11. ISMB 2003: Brisbane, Australia (Supplement of Bioinformatics)

@proceedings{DBLP:conf/ismb/2003,
  title     = {Proceedings of the Eleventh International Conference on Intelligent
               Systems for Molecular Biology, June 29 - July 3, 2003, Brisbane,
               Australia},
  booktitle = {ISMB (Supplement of Bioinformatics)},
  year      = {2003},
  bibsource = {DBLP, http://dblp.uni-trier.de}
}

Editorial

• Gene Myers: ISMB 2003 - Editorial. 1-2
• ISMB 2003 Organization. 3-6

Original Papers

• Lars Arvestad, Ann-Charlotte Berglund, Jens Lagergren, Bengt Sennblad:
  Bayesian gene/species tree reconciliation and orthology analysis using MCMC. 7-15
  
• Niko Beerenwinkel, Thomas Lengauer, Martin Däumer, Rolf Kaiser, Hauke Walter, Klaus Korn, Daniel Hoffmann, Joachim Selbig:
  Methods for optimizing antiviral combination therapies. 16-25
  
• Asa Ben-Hur, Douglas L. Brutlag:
  Remote homology detection: a motif based approach. 26-33
  
• Joseph Bockhorst, Yu Qiu, Jeremy D. Glasner, Mingzhu Liu, Frederick R. Blattner, Mark Craven:
  Predicting bacterial transcription units using sequence and expression data. 34-43
  
• Sebastian Böcker:
  SNP and mutation discovery using base-specific cleavage and MALDI-TOF mass spectrometry. 44-53
  
• Michael Brudno, Sanket Malde, Alexander Poliakov, Chuong B. Do, Olivier Couronne, Inna Dubchak, Serafim Batzoglou:
  Glocal alignment: finding rearrangements during alignment. 54-62
  
• Richard M. Bruskiewich, Alexander B. Cosico, William Eusebio, Arllet M. Portugal, Luralyn M. Ramos, Ma. Teresa Reyes, May Ann B. Sallan, Victor Jun M. Ulat, Xusheng Wang, Kenneth L. McNally, Ruaraidh Sackville Hamilton, Christopher Graham McLaren:
  Linking genotype to phenotype: the International Rice Information System (IRIS). 63-65
  
• Liming Cai, Russell L. Malmberg, Yunzhou Wu:
  Stochastic modeling of RNA pseudoknotted structures: a grammatical approach. 66-73
  
• Peter P. Calabrese, Sugata Chakravarty, Todd J. Vision:
  Fast identification and statistical evaluation of segmental homologies in comparative maps. 74-80
  
• Orhan Çamoglu, Tamer Kahveci, Ambuj K. Singh:
  PSI: indexing protein structures for fast similarity search. 81-83
  
• Jung Kyoon Choi, Ungsik Yu, Sangsoo Kim, Ook Joon Yoo:
  Combining multiple microarray studies and modeling interstudy variation. 84-90
  
• Pavel B. Dobrokhotov, Cyril Goutte, Anne-Lise Veuthey, Éric Gaussier:
  Combining NLP and probabilistic categorisation for document and term selection for Swiss-Prot medical annotation. 91-94
  
• Oranit Dror, Hadar Benyamini, Ruth Nussinov, Haim J. Wolfson:
  MASS: multiple structural alignment by secondary structures. 95-104
  
• François Enault, Karsten Suhre, Chantal Abergel, Olivier Poirot, Jean-Michel Claverie:
  Annotation of bacterial genomes using improved phylogenomic profiles. 105-107
  
• Irit Gat-Viks, Ron Shamir:
  Chain functions and scoring functions in genetic networks. 108-117
  
• Richard E. Green, Benjamin P. Lewis, R. Tyler Hillman, Marco Blanchette, Liana F. Lareau, Aaron T. Garnett, Donald C. Rio, Steven E. Brenner:
  Widespread predicted nonsense-mediated mRNA decay of alternatively-spliced transcripts of human normal and disease genes. 118-121
  
• Eran Halperin, Jeremy Buhler, Richard M. Karp, Robert Krauthgamer, Ben Westover:
  Detecting protein sequence conservation via metric embeddings. 122-129
  
• Andreas Heger, Liisa Holm:
  Sensitive pattern discovery with 'fuzzy' alignments of distantly related proteins. 130-137
  
• Maureen Heymans, Ambuj K. Singh:
  Deriving phylogenetic trees from the similarity analysis of metabolic pathways. 138-146
  
• I. Holmes:
  Using guide trees to construct multiple-sequence evolutionary HMMs. 147-157
  
• Yuval Inbar, Hadar Benyamini, Ruth Nussinov, Haim J. Wolfson:
  Protein structure prediction via combinatorial assembly of sub-structural units. 158-168
  
• Öjvind Johansson, Wynand Alkema, Wyeth W. Wasserman, Jens Lagergren:
  Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm. 169-176
  
• Byong-Hyon Ju, Kyungsook Han:
  Complexity management in visualizing protein interaction networks. 177-179
  
• Jin-Dong Kim, Tomoko Ohta, Yuka Tateisi, Jun-ichi Tsujii:
  GENIA corpus - a semantically annotated corpus for bio-textmining. 180-182
  
• Oliver D. King, Jeffrey C. Lee, Aimée M. Dudley, Daniel M. Janse, George M. Church, Frederick P. Roth:
  Predicting phenotype from patterns of annotation. 183-189
  
• Jean-François Lefebvre, Nadia El-Mabrouk, Elisabeth R. M. Tillier, David Sankoff:
  Detection and validation of single gene inversions. 190-196
  
• Stanley Letovsky, Simon Kasif:
  Predicting protein function from protein/protein interaction data: a probabilistic approach. 197-204
  
• Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
  An ENSEMBLE machine learning approach for the prediction of all-alpha membrane proteins. 205-211
  
• Thomas M. Oinn:
  Talisman - rapid application development for the grid. 212-214
  
• Orla O'Sullivan, Mark Zehnder, Desmond G. Higgins, Philipp Bucher, Aurélien Grosdidier, Cédric Notredame:
  APDB: a novel measure for benchmarking sequence alignment methods without reference alignments. 215-221
  
• Naomi Rosen, Vered Chalifa-Caspi, Orit Shmueli, Avital Adato, Michal Lapidot, Julie Stampnitzky, Marilyn Safran, Doron Lancet:
  GeneLoc: exon-based integration of human genome maps. 222-224
  
• Anthony Rowe, Dimitrios Kalaitzopoulos, Michelle Osmond, Moustafa Ghanem, Yike Guo:
  The discovery net system for high throughput bioinformatics. 225-231
  
• Yasubumi Sakakibara:
  Pair hidden Markov models on tree structures. 232-240
  
• Maria Samsonova, Andrei Pisarev, Maxim Blagov:
  Processing of natural language queries to a relational database. 241-249
  
• Victor Santander, Miguel Angel Portales, Francisco Melo:
  A tool to assist the study of specific features at protein binding sites. 250-251
  
• Joanna M. Sasin, Michal A. Kurowski, Janusz M. Bujnicki:
  STRUCLA: a WWW meta-server for protein structure comparison and evolutionary classification. 252-254
  
• Alexander Schliep, Alexander Schönhuth, Christine Steinhoff:
  Using hidden Markov models to analyze gene expression time course data. 255-263
  
• Eran Segal, Haidong Wang, Daphne Koller:
  Discovering molecular pathways from protein interaction and gene expression data. 264-272
  
• Eran Segal, R. Yelensky, Daphne Koller:
  Genome-wide discovery of transcriptional modules from DNA sequence and gene expression. 273-282
  
• Roded Sharan, Ivan Ovcharenko, Asa Ben-Hur, Richard M. Karp:
  CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments. 283-291
  
• Saurabh Sinha, Erik van Nimwegen, Eric D. Siggia:
  A probabilistic method to detect regulatory modules. 292-301
  
• Robert D. Stevens, Alan J. Robinson, Carole A. Goble:
  myGrid: personalised bioinformatics on the information grid. 302-304
  
• Jijun Tang, Bernard M. E. Moret:
  Scaling up accurate phylogenetic reconstruction from gene-order data. 305-312
  
• Tatiana Tatarinova, Vyacheslav Brover, Maxim Troukhan, Nickolai Alexandrov:
  Skew in CG content near the transcription start site in Arabidopsis thaliana. 313-314
  
• Hui Wang, Earl Hubbell, Jing-Shan Hu, Gangwu Mei, Melissa S. Cline, Gang Lu, Tyson Clark, Michael A. Siani-Rose, Manuel Ares, David Kulp, David Haussler:
  Gene structure-based splice variant deconvolution using a microarry platform. 315-322
  
• Yoshihiro Yamanishi, Jean-Philippe Vert, A. Nakaya, Minoru Kanehisa:
  Extraction of correlated gene clusters from multiple genomic data by generalized kernel canonical correlation analysis. 323-330
  
• Alexander S. Yeh, Lynette Hirschman, Alexander A. Morgan:
  Evaluation of text data mining for database curation: lessons learned from the KDD Challenge Cup. 331-339
  
• Hong Yu, Eugene Agichtein:
  Extracting synonymous gene and protein terms from biological literature. 340-349
  

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