Information theoretic distance measures in phylogenomics

2007 Information Theory and Applications Workshop, Conference Proceedings, ITA

Volumn , Issue , 2007, Pages 421-425

  Hanus, Pavol ^a   Dingel, Janis ^a   Zech, Juergen ^b   Hagenauer, Joachim ^a   Mueller, Jakob C ^c  

^a TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^b TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^c MAX PLANCK INSTITUTE FOR ORNITHOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CYBERNETICS; DNA; DNA SEQUENCES; GENES; IMAGE SEGMENTATION; NUCLEIC ACIDS; ORGANIC ACIDS;

BIOLOGICAL PROPERTIES; DIGITAL INFORMATION SYSTEMS; DISTANCE MEASURES; EVOLUTIONARY CONSERVATIONS; GENOME ANALYSIS; GENOMIC SEQUENCING; INFORMATION CARRIERS; INFORMATION-THEORETIC DISTANCE; KULLBACK-LEIBLER DISTANCE; LIVING ORGANISMS; PAIR-WISE DISTANCES; PHYLOGENOMICS;

INFORMATION THEORY;

EID: 48049090649     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/ITA.2007.4357613     Document Type: Conference Paper

References (17)

1. H. Pearson, "Genetics: what is a gene?" Nature, vol. 441, pp. 398-401, 2006.
2. International Human Genome Sequencing Consortium, "Finishing the euchromatic sequence of the human genome," Nalure, vol. 431, pp. 931-945, 2004.
3. M. Brent, "Genome annotation past, present, and future: how to define an ORF at each locus," Genome Research, vol. 15, pp. 1777-1786, 2005.
4. A. Siepel, G. Bejerano, and J. S. Pedersen, "Evoiutionarily conserved elements in vertebrate, insect, worm, and yeast genomes," Genome Res., vol. 15, no. 8, pp. 1034-1050, August 2005.
5. M. Li, J. Badger, X. Chen, et al., "An information-based sequence distance and its application to whole mitochondrial genome phytogeny," Bioinformatics, vol. 17, pp. 149-154, 2001.
6. Z. Dawy, J. Hagenauer, P. Harms, et al., "Mutual information based distance measures for classification and content recognition with applications to genetics," Proc. of the ICC, 2005.
7. X. Chen, M. Li, B. Ma, et al., "Dnacompress: fast and effective dna sequence compression," Bioinformatics, vol. 18, no. 12, pp. 1696-1698, 2002.
8. E. Margulies, M. Blanchette, D. Haussler, et al., "Identification and characterization of multi-species conserved sequences," Genome Research, vol. 13, pp. 2507-2518, 2003.
9. R. Nielsen, "Statistical methods in molecular evolution," Springer Science+Buisness Media, Inc., pp. 325-351, 2005.
10. P. Hanus, J. Dingel, J. Hagenauer, et al., "An alternative method for detecting conserved regions in multiple species," Proc. of the German Conference on Bioinformatics, p. 64, 2005.
11. R. Durbin, S. Eddy, A.Krogh, et al., "Biological sequence analysis -probabilistic models of protein and nucleic acids," Cambridge University Press, 1998.
12. Smit, AFA, Hubley R and P. Green, "Repeatmasker open-3.0." http://www.repeatmasker.org, 1996-2004.
13. E. Bimey, D. Andrews, M. Caccamo, et al., "Ensembl 2006," Nucleic Acids Res., January 2006.
14. M. Blanchette, A. R. Bataille, X. Chen, et al., "Genome-wide computational prediction of transcriptional regulatory modules reveals new insights into human gene expression," Genome Research, vol. 16, pp. 656-668, 2006.
15. G. Battail, "Information Theory and Error correcting codes in genetics and biological evolution," Introduction to Biosemiotics, Springer, November 2006.
16. S. J. Lolle, J. L. Victor, J. M. Young, et al., "Genome-wide non-mendelian inheritance of extra-genomic information in arabidopsis," Nature, vol. 434, pp. 505-509, March 2005.
17. B.-J. Yoon and P. Vaidyanathan, "Computational identification and analysis of noncoding rnas," IEEE Signal. Processing Magazine, vol. 24, no. 1, pp. 64-74, January 2007.