{ "title": "6th Annual International Conference on Research in Computational Molecular Biology", "location": "Washington, DC, United States", "dates": "April 18 - 21, 2002", "pc_chair": "Gene Myers", "organization_committee": "Sridhar Hannenhalli (chair), Kathy Ambrose, Liliana Florea, George Komatsoulis, Jason Miller, Morgan Park, Michelle Perry, Russell Schwartz, Brian Walenz", "keynotes": "Ruben Abagyan, Ali Brivanlou, Evan Eichler, Harold Garner, David Ho, Gerry Rubin, Craig Venter, Marc Vidal", "website": "https://recomb.org/recomb2002", "papers": [ { "author": "Nancy M. Amato, Ken A. Dill, Guang Song", "title": "Using motion planning to map protein folding landscapes and analyze folding kinetics of known native structures", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 2–11. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "2–11", "proceedings_doi": "10.1145/565196.565198", "journal": "Journal of Computational Biology", "journal_title": "Using Motion Planning to Map Protein Folding Landscapes and Analyze Folding Kinetics of Known Native Structures", "journal_authors": "Nancy M. Amato, Ken A. Dill, Guang Song", "journal_issue_pages": "10(3-4): 239-255", "journal_year": "2003", "journal_doi": "10.1089/10665270360688002" }, { "author": "Mehmet Serkan Apaydin, Douglas L. Brutlag, Carlos Guestrin, David Hsu, Jean-Claude Latombe", "title": "Stochastic roadmap simulation: an efficient representation and algorithm for analyzing molecular motion", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 12–21. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "12–21", "proceedings_doi": "10.1145/565196.565199", "journal": "Journal of Computational Biology", "journal_title": "Stochastic Roadmap Simulation: An Efficient Representation and Algorithm for Analyzing Molecular Motion", "journal_authors": "Mehmet Serkan Apaydın, Douglas L. Brutlag, Carlos Guestrin, David Hsu, Jean‐Claude Latombe, Chris Varma", "journal_issue_pages": "10(3-4): 257-281", "journal_year": "2003", "journal_doi": "10.1089/10665270360688011" }, { "author": "Alberto Apostolico, Mary Ellen Bock, Stefano Lonardi", "title": "Monotony of surprise and large-scale quest for unusual words", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 22–31. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "22–31", "proceedings_doi": "10.1145/565196.565200", "journal": "Journal of Computational Biology", "journal_title": "Monotony of Surprise and Large-Scale Quest for Unusual Words", "journal_authors": "Alberto Apostolico, Mary Ellen Bock, Stefano Lonardi", "journal_issue_pages": "10(3-4): 283-311", "journal_year": "2003", "journal_doi": "10.1089/10665270360688020" }, { "author": "Peter F. Arndt, Christopher B. Burge, Terence Hwa", "title": "DNA sequence evolution with neighbor-dependent mutation", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 32–38. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "32–38", "proceedings_doi": "10.1145/565196.565201", "journal": "Journal of Computational Biology", "journal_title": "DNA Sequence Evolution with Neighbor-Dependent Mutation", "journal_authors": "Peter F. Arndt, Christopher B. Burge, Terence Hwa", "journal_issue_pages": "10(3-4): 313-322", "journal_year": "2003", "journal_doi": "10.1089/10665270360688039" }, { "author": "Ziv Bar-Joseph, Georg Gerber, David K. Gifford, Tommi S. Jaakkola, Itamar Simon", "title": "A new approach to analyzing gene expression time series data", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 39–48. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "39–48", "proceedings_doi": "10.1145/565196.565202" }, { "author": "Amir Ben-Dor, Benny Chor, Richard Karp, Zohar Yakhini", "title": "Discovering local structure in gene expression data: the order-preserving submatrix problem", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 49–57. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "49–57", "proceedings_doi": "10.1145/565196.565203", "journal": "Journal of Computational Biology", "journal_title": "Discovering Local Structure in Gene Expression Data: The Order-Preserving Submatrix Problem", "journal_authors": "Amir Ben‐Dor, Benny Chor, Richard M. Karp, Zohar Yakhini", "journal_issue_pages": "10(3-4): 373-384", "journal_year": "2003", "journal_doi": "10.1089/10665270360688075" }, { "author": "Amir Ben-Dor, Richard M. Karp, Benno Schwikowski, Ron Shamir", "title": "The restriction scaffold problem", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 58–66. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "58–66", "proceedings_doi": "10.1145/565196.565204", "journal": "Journal of Computational Biology", "journal_title": "The Restriction Scaffold Problem", "journal_authors": "Amir Ben‐Dor, Richard M. Karp, Benno Schwikowski, Ron Shamir", "journal_issue_pages": "10(3-4): 385-398", "journal_year": "2003", "journal_doi": "10.1089/10665270360688084" }, { "author": "Sèverine Bérard, Éric Rivals", "title": "Comparison of minisatellites", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 67–76. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "67–76", "proceedings_doi": "10.1145/565196.565205", "journal": "Journal of Computational Biology", "journal_title": "Comparison of Minisatellites", "journal_authors": "Sèverine Bérard, Éric Rivals", "journal_issue_pages": "10(3-4): 357-372", "journal_year": "2003", "journal_doi": "10.1089/10665270360688066" }, { "author": "Phil Bradley, Peter S. Kim, Bonnie Berger", "title": "Trilogy: discovery of sequence-structure patterns across diverse proteins", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 77–88. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "77–88", "proceedings_doi": "10.1145/565196.565206", "journal": "Proceedings of the National Academy of Sciences", "journal_title": "trilogy : Discovery of sequence–structure patterns across diverse proteins", "journal_authors": "Philip Bradley, Peter S. Kim, Bonnie Berger", "journal_issue_pages": "99(13): 8500-8505", "journal_year": "2002", "journal_doi": "10.1073/pnas.112221999" }, { "author": "Jeremy Buhler", "title": "Provably sensitive Indexing strategies for biosequence similarity search", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 90–99. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "90–99", "proceedings_doi": "10.1145/565196.565208", "journal": "Journal of Computational Biology", "journal_title": "Provably Sensitive Indexing Strategies for Biosequence Similarity Search", "journal_authors": "Jeremy Buhler", "journal_issue_pages": "10(3-4): 399-417", "journal_year": "2003", "journal_doi": "10.1089/10665270360688093" }, { "author": "Alberto Caprara, Giuseppe Lancia", "title": "Structural alignment of large-size proteins via lagrangian relaxation", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 100–108. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "100–108", "proceedings_doi": "10.1145/565196.565209" }, { "author": "Barry Cohen, Steven Skiena", "title": "Designing RNA structures: natural and artificial selection", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 109–116. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "109–116", "proceedings_doi": "10.1145/565196.565210" }, { "author": "Minghua Deng, Shipra Mehta, Fengzhu Sun, Ting Chen", "title": "Inferring domain-domain interactions from protein-protein interactions", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 117–126. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "117–126", "proceedings_doi": "10.1145/565196.565211", "journal": "Genome Research", "journal_title": "Inferring Domain–Domain Interactions From Protein–Protein Interactions", "journal_authors": "Minghua Deng, Shipra Mehta, Fengzhu Sun, Ting Chen", "journal_issue_pages": "12(10): 1540-1548", "journal_year": "2002", "journal_doi": "10.1101/gr.153002" }, { "author": "Chris H. Q. Ding", "title": "Analysis of gene expression profiles: class discovery and leaf ordering", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 127–136. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "127–136", "proceedings_doi": "10.1145/565196.565212" }, { "author": "Ron O. Dror, Jonathan G. Murnick, Nicola A. Rinaldi, Voichita D. Marinescu, Ryan M. Rifkin, Richard A. Young", "title": "A bayesian approach to transcript estimation from gene array data: the BEAM technique", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 137–143. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "137–143", "proceedings_doi": "10.1145/565196.565213" }, { "author": "Dannie Durand, David Sankoff", "title": "Tests for gene clustering", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 144–154. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "144–154", "proceedings_doi": "10.1145/565196.565214", "journal": "Journal of Computational Biology", "journal_title": "Tests for Gene Clustering", "journal_authors": "Dannie Durand, David Sankoff", "journal_issue_pages": "10(3-4): 453-482", "journal_year": "2003", "journal_doi": "10.1089/10665270360688129" }, { "author": "Nadia El-Mabrouk, Mathieu Raffinot", "title": "Approximate matching of secondary structures", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 156–164. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "156–164", "proceedings_doi": "10.1145/565196.565216", "journal": "Journal of Bioinformatics and Computational Biology", "journal_title": "Approximate Matching of Structured Motifs in DNA Sequences", "journal_authors": "Nadia El-Mabrouk, Mathieu Raffinot, Jean-Eudes Duchesne, Mathieu Lajoie, Nicolas Luc", "journal_issue_pages": "03(02): 317-342", "journal_year": "2005", "journal_doi": "10.1142/s0219720005001065" }, { "author": "Dan Gusfield", "title": "Haplotyping as perfect phylogeny: conceptual framework and efficient solutions", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 166–175. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "166–175", "proceedings_doi": "10.1145/565196.565218" }, { "author": "Eran Halperin, Shay Halperin, Tzvika Hartman, Ron Shamir", "title": "Handling long targets and errors in sequencing by hybridization", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 176–185. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "176–185", "proceedings_doi": "10.1145/565196.565219", "journal": "Journal of Computational Biology", "journal_title": "Handling Long Targets and Errors in Sequencing by Hybridization", "journal_authors": "Eran Halperin, Shay Halperin, Tzvika Hartman, Ron Shamir", "journal_issue_pages": "10(3-4): 483-497", "journal_year": "2003", "journal_doi": "10.1089/10665270360688138" }, { "author": "Samuel A. Heath, Franco P. Preparata, Joel Young", "title": "Sequencing by hybridization using direct and reverse cooperating spectra", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 186–193. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "186–193", "proceedings_doi": "10.1145/565196.565220", "journal": "Journal of Computational Biology", "journal_title": "Sequencing by Hybridization by Cooperating Direct and Reverse Spectra", "journal_authors": "Samuel A. Heath, Franco P. Preparata, Joel Young", "journal_issue_pages": "10(3-4): 499-508", "journal_year": "2003", "journal_doi": "10.1089/10665270360688147" }, { "author": "Uri Keich, Pavel A. Pevzner", "title": "Finding motifs in the twilight zone", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 195–204. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "195–204", "proceedings_doi": "10.1145/565196.565222", "journal": "Bioinformatics", "journal_title": "Finding motifs in the twilight zone", "journal_authors": "Uri Keich, Pavel A. Pevzner", "journal_issue_pages": "18(10): 1374-1381", "journal_year": "2002", "journal_doi": "10.1093/bioinformatics/18.10.1374" }, { "author": "Christopher James Langmead, Anthony K. Yan, C. Robertson McClung, Bruce Randall Donald", "title": "Phase-independent rhythmic analysis of genome-wide expression patterns", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 205–215. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "205–215", "proceedings_doi": "10.1145/565196.565223", "journal": "Journal of Computational Biology", "journal_title": "Phase-Independent Rhythmic Analysis of Genome-Wide Expression Patterns", "journal_authors": "Christopher J. Langmead, Anthony K. Yan, C. Robertson McClung, Bruce R. Donald", "journal_issue_pages": "10(3-4): 521-536", "journal_year": "2003", "journal_doi": "10.1089/10665270360688165" }, { "author": "Jia Li, Webb Miller", "title": "Significance Of inter-species matches when evolutionary rate varies", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 216–224. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "216–224", "proceedings_doi": "10.1145/565196.565224", "journal": "Journal of Computational Biology", "journal_title": "Significance of Interspecies Matches when Evolutionary Rate Varies", "journal_authors": "Jia Li, Webb Miller", "journal_issue_pages": "10(3-4): 537-554", "journal_year": "2003", "journal_doi": "10.1089/10665270360688174" }, { "author": "Li Liao, William Stafford Noble", "title": "Combining pairwise sequence similarity and support vector machines for remote protein homology detection", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 225–232. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "225–232", "proceedings_doi": "10.1145/565196.565225", "journal": "Journal of Computational Biology", "journal_title": "Combining Pairwise Sequence Similarity and Support Vector Machines for Detecting Remote Protein Evolutionary and Structural Relationships", "journal_authors": "Li Liao, William Stafford Noble", "journal_issue_pages": "10(6): 857-868", "journal_year": "2003", "journal_doi": "10.1089/106652703322756113" }, { "author": "Brendan M. Mumey, Brian W. Bailey, Edward A. Dratz", "title": "Revealing protein structures: a new method for mapping antibody epitopes", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 233–240. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "233–240", "proceedings_doi": "10.1145/565196.565226" }, { "author": "Jurg Ott, Josephine Hoh", "title": "Set association analysis of SNP case-control and microarray data", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 241–245. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "241–245", "proceedings_doi": "10.1145/565196.565227", "journal": "Journal of Computational Biology", "journal_title": "Set Association Analysis of SNP Case-Control and Microarray Data", "journal_authors": "Jürg Ott, Josephine Hoh", "journal_issue_pages": "10(3-4): 569-574", "journal_year": "2003", "journal_doi": "10.1089/10665270360688192" }, { "author": "Lior Pachter, Fumei Lam", "title": "Picking alignments from (steiner) trees", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 246–253. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "246–253", "proceedings_doi": "10.1145/565196.565228", "journal": "Journal of Computational Biology", "journal_title": "Picking Alignments from (Steiner) Trees", "journal_authors": "Fumei Lam, Marina Alexandersson, Lior Pachter", "journal_issue_pages": "10(3-4): 509-520", "journal_year": "2003", "journal_doi": "10.1089/10665270360688156" }, { "author": "Sam Rash, Dan Gusfield", "title": "String barcoding: uncovering optimal virus signatures", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 254–261. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "254–261", "proceedings_doi": "10.1145/565196.565229" }, { "author": "Eran Segal, Yoseph Barash, Itamar Simon, Nir Friedman, Daphne Koller", "title": "From promoter sequence to expression: a probabilistic framework", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 263–272. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "263–272", "proceedings_doi": "10.1145/565196.565231" }, { "author": "Eran Segal, Daphne Koller", "title": "Probabilistic hierarchical clustering for biological data", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 273–280. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "273–280", "proceedings_doi": "10.1145/565196.565232" }, { "author": "Adam C. Siepel", "title": "An algorithm to enumerate all sorting reversals", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 281–290. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "281–290", "proceedings_doi": "10.1145/565196.565233", "journal": "Journal of Computational Biology", "journal_title": "An Algorithm to Enumerate Sorting Reversals for Signed Permutations", "journal_authors": "Adam Siepel", "journal_issue_pages": "10(3-4): 575-597", "journal_year": "2003", "journal_doi": "10.1089/10665270360688200" }, { "author": "Saurabh Sinha", "title": "Discriminative motifs", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 291–298. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "291–298", "proceedings_doi": "10.1145/565196.565234", "journal": "Journal of Computational Biology", "journal_title": "Discriminative Motifs", "journal_authors": "Saurabh Sinha", "journal_issue_pages": "10(3-4): 599-615", "journal_year": "2003", "journal_doi": "10.1089/10665270360688219" }, { "author": "Miguel L. Teodoro, George N. Phillips, Lydia E. Kavraki", "title": "A dimensionality reduction approach to modeling protein flexibility", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 299–308. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "299–308", "proceedings_doi": "10.1145/565196.565235" }, { "author": "Andy Wildenberg, Steven Skiena, Pavel Sumazin", "title": "Deconvolving sequence variation in mixed DNA populations", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 311–320. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "311–320", "proceedings_doi": "10.1145/565196.565238", "journal": "Journal of Computational Biology", "journal_title": "Deconvolving Sequence Variation in Mixed DNA Populations", "journal_authors": "Andy Wildenberg, Steven Skiena, Pavel Sumazin", "journal_issue_pages": "10(3-4): 635-652", "journal_year": "2003", "journal_doi": "10.1089/10665270360688237" }, { "author": "Alexander Zien, Juliane Fluck, Ralf Zimmer, Thomas Lengauer", "title": "Microarrays: how many do you need?", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 2002, pp 321–330. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "321–330", "proceedings_doi": "10.1145/565196.565239", "journal": "Journal of Computational Biology", "journal_title": "Microarrays: How Many Do You Need?", "journal_authors": "Alexander Zien, Juliane Fluck, Ralf Zimmer, Thomas Lengauer", "journal_issue_pages": "10(3-4): 653-667", "journal_year": "2003", "journal_doi": "10.1089/10665270360688246" } ] }