{ "title": "2nd Annual International Conference on Research in Computational Molecular Biology", "location": "New York, NY, United States", "dates": "March 22 - 25, 1998", "pc_chair": "Pavel Pevzner", "organization_committee": "Gary Benson (chair), Craig Benham, Martin Farach, Eugene Kolker", "keynotes": "Ruben Abagyan, Charles Cantor, David Cox, Ron Davis, Klaus Gubernator, Joshua Lederberg, Michael Levitt, David Schwartz, John Yates", "website": "https://recomb.org/recomb1998", "papers": [ { "author": "Pankaj Agarwal, Vineet Bafna", "title": "Detecting non-adjoining correlations with signals in DNA", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 2–8. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "2–8", "proceedings_doi": "10.1145/279069.279076" }, { "author": "Amir Ben-Dor, Benny Chor, Dan Graur, Ron Ophir, Dan Pelleg", "title": "From four-taxon trees to phylogenies (preliminary report): the case of mammalian evolution", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 9–19. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "9–19", "proceedings_doi": "10.1145/279069.279078", "journal": "Journal of Computational Biology", "journal_title": "Constructing Phylogenies from Quartets: Elucidation of Eutherian Superordinal Relationships", "journal_authors": "Amir Ben‐Dor, Benny Chor, Dan Graur, Ron Ophir, Dan Pelleg", "journal_issue_pages": "5(3): 377-390", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.377" }, { "author": "Gary Benson", "title": "An algorithm for finding tandem repeats of unspecified pattern size", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 20–29. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "20–29", "proceedings_doi": "10.1145/279069.279079" }, { "author": "Bonnie Berger, Tom Leighton", "title": "Protein folding in the hydrophobic-hydrophilic (HP) is NP-complete", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 30–39. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "30–39", "proceedings_doi": "10.1145/279069.279080", "journal": "Journal of Computational Biology", "journal_title": "Protein Folding in the Hydrophobic-Hydrophilic (HP) Model is NP-Complete", "journal_authors": "Bonnie Berger, Tom Leighton", "journal_issue_pages": "5(1): 27-40", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.27" }, { "author": "Maria Bonet, Mike Steel, Tandy Warnow, Shibu Yooseph", "title": "Better methods for solving parsimony and compatibility", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 40–49. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "40–49", "proceedings_doi": "10.1145/279069.279081", "journal": "Journal of Computational Biology", "journal_title": "Better Methods for Solving Parsimony and Compatibility", "journal_authors": "Maria Bonet, Mike Steel, Tandy Warnow, Shibu Yooseph", "journal_issue_pages": "5(3): 391-407", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.391" }, { "author": "Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman", "title": "The hierarchical organization of molecular structure computations", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 51–59. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "51–59", "proceedings_doi": "10.1145/279069.279086", "journal": "Journal of Computational Biology", "journal_title": "Hierarchical Organization of Molecular Structure Computations", "journal_authors": "Cheng Che Chen, Jaswinder Pal Singh, Russ B. Altman", "journal_issue_pages": "5(3): 409-422", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.409" }, { "author": "Pierluigi Crescenzi, Deborah Goldman, Christos Papadimitriou, Antonio Piccolboni, Mihalis Yannakakis", "title": "On the complexity of protein folding", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 61–62. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "61–62", "proceedings_doi": "10.1145/279069.279089", "journal": "Journal of Computational Biology", "journal_title": "On the Complexity of Protein Folding", "journal_authors": "Pierluigi Crescenzi, Deborah Goldman, Christos Papadimitriou, Antonio Piccolboni, Mihalis Yannakakis", "journal_issue_pages": "5(3): 423-465", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.423" }, { "author": "Dan Fasulo, Tao Jiang, Richard M. Karp, Nitin Sharma", "title": "Constructing maps using the span and inclusion relations", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 64–73. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "64–73", "proceedings_doi": "10.1145/279069.279090" }, { "author": "Alexei V. Finkelstein, Azat Ya. Badretdinov", "title": "How fast a protein chain can fold to its most stable structure?", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 74–78. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "74–78", "proceedings_doi": "10.1145/279069.279091" }, { "author": "Richard M. Fye, Craig J. Benhan", "title": "A formally exact method to numerically analyze local denaturation in superhelical DNA", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 79–84. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "79–84", "proceedings_doi": "10.1145/279069.279093", "journal": "Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics", "journal_title": "Exact method for numerically analyzing a model of local denaturation in superhelically stressed DNA", "journal_authors": "Richard M. Fye, Craig J. Benhan", "journal_issue_pages": "59(3): 3408-3426", "journal_year": "1999", "journal_doi": "10.1103/physreve.59.3408" }, { "author": "Israel Gelfand, Alexander Kister, Casimir Kulikowski, Ognyan Stoyanov", "title": "Algorithmic determination of core positions in the VL and VH domains of immunoglobulin molecules", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 85–93. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "85–93", "proceedings_doi": "10.1145/279069.279095", "journal": "Journal of Computational Biology", "journal_title": "Algorithmic Determination of Core Positions in the VL and VH Domains of Immunoglobulin Molecules", "journal_authors": "I. Gelfand, Alexander Kister, Casimir A. Kulikowski, Ognyan Stoyanov", "journal_issue_pages": "5(3): 467-477", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.467" }, { "author": "William Noble Grundy", "title": "Family-based homology detection via pairwise sequence comparison", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 94–100. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "94–100", "proceedings_doi": "10.1145/279069.279098", "journal": "Journal of Computational Biology", "journal_title": "Homology Detection via Family Pairwise Search", "journal_authors": "William Noble Grundy", "journal_issue_pages": "5(3): 479-491", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.479" }, { "author": "Ian Holmes, Richard Durbin", "title": "Dynamic programming alignment accuracy", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 102–108. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "102–108", "proceedings_doi": "10.1145/279069.279102", "journal": "Journal of Computational Biology", "journal_title": "Dynamic Programming Alignment Accuracy", "journal_authors": "Ian Holmes, Richard Durbin", "journal_issue_pages": "5(3): 493-504", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.493" }, { "author": "Terence Hwa, Michael Lässig", "title": "Optimal detection of sequence similarity by local alignment", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 109–116. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "109–116", "proceedings_doi": "10.1145/279069.279103", "preprint_id": "arXiv:cond-mat/9712081", "preprint_doi": "10.48550/arXiv.cond-mat/9712081" }, { "author": "Richard M. Karp, Ron Shamir", "title": "Algorithms for optical mapping", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 117–124. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "117–124", "proceedings_doi": "10.1145/279069.279104", "journal": "Journal of Computational Biology", "journal_title": "Algorithms for Optical Mapping", "journal_authors": "Richard M. Karp, Ron Shamir", "journal_issue_pages": "7(1-2): 303-316", "journal_year": "2000", "journal_doi": "10.1089/10665270050081540" }, { "author": "Paul E. Kearney", "title": "The ordinal quartet method", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 125–134. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "125–134", "proceedings_doi": "10.1145/279069.279105" }, { "author": "Eugene V. Koonin, Roman L. Tatusov, Michael Y. Galperin, Michael N. Rosanov", "title": "Genome analysis using clusters of orthologous groups (COGs)", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 135–139. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "135–139", "proceedings_doi": "10.1145/279069.279106" }, { "author": "Jeffrey M. Koshi, David P. Mindell, Richard A. Goldstein", "title": "Beyond mutation matrices: physical-chemistry based evolutionary models", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 140–145. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "140–145", "proceedings_doi": "10.1145/279069.279107" }, { "author": "Jae K. Lee, Vlado Dančík, Michael S. Waterman", "title": "Estimation for restriction sites observed by optical mapping using reversible-jump Markov chain Monte Carlo", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 147–152. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "147–152", "proceedings_doi": "10.1145/279069.279108", "journal": "Journal of Computational Biology", "journal_title": "Estimation for Restriction Sites Observed by Optical Mapping Using Reversible-Jump Markov Chain Monte Carlo", "journal_authors": "Jae K Lee, Vlado Dančík, Michael S. Waterman", "journal_issue_pages": "5(3): 505-515", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.505" }, { "author": "Hans-Peter Lenhof, Knut Reinert, Martin Vingron", "title": "A polyhedral approach to RNA sequence structure alignment", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 153–162. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "153–162", "proceedings_doi": "10.1145/279069.279109", "journal": "Journal of Computational Biology", "journal_title": "A Polyhedral Approach to RNA Sequence Structure Alignment", "journal_authors": "Hans‐Peter Lenhof, Knut Reinert, Martin Vingron", "journal_issue_pages": "5(3): 153-162", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.517" }, { "author": "Arthur M. Lesk", "title": "Assessment of ab initio protein structure prediction", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 163–171. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "163–171", "proceedings_doi": "10.1145/279069.279110" }, { "author": "Rongxiang Liu, Tom W. Blackwell, David U. States", "title": "A structure based similarity measure for nucleic acid sequence comparison", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 173–181. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "173–181", "proceedings_doi": "10.1145/279069.279112" }, { "author": "Bin Ma, Ming Li, Louxin Zhang", "title": "On reconstructing species trees from gene trees in term of duplications and losses", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 182–191. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "182–191", "proceedings_doi": "10.1145/279069.279113" }, { "author": "Laxmi Parida, Bud Mishra", "title": "Partitioning K clones: hardness results and practical algorithms for the K-populations problem", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 192–201. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "192–201", "proceedings_doi": "10.1145/279069.279114", "journal": "Discrete Applied Mathematics", "journal_title": "Partitioning single-molecule maps into multiple populations: algorithms and probabilistic analysis", "journal_authors": "Laxmi Parida, Bud Mishra", "journal_issue_pages": "104(1-3): 203-227", "journal_year": "2000", "journal_doi": "10.1016/s0166-218x(00)00191-8" }, { "author": "David G. Politte, David R. Maffitt, David J. States", "title": "Estimation of allele frequencies from color-multiplexed electropherograms", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 202–206. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "202–206", "proceedings_doi": "10.1145/279069.279115" }, { "author": "Mireille Régnier", "title": "A unified approach to word statistics", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 207–213. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "207–213", "proceedings_doi": "10.1145/279069.279116", "journal": "Discrete Applied Mathematics", "journal_title": "A unified approach to word occurrence probabilities", "journal_authors": "Mireille Régnier", "journal_issue_pages": "104(1-3): 259-280", "journal_year": "2000", "journal_doi": "10.1016/s0166-218x(00)00195-5" }, { "author": "Boris A. Reva, Alexei V. Finkelstein, Jeffrey Skolnick", "title": "A self-consistent field optimization approach to build energetically and geometrically correct lattice models of proteins", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 214–220. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "214–220", "proceedings_doi": "10.1145/279069.279117" }, { "author": "Isidore Rigoutsos, Aris Floratos", "title": "Motif discovery without alignment or enumeration", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 221–227. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "221–227", "proceedings_doi": "10.1145/279069.279118" }, { "author": "Emily Rocke, Martin Tompa", "title": "An algorithm for finding novel gapped motifs in DNA sequences", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 228–233. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "228–233", "proceedings_doi": "10.1145/279069.279119" }, { "author": "Marie-France Sagot, Eugene W. Myers", "title": "Identifying satellites in nucleic acid sequences", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 234–242. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "234–242", "proceedings_doi": "10.1145/279069.279120", "journal": "Journal of Computational Biology", "journal_title": "Identifying Satellites and Periodic Repetitions in Biological Sequences", "journal_authors": "Marie‐France Sagot, Eugene W. Myers", "journal_issue_pages": "5(3): 539-553", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.539" }, { "author": "David Sankoff, Mathieu Blanchette", "title": "Multiple genome rearrangements", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 243–247. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "243–247", "proceedings_doi": "10.1145/279069.279122" }, { "author": "Fengzhu Sun", "title": "Modeling DNA shuffling", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 251–257. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "251–257", "proceedings_doi": "10.1145/279069.279126", "journal": "Journal of Computational Biology", "journal_title": "Modeling DNA Shuffling", "journal_authors": "Fengzhu Sun", "journal_issue_pages": "6(1): 77-90", "journal_year": "1999", "journal_doi": "10.1089/cmb.1999.6.77" }, { "author": "Shamil R. Sunyaev, Igor V. Rodchnkov, Frank Eisenhaber, Eugene N. Kuznetsov", "title": "Analysis of the position dependent amino acid probabilities and its application to the search for remote homologues", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 258–265. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "258–265", "proceedings_doi": "10.1145/279069.279127" }, { "author": "Alexander Vologodskii", "title": "Maxwell demon and topology simplification by type II topoisomerases", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 266–269. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "266–269", "proceedings_doi": "10.1145/279069.279129" }, { "author": "Wynn L. Walker, David S. Goodsell, Elliot M. Landaw", "title": "The theoretical limits of DNA sequence discrimination of polyamides", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 270–275. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "270–275", "proceedings_doi": "10.1145/279069.279130", "journal": "Proceedings of the National Academy of Sciences", "journal_title": "The theoretical limits of DNA sequence discrimination by linked polyamides", "journal_authors": "Wynn L. Walker, Elliot M. Landaw, Richard E. Dickerson, David S. Goodsell", "journal_issue_pages": "95(8): 4315-4320", "journal_year": "1998", "journal_doi": "10.1073/pnas.95.8.4315" }, { "author": "Thomas D. Wu, Trevor Hastie, Scott C. Schmidler, Douglas L. Brutlag", "title": "Regression analysis of multiple protein structures", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 276–284. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "276–284", "proceedings_doi": "10.1145/279069.279132", "journal": "Journal of Computational Biology", "journal_title": "Regression Analysis of Multiple Protein Structures", "journal_authors": "Thomas D. Wu, Scott C. Schmidler, Trevor Hastie, Douglas L. Brutlag", "journal_issue_pages": "5(3): 585-595", "journal_year": "1998", "journal_doi": "10.1089/cmb.1998.5.585" }, { "author": "Ying Xu, Dong Xu, Edward C. Uberbacher", "title": "A new method for modeling and solving the protein fold recognition problem", "proceedings_name": "Research in Computational Molecular Biology. RECOMB 1998, pp 285–292. Association for Computing Machinery, New York, NY, USA.", "proceedings_pages": "285–292", "proceedings_doi": "10.1145/279069.279134" } ] }