Thornton, and M. Long, Retroposed New Genes Out of the X in Drosophila. Genome Res., 2002: p. 1854-1859.
5. Fu, Z., et al., MSOAR: A high-throughput ortholog assignment system based on genome rearrangement. Journal of Computational Biology, 2007. 14(9): p. 1160-1175. (Pubitemid 350100393)
6. Cannon, S. and N. Young, OrthoParaMap: Distinguishing orthologs from para logs by integrating comparative genome data and gene phylogenies. BMC Bioinformatics, 2003. 4(1): p. 35.
7. Jiang, Z., et al., Ancestral reconstruction of segmental duplications reveals punctuated cores of human genome evolution. Nat Genet, 2007. 39(11): p. 1361-1368. (Pubitemid 350035007)
8. Nadeau, J.H. and B.A. Taylor, Lengths of chromosomal segments conserved since divergence of man and mouse. Proceedings of the National Academy of Sciences of the United States of America, 1984. 81(3): p. 814-818. (Pubitemid 14199035)
9. Sankoff, D., V. Ferretti, and J.R. Nadeau, Conserved segment identification, in Proceedings of the first annual international conference on Computational molecular biology. 1997, ACM: Santa Fe, New Mexico, United States.
10. Pevzner, P. and G. Tesler, Genome Rearrangements in Mammalian Evolution: Lessons From Human and Mouse Genomes. Genome Res., 2003. 13(1): p. 37-45.
11. Kent, W.J., et al., Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes. Proceedings of the National Academy of Sciences of the United States of America, 2003. 100(20): p. 11484-11489. (Pubitemid 37205962)
12. Bailey, I. and E.E. Eichler, Primate segmental duplications: crucibles of evolution, diversity and disease, in Nat Rev Genet. 2006.
13. Rhesus Macaque Genome Sequencing and Analysis Consortium, Evolutionary and biomedical insights from the Rhesus Macaque genome. Science, 2007. 316(5822): p. 222-234.
14. Ohno, S., Evolution by gene duplication. 1970, Berlin: Springer-Verlag.
15. Zheng, D., Asymmetric histone modifications between the original and derived loci of human segmental duplications. Genome Biology, 2008. 9(7): p. R105.
16. Emerson, J.J., et al., Extensive gene traffic on the mammalian X chromosome. Science, 2004. 303(5657): p. 537-540. (Pubitemid 38120854)