Combinatorics of the breakage-fusion-bridge mechanism

Journal of Computational Biology

Volumn 19, Issue 6, 2012, Pages 662-678

  Kinsella, Marcus ^a   Bafna, Vineet ^b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

algorithms; cancer genomics; combinatorial pattern matching; gene amplification

Indexed keywords

ALGORITHM; ARTICLE; BIOLOGICAL MODEL; CHROMOSOME BREAKAGE; GENE AMPLIFICATION; GENE DOSAGE; GENETIC VARIABILITY; GENETICS; GENOMIC INSTABILITY; HUMAN; NEOPLASM;

ALGORITHMS; CHROMOSOME BREAKAGE; GENE AMPLIFICATION; GENE DOSAGE; GENETIC VARIATION; GENOMIC INSTABILITY; HUMANS; MODELS, GENETIC; NEOPLASMS;

EID: 84862510603     PISSN: 10665277     EISSN: None     Source Type: Journal    
DOI: 10.1089/cmb.2012.0020     Document Type: Article

References (11)

1. Artandi, S.E., and DePinho, R.A. 2010. Telomeres and telomerase in cancer. Carcinogenesis 31, 9-18.
2. Bignell, G.R., Santarius, T., Pole, J.C., et al. 2007. Architectures of somatic genomic rearrangement in human cancer amplicons at sequence-level resolution. Genome Res. 17, 1296-1303.
3. Deza, M.M., and Deza, E. 2009. Encyclopedia of Distances. Springer, New York.
4. Gusfield, D. 1997. Algorithms on Strings, Trees and Sequences: Computer Science and Computational Biology. Cambridge University Press, New Yorka.
5. Harel, D., and Tarjan, R.E. 1984. Fast algorithms for finding nearest common ancestors. SIAM J. Comput. 13, 338-355.
6. Kitada, K., and Yamasaki, T. 2008. The complicated copy number alterations in chromosome 7 of a lung cancer cell line is explained by a model based on repeated breakage-fusion-bridge cycles. Cancer Genet. Cytogenet. 185, 11-19.
7. Manacher, G. 1975. A new linear time on-line algorithm for finding the smallest initial palindrome of a string. J. Assoc. Comput. Mach. 22, 346-351.
8. McClintock, B. 1938. The production of homozygous deficient tissues with mutant characteristics by means of the aberrant mitotic behavior of ring-shaped chromosomes. Genetics 23, 315-376.
9. McClintock, B. 1941. The stability of broken ends of chromosomes in Zea mays. Genetics 26, 234-282.
10. Santarius, T., Shipley, J., Brewer, D., et al. 2010. A census of amplified and overexpressed human cancer genes. Nat. Rev. Cancer 10, 59-64.
11. Shimizu, N., Shingaki, K., Kaneko-Sasaguri, Y., et al. 2005. When, where and how the bridge breaks: anaphase bridge breakage plays a crucial role in gene amplification and HSR generation. Exp. Cell Res. 302, 233-243.