Proceedings of the First International Conference on Intelligent Systems for Molecular Biology
Edited by Lawrence Hunter, David Searls, and Jude Shavlik
July 6-9, 1993, Bethesda, Maryland. Published by The AAAI Press, Menlo Park, California. This proceedings is available in book format.
Please Note: Abstracts are linked to individual titles, and will appear in a separate browser window. Full-text versions of the papers are linked to the abstract text. Access to full text may be restricted to AAAI members. PDF file sizes may be large!
Contents
Sponsors / iii
Program Committee / iv
Preface / ix
Lawrence Hunter, David Searls, and Jude Shavlik
Knowledge Discovery in GENBANK / 3
J. S. Aaronson, J. Haas, and G. C. Overton
Probabilistic Structure Calculations: A Three- Dimensional tRNA Structure from Sequence Correlation Data / 12
R. B. Altman
Database Techniques for Biological Materials and Methods / 21
K. Baclawski, R. Futrelle, N. Fridman, and M. J. Pescitelli
The Induction of Rules for Predicting Chemical Carcinogenesis in Rodents / 29
D. Bahler and D. Bristol
SENEX: A CLOS/CLIM Application for Molecular Pathology / 38
S. S. Ball and V. H. Mah
Using Dirichlet Mixture Priors to Derive Hidden Markov Models for Protein Families / 47
M. Brown, R. Hughey, A. Krogh, I. S. Mian, K. Sjölander, and D.
Haussler
FLASH: A Fast Look-Up Algorithm for String Homology / 56
A. Califano and I. Rigoutsos
Toward Multi-Strategy Parallel & Distributed Learning in Sequence Analysis / 65
P. K. Chan and S. J. Stolfo
Protein Structure Prediction: Selecting Salient Features from Large Candidate Pools / 74
K. J. Cherkauer and J. W. Shavlik
Protein Topology Prediction through Parallel Constraint Logic Programming / 83
D. A. Clark, C. J. Rawlings, J. Shirazi, A. Veron, and M. Reeve
Knowledge-Based Generation of Machine-Learning Experiments: Learning with DNA Crystallography Data / 92
D. Cohen, C. Kulikowski, and H. Berman
Representation for Discovery of Protein Motifs / 101
D. Conklin, S. Fortier, and J. Glasgow
Protein Secondary-Structure Modeling with Probabilistic Networks / 109
A. L. Delcher, S. Kasif, H. R. Goldberg, and W. Hsu
Comparison of Two Variations of Neural Network Approaches to the Prediction of Protein Folding Pattern / 118
I. Dubchak, S. R. Holbrook, and S. -H. Kim
Protein Classification Using Neural Networks / 127
E. A. Ferrán, B. Pflugfelder, and P. Ferrara
Pattern Recognition for Automated DNA Sequencing: I. On-Line Signal Conditioning and Feature Extraction for Basecalling / 136
J. B. Golden III, D. Torgersen, and C. Tibbetts
A Modular Learning Environment for Protein Modeling / 145
J. Gracy, L. Chiche and J. Sallantin
Integrating Order and Distance Relationships from Heterogeneous Maps / 154
M. Graves
Inference of Order in Genetic Systems / 163
J. N. Guidi and T. H. Roderick
PALM--A Pattern Language for Molecular Biology / 172
C. Helgesen and P. R. Sibbald
Grammatical Formalization of Metabolic Processes / 181
R. Hofestädt
Finding Relevant Biomolecular Features / 190
L. Hunter and T. Klein
Constructive Induction and Protein Tertiary Structure Prediction / 198
T. R. Ioerger, L. Rendell, and S. Surbramaniam
Representations of Metabolic Knowledge / 207
P. D. Karp and M. Riley
Protein Sequencing Experiment Planning Using Analogy / 216
B. Kettler and L. Darden
Detection of Correlations in tRNA Sequences with Structural Implications / 225
T. M. Klingler and D. Brutlag
Design of an Object-Oriented Database for Reverse Genetics / 234
K. J. Kochut, J. Arnold, J. A. Miller, and W. D. Potter
A Small Automaton for Word Recognition in DNA Sequences / 243
C. Lefèvre and J. -E Ikeda
Protein Secondary Structure Prediction Using Two-Level Case-Based Reasoning / 251
B. Leng, B. G. Buchanan, and H. B. Nicholas
MultiMap: An Expert System for Automated Genetic Linkage Mapping / 260
T. C. Matise, M. Perlin and A. Chakravarti
Constructing a Distributed Object-Oriented System with Logical Constraints for Fluorescence-Activated Cell Sorting / 266
T. Matsushima
Identification of Localized and Distributed Bottlenecks in Metabolic Pathways / 275
M. L. Mavrovouniotis
Discovering Sequence Similarity by the Algorithmic Significance Method / 284
A. Milosavljevic
Prediction of Primate Splice Junction Gene Sequences with a Cooperative Knowledge Acquisition System / 292
E. Mephu Nguifo and J. Sallantin
A Multi-Level Description Scheme of Protein Conformation / 301
K. Onizuka, K. Asai, M. Ishikawa, and S. T. C. Wong
Genetic Algorithms for DNA Sequence Assembly / 310
R. Parsons, S. Forrest, and C. Burks
Object-Oriented Knowledge Bases for the Analysis of Prokaryotic and Eukaryotic Genomes / 319
G. Perrière, F. Dorkeld, F. Rechenmann, and C. Gautier
Petri Net Representations in Metabolic Pathways / 328
V. N. Reddy, M. L. Mavrovouniotis, and M. N. Liebman
Minimizing Complexity in Cellular Automata Models of Self-Replication / 337
J. A. Reggia, H. -H. Chou, S. L. Armentrout, and Y. Peng
Building Large Knowledge Bases in Molecular Biology / 345
O. Schmeltzer, C. Médigue, P. Uvietta, F. Rechenmann, F. Dorkeld, G.
Perrière, and C. Gautier
Testing HIV Molecular Biology In In Silico Physiologies / 354
H. B. Sieburg, C. Baray, and K. Kunzelman
A Partial Digest Approach to Restriction Site Mapping / 362
S. S. Skiena and G. Sundaram
Identification of Human Gene Functional Regions Based on Oligonucleotide Composition / 371
V. V. Solovyev and C. B. Lawrence
A Service-Oriented Information Sources Database for the Biological Sciences / 380
G. K. Springer and T. B. Patrick
Computationally Efficient Cluster Representation in Molecular Sequence Megaclassification / 387
D. J. States, N. Harris, and L. Hunter
Hidden Markov Models and Iterative classers: Study of Their Equivalence and Possibilities / 395
H. Tanaka, K. Asai, M. Ishikawa, and A. Konagaya
Protein Structure Prediction System Based on Artificial Neural Networks / 402
J. Vanhala and K. Kaski
Pattern Discovery in Gene Regulation: Designing an Analysis Environment / 411
S. M. Veretnik and B. R. Schatz
Transmembrane Segment Prediction from Protein Sequence Data / 420
S. M. Weiss, D. M. Cohen and N. Indurkhya
Neural Networks for Molecular Sequence Classification / 429
C. Wu, M. Berry, Y-S. Fung, and J. McLarty
Automatic Derivation of Substructures Yields Novel Structural Building Blocks in Globular Proteins / 438
X. Zhang, J. S. Fetrow, W. A. Rennie, D. L. Waltz, and G. Berg
A Constraint Reasoning System for Automating Sequence-Specific Resonance Assignments from Multidimensional Protein NMR Spectra / 447
D. Zimmerman, C. Kulikowski, and G. T. Montelione
AAAI Digital Library
AAAI relies on your generous support through membership and donations. If you find these resources useful, we would be grateful for your support.