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- Abstract One of the major goals of computational sequence analysis is to find sequence similarities, which could serve as evidence of structural and func...Abstract One of the major goals of computational sequence analysis is to find sequence similarities, which could serve as evidence of structural and functional conservation, as well as of evolutionary relations among the sequences. Since the degree of similarity is usually assessed by the sequence alignment score, it is necessary to know if a score is high enough to indicate a biologically interesting alignment. A powerful approach to defining score cutoffs is based on the evaluation of the statistical significance of alignments. The statistical significance of an alignment score is frequently assessed by its P-value, which is the probability that this score or a higher one can occur simply by chance, given the probabilistic models for the sequences. In this review we discuss the general role of P-value estimation in sequence analysis, and give a description of theoretical methods and computational approaches to the estimation of statistical signifiance for important classes of sequence analysis problems. In particular, we concentrate on the P-value estimation techniques for single sequence studies (both score-based and score-free), global and local pairwise sequence alignments, multiple alignments, sequence-to-profile alignments and alignments built with hidden Markov models. We anticipate that the review will be useful both to. researchers professionally working in bioinformatics as well as to biomedical scientists interested in using contemporary methods of DNA and protein sequence analysis.
- "Colorless green ideas sleep furiously" is a sentence composed by Noam Chomsky in 1957 as an example of a sentence whose grammar is correct but whose meani..."Colorless green ideas sleep furiously" is a sentence composed by Noam Chomsky in 1957 as an example of a sentence whose grammar is correct but whose meaning is nonsensical. It was used to show inadequacy of the then-popular probabilistic models of gramma
- "Colorless green ideas sleep furiously" is a sentence composed by Noam Chomsky in 1957 as an example of a sentence whose grammar is correct but whose meani..."Colorless green ideas sleep furiously" is a sentence composed by Noam Chomsky in 1957 as an example of a sentence whose grammar is correct but whose meaning is nonsensical. It was used to show inadequacy of the then-popular probabilistic models of gramma
- Trends in Cognitive Sciences 14(8):357-364 (Jun 23, 2010)
- FOCS, page 222-227. IEEE Computer Society, (1977)
- University of California, Los Angeles, (2007)
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- (2006)
- Proceedings of the 19th international conference on World wide web, page 681--690. New York, NY, USA, ACM, (2010)
- Proceedings of the 1998 conference on Advances in neural information processing systems II, page 466--472. Cambridge, MA, USA, MIT Press, (1999)
- Proceedings of the ECML/PKDD 2011, (2011)
- Proceedings of the ECML/PKDD 2011, (2011)
- Proceedings of the ECML/PKDD 2011, (2011)
- Solar Energy (2007)
- Solar Energy 82(2):125--131 (2008)
- (2010)
- Nature Neuroscience 9(11):1432--1438 (Oct 22, 2006)
- Trends in Cognitive Sciences 14(3):119--130 (Mar 12, 2010)
- (2010)cite arxiv:1012.4524 .
- Springer, Dordrecht, (2005)
- Knowledge and Data Engineering, IEEE Transactions on (2010)
- Wireless and Mobile Computing, Networking and Communications, 2007. WiMOB 2007. Third IEEE International Conference on, page 21 -21. (2007)
- MobiDE '06 Proceedings of the 5th ACM international workshop on Data engineering for wireless and mobile access (2006)
