Руденко Валентина Михайловна, Коротков Евгений Вадимович
Применение метода Монте-Карло для поиска потенциальных сдвигов рамки считывания в генах
Математическая биология и биоинформатика. 2011;6(1):79-91.
doi: 10.17537/2011.6.79.
Список литературы
- Watson JD, Levine M, Baker TA, Gann A, Bell SP. Molecular Biology of the Gene. Benjamin-Cummings Pub Corp., 2007.
- Hadj Salem I, Kamoun F, Louhichi N, Rouis S, Mziou M, Fendri-Kriaa N, Makni-Ayadi F, Triki C, Fakhfakh F. Mutations in LAMA2 and CAPN3 genes associated with genetic and phenotypic heterogeneities within a single consanguineous family involving both congenital and progressive muscular dystrophies. Bioscience Reports. 2011 Apr;31(2):125-135. doi: 10.1042/BSR20100026
- Stallmeyer B, Fenge H, Nowak-Gottl U, Schulze-Bahr E. Mutational spectrum in the cardiac transcription factor gene NKX2.5 (CSX) associated with congenital heart disease. Clin Genet. 2010;78(6):533-540. doi: 10.1111/j.1399-0004.2010.01422.x
- Posfai J, Roberts RJ. Finding errors in DNA sequences. Proc. Natl. Acad. Sci. USA. 1992;89:4698-4702.
- Claverie J-M. Detecting frame shifts by amino acid sequence comparison. J. Mol. Biol. 1993;234(4):1140-1157. doi: 10.1006/jmbi.1993.1666
- Okamura K, Feuk L, Marquиs-Bonet T, Navarro A, Scherer SW. Frequent appearance of novel protein-coding sequences by frameshift translation. Genomics. 2006;88:690-697. doi: 10.1016/j.ygeno.2006.06.009
- Raes J, Van de Peer Y. Functional divergence of proteins through frameshift mutations. Trends Genet. 2005;21:428-431. doi: 10.1016/j.tig.2005.05.013
- Schiex Th, Gouzy J, Moisan A, Oliveira Y. FrameD: a flexible program for quality check and gene prediction in prokaryotic genomes and noisy matured eukaryotic sequences. NAR. 2003;31(13):3738-3741. doi: 10.1093/nar/gkg610
- Kislyuk A, Lomsadze A, Lapidus AL, Borodovsky M. Frameshift detection in prokaryotic genomic sequences. Int. J. Bioinformatics Research and Applications. 2009;5(4):458-477. doi: 10.1504/IJBRA.2009.027519
- Fichant GA, Quentini Y. A frameshift error detection algorithm for DNA sequencing projects. NAR. 1995;23(15):2900-2908. doi: 10.1093/nar/23.15.2900
- Bennetzen JL, Hall BD. Codon selection in yeast. J. Biol. Chem. 1982;257:3026-3031.
- Change-point problems. Carlstein E, Muller H-G, Siegmund D, eds. Institute of mathematical statistics, 1994. 23 p. (Lecture notes – monograph series).
- Kanehisa M, Goto S, Kawashima S, Okuno Y, Hattori M. The KEGG resources for deciphering the genome. Nucleic Acids Res. 2004;32:277-280. doi: 10.1093/nar/gkh063
- Korotkov EV, Rudenko VM. Phase shifts of the triplet periodicity in dna sequences of genes. The Mathematical Biology and Bioinformatics. 2009;4(2):66-80. doi: 10.17537/2009.4.66
- Trifonov EN. Elucidating sequence codes: three codes for evolution. Ann. NY Acad. Sci. 1999;870:330-338. doi: 10.1111/j.1749-6632.1999.tb08894.x
- Eigen M, Winkler-Oswatitsch R. Transfer-RNA: the early adaptor. Naturwissenschaften. 1981;68:217-228. doi: 10.1007/BF01047323
- Zoltowski M. Is DNA Code Periodicity Only Due to CUF - Codons Usage Frequency? Conf. Proc. IEEE Eng Med. Biol. Soc. 2007;1:1383-1386. doi: 10.1109/IEMBS.2007.4352556
- Antezana MA, Kreitman M. The nonrandom location of synonymous codons suggests that reading frame-independent forces have patterned codon preferences. J. Mol. Evol. 1999;49(1):36-43. doi: 10.1007/PL00006532
- Kullback S. Information Theory and Statistics. New York: Wiley, 1959.
- Filina MV, Zubkov AM. Exact computation of Pearson statistics distribution and some experimental results. Austr. J. Statist. 2008;37(1):129-135.
- Sprinthall RC. Basic Statistical Analysis: Seventh Edition. Boston: Pearson Education Group, 2003.
- Carpena P, Bernaola-Galván P, Román-Roldán R, Oliver J. A simple and species-independent coding measure. Gene. 2002;300(1-2):97-104. doi: 10.1016/S0378-1119(02)01041-7
- Korotkov EV, Korotkova MA. Study of the triplet periodicity phase shifts in genes. Journal of Integrative Bioinformatics. 2010;7:131-141.
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