Publications about  the algorithm and implementations of  Lempel-Ziv method for genetic text complexity estimations

(chronological order)

Gusev V.D., Kulichkov V.A., Chupakhina O.M. (1989) Complexity analysis of genetic texts (with phage lambda as an example). Preprint no.20. Institute of Mathematics Acad. Sci. USSR, Siberian branch, Novosibirsk. (in Russian).

Gusev V.D., Kulichkov V.A., Chupakhina O.M. (1991) Complexity analysis of genomes. I. Complexity and classification methods of detected structural regularities. Mol. Biol. (Mosk). 25, 825-834.

Gusev V.D., Kulichkov V.A., Chupakhina O.M. (1991) Complexity analysis of a genome. II. Extensive homology zones in bacteriophage lambda Mol Biol (Mosk). 25(4), 1080-9. (in Russian).

Gusev V.D., Kulichkov V.A., Chupakhina O.M. (1993) The Lempel-Ziv complexity and local structure analysis of genomes. Biosystems, 30(1-3), 183-200. 

Gusev V.D., Kulichkov V.A., Chupakhina O.M. (1993) Global complexity analysis of genomes. Biosystems, 30(1-3), 201-14. 

Babenko,V.N., Kosarev P.S., Vishnevsky O.V., Levitsky V.G., Basin V.V. and Frolov A.S. (1999) Investigating extended regulatory regions of genomic DNA sequences. Bioinformatics, 15, 644–653.

Gusev V.D., Nemytikova L.A. and Chuzhanova N.A. (1999) On the complexity measures of genetic sequences. Bioinformatics, 15, 994–999.

Chuzhanova N.A., Krawczak M., Nemytikova L.A., Gusev V.D., Cooper D.N. (2000) Promoter shuffling has occurred during the evolution of the vertebrate growth hormone gene. Gene, 22; 254(1-2), 9-18.

Gusev V.D., Nemytikova L.A., and Chuzhanova N.A. (2001) A rapid method for detecting interconnections between functionally and/or evolutionary close biological sequences. Mol. Biol. (Mosk.) 35(6): 1015-1022. (In Russian).

Orlov Yu.L., Gusev V.D., Nemytikova L.A. (2002) Software package LZcomposer: analysis of occurrence of repeats in complete genomes. In: Proceedings of the Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2002), Novosibirsk, Inst. of Cytology&Genetics Press, 3: 247-250.

Gusev V.D., Nemytikova L.A., Orlov Yu.L., Filippov V.P. (2002) Internet-available software system LZcomposer for analysis of genome sequence structure on the basis of complexity decompositions. n: Proceedings of the Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2002), Novosibirsk, Inst. of Cytology&Genetics Press, 3: 260-263.

Chuzhanova N.A., Krawczak M., Thomas N., Nemytikova L.A., Gusev V.D., Cooper D.N. (2002) The evolution of the vertebrate beta-globin gene promoter. Evolution Int J Org Evolution. 56(2), 224-32.

Abeysinghe S.S., Chuzhanova N., Krawczak M., Ball E.V., Cooper D.N. (2003) Translocation and gross deletion breakpoints in human inherited disease and cancer I. Nucleotide composition and recombination-associated motifs. Hum Mutation 22(3), 229-244.

Chuzhanova N.A., Anassis E.J., Ball E., Krawczak M., Cooper D.N. (2003) Meta-analysis of indels causing human genetic disease: mechanisms of mutagenesis and the role of local DNA sequence complexity. Hum. Mutation, 21, 28-44.

Turner C., Killoran C., Thomas N., Rosenberg M., Chuzhanova N., Johnston J., Kemel Y., Cooper D., Biesecker L. (2003) Human genetic disease caused by de novo mitochondrial-nuclear DNA transfer. Human Genetics 112, 303-309.

Orlov Yu.L., Gusev V.D. and Miroshnichenko L.A. (2004) LZcomposer: decomposition of genomic sequences by repeat fragments. Biophysics (Mosk.), (in Press)

Orlov Yu.L., Levitsky V.G. (2004) Nucleosome Positioning Signal Analysis. GENSIPS-2004 http://www.cis.jhu.edu/gensips2004/ (Workshop on Genomic Signal Processing and Statistics, Baltimore, Maryland, USA, May 26-27, 2004) (accepted).

Orlov Yu.L., Potapov V.N. (2004) Complexity: Internet-resource for analysis of DNA sequence complexity. Nuclei Acid Res., web-server issue 2004, (submitted).

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