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Zbl 1003.90043
Ecker, J.G.; Kupferschmid, M.; Lawrence, C.E.; Reilly, A.A.; Scott, A.C.H.
An application of nonlinear optimization in molecular biology. (English)
[J] Eur. J. Oper. Res. 138, No.2, 452-458 (2002). ISSN 0377-2217

Summary: A maximum likelihood approach has been proposed for finding protein binding sites on strands of DNA [{\it G. D. Stormo} and {\it G. W. Hartzell}, Proc. Nat. Acad. Sci. USA 86, 1183-1187 (1989)]. We formulate an optimization model for the problem and present calculations with experimental sequence data to study the behavior of this site identification method.

MSC 2000:: *90C30 Nonlinear programming
92D20 Protein sequences, DNA sequences
62P10 Appl. of statistics to biology
92C40 Biochemistry, etc.

Keywords: nonlinear programming; molecular biology; maximum likelihood; protein binding sites; strands of DNA

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