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<!---#### $Id: papers.html 1339 2006-09-21 19:46:28Z tbailey $#### $Log$## Revision 1.3 2006/03/07 23:30:20 nadya## merge branches v3_5_1 and v3_5_2 back to the trunk#### Revision 1.2.6.1 2006/02/22 20:49:02 nadya## enabling styling with js and css#### Revision 1.2 2005/09/16 01:06:51 nadya## update home page address#### Revision 1.1.1.1 2005/07/31 20:18:59 nadya## Importing from meme-3.0.14, and adding configure/make####---><script src="template-css.js" type="text/javascript"></script><TITLE>MEME and MAST Publications</TITLE><body class="body"><script src="template-header.js" type="text/javascript"></script> <H3> MEME </H3> <font> Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", <EM>Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology</EM>, pp. 28-36, AAAI Press, Menlo Park, California, 1994. <A href="http://www.sdsc.edu/~tbailey/papers/ismb94.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/ismb94.pdf">[pdf]</A> <H3> MAST </H3> Timothy L. Bailey and Michael Gribskov, "Combining evidence using p-values: application to sequence homology searches", <I>Bioinformatics</I>, Vol. 14, pp. 48-54, 1998. <A href="http://www.sdsc.edu/~tbailey/papers/qfast.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/qfast.pdf">[pdf]</A> </font> <HR> <H3> Other MEME- and MAST-related publications </H3> <UL> <LI> Timothy L. Bailey and Michael Gribskov, "Methods and statistics for combining motif match scores", <I>Journal of Computational Biology</I>, Vol. 5, pp. 211-221, 1998. <A href="http://www.sdsc.edu/~tbailey/papers/stats.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/stats.pdf">[pdf]</A> <LI> Timothy L. Bailey and Michael Gribskov, "Score distributions for simultaneous matching to multiple motifs", <I>Journal of Computational Biology</I>, Vol. 4, pp. 45-59, 1997. <A href="http://www.sdsc.edu/~tbailey/papers/sumofgum.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/sumofgum.pdf">[pdf]</A> <LI> William N. Grundy, Timothy L. Bailey, Charles P. Elkan and Michael E. Baker. "Hidden Markov Model Analysis of Motifs in Steroid Dehydrogenases and their Homologs", <I>Biochemical and Biophysical Research Communications</I>, Vol 231, pp. 760-766, 1997. <A HREF="http://www.sdsc.edu/~tbailey/papers/dehydrog-bbrc97.ps">[postscript]</A> <A HREF="http://www.sdsc.edu/~tbailey/papers/dehydrog-bbrc97.pdf">[pdf]</A> <LI> William N. Grundy, Timothy L. Bailey, Charles P. Elkan and Michael E. Baker. "Meta-MEME: Motif-based Hidden Markov Models of Protein Families", <I>Computer Applications in the Biological Sciences (CABIOS)</I>, Vol. 13, pp. 397-406, 1997. <A HREF="http://www.sdsc.edu/~tbailey/papers/metameme-cabios97.ps">[postscript]</A> <A HREF="http://www.sdsc.edu/~tbailey/papers/metameme-cabios97.pdf">[pdf]</A> <LI> Timothy L. Bailey, Michael E. Baker and Charles P. Elkan, "An artificial intelligence approach to motif discovery in protein sequences: application to steriod dehydrogenases", <I>Journal of steroid biochemistry and molecular biology</I>, Vol. 62, 1997. <LI> William N. Grundy, Timothy L. Bailey and Charles P. Elkan, "ParaMEME: A Parallel Implementation and a Web Interface for a DNA and Protein Motif Discovery Tool", <EM>Computer Applications in the Biological Sciences (CABIOS)</EM>, Vol. 12, pp. 303-310, 1996. <A href="http://www.sdsc.edu/~tbailey/papers/cabios96.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/cabios96.pdf">[pdf]</A> <LI> Timothy L. Bailey and Michael Gribskov, "The megaprior heuristic for discovering protein sequence patterns", <EM>Proceedings of the Fourth International Conference on Intelligent Systems for Molecular Biology</EM>, pp. 15-24 AAAI Press, Menlo Park, California, 1996. <A href="http://www.sdsc.edu/~tbailey/papers/ismb96.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/ismb96.pdf">[pdf]</A> <LI> Timothy L. Bailey and Charles Elkan, "The value of prior knowledge in discovering motifs with MEME", <EM>Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology</EM>, pp. 21-29, AAAI Press, Menlo Park, California, 1995. <A href="http://www.sdsc.edu/~tbailey/papers/ismb95.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/ismb95.pdf">[pdf]</A> <LI> Timothy L. Bailey, "Discovering motifs in DNA and protein sequences: The approximate common substring problem", Ph.D. dissertation, University of California at San Diego, 1995. <A href="http://www.sdsc.edu/~tbailey/papers/thesis.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/thesis.pdf">[pdf]</A> <LI> Timothy L. Bailey and Charles Elkan, "Unsupervised Learning of Multiple Motifs in Biopolymers using EM", <EM>Machine Learning</EM>, 21(1-2):51-80, October, 1995. <A href="http://www.sdsc.edu/~tbailey/papers/meme.ml.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/meme.ml.pdf">[pdf]</A> <LI> Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", UCSD Technical Report, CS94-351, March, 1994, University of California at San Diego. <A href="http://www.sdsc.edu/~tbailey/papers/memeplus.tech.ps">[postscript]</A> <A href="http://www.sdsc.edu/~tbailey/papers/memeplus.tech.pdf">[pdf]</A> </UL> <HR> <font><A href="http://meme.nbcr.net"> Go to the MEME home page </A></font> <script src="template-footer.js" type="text/javascript"></script></body></html>?? 快捷鍵說明
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