COMPASSS (COMplex PAttern of Sequence Search Software), a simple and effective tool for mining complex motifs in whole genomes

Bioinformatics

Volumn 26, Issue 14, 2010, Pages 1777-1778

  Maccari, Giuseppe ^a   Gemignani, Federica ^b   Landi, Stefano ^b  

^a UNIVERSITY OF INSUBRIA   (Italy)

^b UNIVERSITY OF PISA   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN;

ALGORITHM; ARTICLE; CHEMISTRY; COMPUTER PROGRAM; DATA MINING; GENOME; INTERNET; METHODOLOGY; NUCLEOTIDE SEQUENCE;

ALGORITHMS; BASE SEQUENCE; DATA MINING; GENOME; INTERNET; PROTEINS; SOFTWARE;

EID: 77954498887     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btq258     Document Type: Article

References (10)

1. Balakirev, E.S. and Ayala, F.J. (2003) Pseudogenes: are they "junk" or functional DNA? Annu. Rev. Genet., 37, 123-151.
2. Das, M.K. and Dai, H.K. (2007) A survey of DNA motif finding algorithms. BMC Bioinformatics, 8 (Suppl. 7), S21.
3. El-Deiry, W.S. et al. (1992) Definition of a consensus binding site for p53. Nat. Genet., 1, 45-49.
4. . International Human Genome Sequencing Consortium (2004) Finishing the euchromatic sequence of the human genome. Nature, 431, 931-945.
5. Levine, A.J. (1997) p53, the cellular gatekeeper for growth and division Cell, 88, 323-331.
6. Ryan, A.K. and Rosenfeld, M.G. (1997) POU domain family values: flexibility, partnerships, and developmental codes. Genes Dev., 11, 1207-1225.
7. The ENCODE Project Consortium (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447, 799-816.
8. Tress, M.L. et al. (2007) The implications of alternative splicing in the ENCODE protein complement. Proc. Natl Acad. Sci. USA, 104, 5495-5500.
9. Venter, J.C. et al. (2001) The sequence of the human genome. Science, 291, 1304-1351.
10. Wu, S. and Manber, U. (1994) A fast algorithm for multi-pattern searching. Technical Report TR94-17, Department of Computer Science, University of Arizona.