Please use this identifier to cite or link to this item: https://doi.org/10.1089/cmb.2007.0209
Title: Run probabilities of seed-like patterns and identifying good transition seeds
Authors: Yang, J.
Zhang, L. 
Keywords: Homology search
Run statistics
Sequence alignment
Spaced seeds
Transition seeds
Issue Date: 1-Dec-2008
Citation: Yang, J., Zhang, L. (2008-12-01). Run probabilities of seed-like patterns and identifying good transition seeds. Journal of Computational Biology 15 (10) : 1295-1313. ScholarBank@NUS Repository. https://doi.org/10.1089/cmb.2007.0209
Abstract: Transition seeds exhibit a good tradeoff between sensitivity and specificity for homology search in both coding and non-coding regions. However, identifying good transition seeds is intractable. This work studies the hit probability of high-order seed patterns. Based on our theoretical results, we propose an efficient method for ranking transition seeds for seed design and list good seeds in different Bernoulli sequence models. © Mary Ann Liebert, Inc. 2008.
Source Title: Journal of Computational Biology
URI: http://scholarbank.nus.edu.sg/handle/10635/104073
ISSN: 10665277
DOI: 10.1089/cmb.2007.0209
Appears in Collections:Staff Publications

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