Pacific Symposium on Biocomputing 2007 : Maui, Hawaii, 3-7 January 2007 / edited by Russ B. Altman [and others].

Includes bibliographical references.

Print version record.

Preface -- Protein interactions and diseases. Session introduction / Maricel Kann [and others]. Graph kernels for disease outcome prediction from protein-protein interaction networks / Karsten M. Borgwardt [and others]. Chalkboard: ontology-based pathway modeling and qualitative inference of disease mechanisms / Daniel L. Cook, Jesse C. Wiley, and John H. Gennari. Mining gene-disease relationships from biomedical literature weighting protein-protein interactions and connectivity measures / Graciela Gonzalez [and others]. Predicting structure and dynamics of loosely-ordered protein complexes: influenza hemagglutinin fusion peptide / Peter M. Kasson and Vijay S. Pande. Protein interactions and disease phenotypes in the ABC transporter superfamily / Libusha Kelly, Rachel Karchin, and Andrej Sali. LTHREADER: prediction of Ligand-receptor interactions using localized threading / Vinay Pulim, Jadwiga Bienkowska, and Bonnie Berger. Discovery of protein interaction networks shared by diseases / Lee Sam [and others]. An iterative algorithm for metabolic network-based drug target identification / Padmavati Sridhar, Tamer Kahveci, and Sanjay Ranka. Transcriptional interactions during smallpox infection and identification of early infection biomarkers / Willy A. Valdivia-Granda, Maricel G. Kann, and Jose Malaga -- Computational approaches to metabolomics. Session introduction / David S. Wishart and Russell Greiner. Leveraging latent information in NMR spectra for robust predictive models / David Chang, Aalim Weljie, and Jack Newton. Bioinformatics data profiling tools: a prelude to metabolic profiling / Natarajan Ganesan, Bala Kalyanasundaram, and Mahe Velauthapllai. Comparative QSAR analysis of bacterial, fungal, plant and human metabolites / Emre Karakoc, S. Cenk Sahinalp, and Artem Cherkasov. BioSpider: a web server for automating metabolome annotations / Craig Knox [and others]. New bioinformatics resources for metabolomics / John L. Markley [and others]. Setup X -- a public study design database for metabolomic projects / Martin Scholz and Oliver Fiehn. Comparative metabolomics of breast cancer / Chen Yang [and others]. Metabolic flux profiling of reaction modules in liver drug transformation / Jeongah Yoon and Kyongbum Lee -- New frontiers in biomedical text mining. Session introduction / Pierre Zweigenbaum [and others]. Extracting semantic predications from medline citations for pharmacogenomics / Caroline B. Ahlers [and others]. Annotating genes using textual patterns / Ali Cakmak and Gultekin Ozsoyoglu. A fault model for ontology mapping, alignment, and linking systems / Helen L. Johnson, K. Bretonnel Cohen, and Lawrence Hunter. Integrating natural language processing with flybase curation / Nikiforos Karamanis Y. [and others]. A stacked graphical model for associating sub-images with sub-captions / Zhenzhen Kou, William W. Cohen, and Robert F. Murphy. GeneRIF quality assurance as summary revision / Zhiyong Lu, K. Bretonnel Cohen, and Lawrence Hunter. Evaluating the automatic mapping of human gene and protein mentions to unique identifiers / Alexander A. Morgan [and others]. Multiple approaches to fine-grained indexing of the biomedical literature / Aurelie Neveol [and others]. Mining patents using molecular similarity search / James Rhodes [and others]. Discovering implicit associations between genes and hereditary diseases / Kazuhiro Seki and Javed Mostafa. A cognitive evaluation of four online search engines for answering definitional questions posed by physicians / Hong Yu and David Kaufman -- Biodiversity informatics: managing knowledge beyond humans and model organisms. Session introduction / Indra Neil Sarkar. Biomediator data integration and inference for functional annotation of anonymous sequences / Eithon Cadag [and others]. Absent sequences: nullomers and primes / Greg Hampikian and Tim Andersen. An anatomical ontology for amphibians / Anne M. Maglia [and others]. Recommending pathway genes using a compendium of clustering solutions / David M. Ng, Marcos H. Woehrmann, and Joshua M. Stuart. Semi-automated XML markup of biosystematic legacy literature with the Goldengate editor / Guido Sautter, Klemens Böhm, and Donat Agosti -- Computational proteomics: high-throughput analysis for systems biology. Session introduction / William Cannon and Bobbie-Jo Webb-Robertson. Advancement in protein inference from shotgun proteomics using peptide detectability / Pedro Alves [and others]. Mining tandem mass spectral data to develop a more accurate mass error model for peptide identification / Yan Fu [and others]. Assessing and combining reliability of protein interaction sources / Sonia Leach [and others]. Probabilistic modeling of systematic errors in two-hybrid experiments / David Sontag, Rohit Singh, and Bonnie Berger. Prospective exploration of biochemical tissue composition via imaging mass spectrometry guided by principal component analysis / Raf Van de Plas [and others] -- DNA-protein interactions: integrating structure, sequence, and function. Session introduction / Martha L. Bulyk [and others]. Discovering motifs with transcription factor domain knowledge / Henry C.M. Leung, Francis Y.L. Chin, and Bethany M.Y. Chan. Ab initio prediction of transcription factor binding sites / L. Angela Liu and Joel S. Bader. Comparative pathway annotation with protein-DNA interaction and operon information via graph tree decomposition / Jizhen Zhao, Dongsheng Che, and Liming Cai.

English.

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