As of July 21, 2006 (schedule subject to change) Thursday August 10 Main Auditorium (Hall D) Room E1 Room E2 Room A          (2nd Floor) Room B1 Room B2 Room B3 Hall G Hall C Hall F ISCB Committee Meetings 7:30 a.m. - 5:30 p.m. Registration - Hall G Registration & Posters Wireless Internet Available: 7:30 a.m. - 5:30 p.m.      8:30 a.m. - 4:00 p.m. Posters on Display - Hall G     8:45 a.m. - 9:00 a.m. Morning Welcome and  Introduction of Keynote 7 (Main Auditorium - Hall D)       9:00 a.m. - 9:50 a.m. Keynote 7: Rich Roberts – The need of Bioinformatics for experimental biologists (Main Auditorium - Hall D)   Exhibits Open - 9:45 a.m. - 4:00 p.m.       Proteomics Comparative Genomics PLoS Track Latin American BioInformatics Session Software Demos Software Demos Software Demos       9:50 a.m. - 10:15 a.m. Paper 56: Semi-Supervised LC/MS alignment for differential proteomics Bernd Fischer, Jonas Grossmann, Volker Roth, Wilhelm Gruissem, Sacha Baginsky, Joachim M. Buhmann Paper 57: Hairpins in a haystack: recognizing microrna precursors in comparative genomics data Jana Hertel, Peter F. Stadler PLoS Track 12: Splice Form Prediction using Machine Learning  Gunnar Rätsch Latin American BioInformatics Intro and Session Pathway Knowledge Management System (PKMS) UniProtKB and InterPro PANTHER Classification System: Protein subfamily curation, and application to expression data analysis         10:15 a.m. - 10:40 a.m. Paper 58: Annotating proteins by mining protein interaction networks Mustafa Kirac, Gultekin Ozsoyoglu, Jiong Yang Paper 59: Comparative genomics reveals unusually long motifs in mammalian genomes Neil Jones, Pavel Pevzner PLoS Track 13: The consequences of alternative splicing on biological pathways Melissa Cline          10:40 a.m. - 11:10 a.m. Coffee Break with Exhibitors - Hall C         11:10 a.m. - 11:35 a.m. Paper 60: A model-based approach for mining membrane protein crystallization trials Sitaram Asur, Srinivasan Parthasarathy, Pichai Raman, Matthew Eric Otey Paper 61: Relative contributions of structural designability and functional diversity in fixation of gene duplicates Boris Shakhnovich PLoS Track 14: Analysis of pleiotropy during C. elegans development and interpretation with interactome networks Hui Ge Latin American BioInformatics continued IntAct - an extensible open source framework for molecular interactions CEP: Conformational epitope prediction server           11:35 a.m. - 12:00 p.m. Paper 62: Peptide sequence tag-based blind identification of post-translational modification with point process model Chunmei Liu, Bo Yan, Yinglei Song, Ying Xu, Liming Cai Paper 63: Automatic clustering of orthologs and inparalogs shared by multiple proteomes Andrey Alexeyenko, Ivica Tamas, Gang Liu, Erik Sonnhammer PLoS Track 15: Integrative Analysis of NCI-60 Panel Reveals Candidate Key Genetic Regulators Affected by Genomic Alterations Doron Lipson         12:00 p.m. - 1:45 p.m. Lunch Reception & Late Breaking Poster Session with Authors - Hall G / Lunch with Exhibitors - Hall C Lunch with Posters and Exhibitors - 12:00 p.m. -1:45 p.m.       1:45 p.m. - 2:10 p.m. Paper 64: Rapid knot detection and application to protein structure prediction Firas Khatib, Matt Weirauch, Carol Rohl Paper 65: A Sequence-based filtering method for ncRNA identification and its application to searching for Riboswitch Elements Shaojie Zhang, Ilya Borovok, Yair Aharonowitz, Roded Sharan, Vineet Bafna PLoS Track 16: Integration of FRAP experiments and 3D simulations of diffusion in the lumen and surface of   Endoplasmic Reticulum Petros Koumoutsakos Latin American BioInformatics continued VisANT OncoTCapSwiss-Prot Protein Knowledgebase: ready for the future         2:10 p.m. - 2:35 p.m. Paper 66: A computational approach toward label-free protein quantification using predicted peptide detectability Haixu Tang, Randy Arnold, Pedro Alves, Zhiyin Xun, David Clemmer, Milos Novotny, James Reilly, Predrag Radivojac  Paper 67: Finding novel genes in bacterial communities isolated from the environment Lutz Krause, Naryttza N. Diaz, Daniela Bartels, Robert A. Edwards, Alfred Pühler, Forest Rohwer, Folker Meyer, Jens Stoye PLoS Track 17: Comparison of Alternative Splicing Structures in Eukaryotes, Michael Sammeth         2:35 p.m. - 3:00 p.m. PLoS Track 18: Comparative Genomics of GPCRs: ET-Guided Annotation and Re-design of Aminergic Receptors Olivier Lichtarge PLoS Track 19: DOE Hanford Site Metagenome: A multiple extreme environment that hosts wide diversity of microbes and radiotolerant bacteria Mustafa Syed and Natalia Maltsev PLoS Track 20: Probabilistic Genetic Networks analysis of three Plasmodium falciparum strains from dynamical expression signals Hernando del Portillo and Roberto Cesar Junior Barrera           3:00 p.m. - 3:25 p.m. PLoS Track 21: Recursive Top-Down Quantum Clustering of Biological Data Michal Linial PLoS Track 22: Simplified Models of Evolution lead to Improved Prediction of Functional Linkage from Correlated Gain and Loss of Genes among Eukaryotes Daniel Barker PLoS Track 23: A Probabilistic Functional Gene Network of Worm: An Extensive and Accurate Systemic Model of a Multi-cellular Organism Insuk Lee   Coffee with Exhibitors 3:25 p.m. - 3:55 p.m.   ISCB Finance & Business Development - Room B6 6:00 p.m. - 7:00 p.m. 3:25 p.m. - 3:55 p.m. Coffee Break with Exhibitors - Hall C     3:55 p.m. - 4:00 p.m. Introduction of Keynote 8 (Main Auditorium - Hall D)       4:00 p.m. - 4:50 p.m. Keynote 8: Sr. Scientist Accomplishment Award: Michael Waterman (Main Auditorium - Hall D)         4:50 p.m. - 5:15 p.m. Conference Closing