Part I: Overview
-
Chapter 1.
Introduction to Data Mining in Bioinformatics;
Jason T. L. Wang, Mohammed J. Zaki,
Hannu T. T. Toivonen, Dennis Shasha
(New Jersey Institute of Technology,
Rensselaer Polytechnic Institute,
University of Helsinki,
Courant Institute, New York University),
3 - 8.
-
Chapter 2.
Survey of Biodata Analysis from a Data Mining Perspective;
Peter Bajcsy, Jiawei Han, Lei Liu, Jiong Yang
(University of Illinois at Urbana-Champaign),
9 - 39.
Part II: Sequence and Structure Alignment
-
Chapter 3.
AntiClustAl: Multiple Sequence Alignment by Antipole Clustering;
Cinzia Di Pietro, Alfredo Ferro, Giuseppe Pigola, Alfredo Pulvirenti,
Michele Purrello, Marco Ragusa, Dennis Shasha
(University of Catania, Italy,
Courant Institute, New York University),
43 - 57.
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Chapter 4.
RNA Structure Comparison and Alignment;
Kaizhong Zhang
(University of Western Ontario, Canada),
59 - 81.
Part III: Biological Data Mining
-
Chapter 5.
Piecewise Constant Modeling of Sequential Data
Using Reversible Jump Markov Chain Monte Carlo;
Marko Salmenkivi, Heikki Mannila
(University of Helsinki, Helsinki University of Technology,
Finland),
85 - 103.
-
Chapter 6.
Gene Mapping by Pattern Discovery;
Petteri Sevon, Hannu T. T. Toivonen, Paivi Onkamo
(University of Helsinki, Finland),
105 - 126.
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Chapter 7.
Predicting Protein Folding Pathways;
Mohammed J. Zaki, Vinay Nadimpally,
Deb Bardhan, Chris Bystroff
(Rensselaer Polytechnic Institute),
127 - 141.
-
Chapter 8.
Data Mining Methods for a Systematics of Protein Subcellular Location;
Kai Huang, Robert F. Murphy
(Carnegie Mellon University),
143 - 187.
-
Chapter 9.
Mining Chemical Compounds;
Mukund Deshpande, Michihiro Kuramochi, George Karypis
(University of Minnesota),
189 - 215.
Part IV: Biological Data Management
-
Chapter 10.
Phyloinformatics: Toward a Phylogenetic Database;
Roderic D. M. Page
(University of Glasgow, United Kingdom),
219 - 241.
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Chapter 11.
Declarative and Efficient Querying
on Protein Secondary Structures;
Jignesh M. Patel, Donald P. Huddler, Laurie Hammel
(University of Michigan),
243 - 273.
-
Chapter 12.
Scalable Index Structures for Biological Data;
Ambuj K. Singh
(University of California at Santa Barbara),
275 - 296.
Glossary, 297 - 301.
References, 303 - 326.
Biographies, 327 - 336.
Index, 337 - 340.
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