| Description |
1 online resource (xviii, 663 pages) : illustrations (some color) |
| Contents |
Beyond gap models: reconstructing alignments and phylogenies under genomic-scale events. Session introduction / Michael Brudno [and others] FRESCO: flexible alignment with rectangle scoring schemes / A.V Dalca and M. Brudno. Local reliability measures from sets of co-optimal multiple sequence alignments / Giddy Landan and Dan Graur. The effect of the guide tree on multiple sequence alignments and subsequent phylogenetic analysis / S. Nelesen. Sensitivity analysis for reversal distance and breakpoint reuse in genome rearrangements / Amit U. Sinha and Jaroslaw Meller -- Computational challenges in the study of small regulatory RNAs. Session introduction / Doron Betel, Christina Leslie, and Nikolaus Rajewsky. Comparing sequence and expression for predicting microRNA targets using GenMiR3 / J.C. Huang, B.J. Frey, and Q.D. Morris. Analysis of microRNA-target interactions by a target structure based hybridization model / Dang Long, Chi Yu Chan, and Ye Ding. A probabilistic model for small RNA flowgram matching / Vladimir Vacic [and others] -- Computational tools for next-generation sequencing applications. Session introduction / Francisco M. De La Vega, Gabor T. Marth, and Granger Sutton. TRELLIS+: an effective approach for indexing genome-scale sequences using suffix trees / Benjarath Phoophakdee and Mohammed J. Zaki. Pash 2.0: scaleable sequence anchoring for next-generation sequencing technologies / Cristian Coalfa and Aleksandar Milosavljevic. Population sequencing using short reads: HIV as a case study / Vladimir Jojic, Tomer Hertz, and Nebojsa Jojic. Analysis of large-scale sequencing of small RNAs / A.J. Olson -- Knowledge-driven analysis and data integration for high-throughput biological data. Session introduction / Michael E Ochs, John Quackenbush, and Ramana Davuluri. SGDI: system for genomic data integration / V.J. Carey. Annotating pathways of interaction networks / Jayesh Pandey [and others] Integrating microarray and proteomics data to predict the response of cetuximab in patients with rectal cancer / Anneleen Daeman [and others] A Bayesian framework for data and hypotheses driven fusion of high throughput data: application to mouse organogenesis / Mudhuchhanda Bhattacharjee, Colin Pritchard, and Peter Nelson. Gathering the gold dust: methods for assessing the aggregate impact of small effect genes in genomic scans / Michael A. Province and Ingrid B. Borecki. Multi-scale correlations in continuous genomic data / R.E. Thurman, W S. Noble, and J.A. Stamatoyannopoulos. Analysis of MALDI-TOF spectrometry data for detection of glycan biomarkers / Habtom W Ressom [and others] -- Molecular bioinformatics for disease: protein interactions and phenomics. Session introduction / Yves A. Lussiel [and others] System-wide peripheral biomarker discovery using information theory / Gil Alterovitz [and others] Novel integration of hospital electronic medical records and gene expression measurements to identify genetic markers of maturation / David P. Chen [and others] Networking pathways unveils association between obesity and non-insulin dependent diabetes mellitus / Haiyan Hu and Xiaoman Li. Extracting gene expression profiles common to colon and pancreatic adenocarcinoma using simultaneous nonnegative matrix factorization / Liviu Badea. Integration of microarray and textual data improves the prognosis prediction of breast, lung and ovarian cancer patients / 0. Gevaert, S. Van Vooren, and B. De Moor. Mining metabolic networks for optimal drug targets / Padmavati Sridhar [and others] Global alignment of multiple protein interaction networks / Rohit Singh, Jinbo Xu, and Bonnie Berger. Predicting DNA methylation susceptibility using CpG flanking sequences / S. Kim [and others] -- Multiscale modeling and simulation session: from molecules to cells to organisms? Session introduction / Jung-Chi Liao [and others] Combining molecular dynamics and machine learning to improve protein function recognition / Dariya S. Glazer, Randall J. Radmel, and Russ B. Altman. Prediction of structure of G-protein coupled receptors and of bound ligands with applications for drug design / Youyong Li and William A. Goddard III. Markov chain models of coupled intracellular calcium channels: Kronecker structured representations and benchmark stationary distribution calculations / Hilary DeRemigio [and others] Spatially-compressed cardiac myofilament models generate hysteresis that is not found in real muscle / John Jeremy Rice [and others] Modeling ventricular interaction: a multiscale approach from sarcomere mechanics to cardiovascular system hemodynamics / Joost Lumens [and others] Sub-micrometer anatomical models of the sarcolemma of cardiac myocytes based on confocal imaging / Frank B. Sachse [and others] Efficient multiscale simulation of circadian rhythms using automated phase macromodelling techniques / Shatam Agarwal and Jaijeet Roychowdhury. Integration of multi-scale biosimulation models via light-weight semantics / John H. Gennari [and others] Comparisons of protein family dynamics / A.J. Ruder and Joshua T. Harrell. Protein-nucleic acid interactions: interactions: integrating structure, sequence, and function. Session introduction / Martha L. Bulyk [and others] Functional trends in structural classes of the DNA binding domains on regulatory transcription factors / Rachel Patton McCord and Martha L. Bulyk. Using DNA duplex stability information for transcription factor binding site discovery / Raluca Gordân and Alexander J. Hartemink. A parametric joint model of DNA-protein binding, gene expression and DNA sequence data to detect target genes of a transcription factor / Wei Pan, Peng Wei, and Arkady Khodursky. An analysis of information content present in protein-DNA interactions / Chris KaufSman and George Karypis. Use of an evolutionary model to provide evidence for a wide heterogeneity of required affinities between transcription factors and their binding sites in yeast / Richard W Lusk and Michael B. Eisen. Striking similarities in diverse telomerase proteins revealed by combining structure prediction and machine learning approaches / Jae-Hyung Lee [and others] -- Tiling microarray data analysis methods and algorithms. Session introduction / Srinka Ghosh and Antonio Piccolboni. CMARRT: a tool for the analysis of ChIP-chip data from tiling arrays by incorporating the correlation structure / Pei Fen Kuan, Hyonho Chun, and Sűndűz Keleş. Transcript normalization and segmentation of tiling array data / Georg Zellel [and others] GSE: a comprehensive database system for the representation, retrieval, and analysis of microarray data / Timothy Danford, Alex Rolfe, and David Gifford -- Translating biology: text mining tools that work. Session introduction / K. Bretonnel Cohen [and others] Assisted curation: does text mining really help? / Beatrice Alex [and others] Evidence for showing geneprotein name suggestions in bioscience literature search interfaces/ Anna Divoli, Marti A. Hearst, and Michael A. Wooldridge. Enabling integrative genomic analysis of high-impact human diseases through text mining / Joel Dudley and Atul J. Butte. Information needs and the role of text mining in drug development / Phoebe M. Roberts and William S. Hayes. EpiLoc: a (working) text-based system for predicting protein subcellular location / Scott Brady and Hagit Shatkay. Filling the gaps between tools and users: a tool comparator, using protein-protein interactions as an example / Yoshinobu Kano [and others] Comparing usability of matching techniques for normalising biomedical named entities / Xinglong Wang and Michael Matthews. Intrinsic evaluation of text mining tools may not predict performance on realistic tasks / J. Gregory Caporaso [and others] BANNER: An executable survey of advances in biomedical named entity recognition / Robert Leaman and Graciela Gonzalez |
| Bibliography |
Includes bibliographical references |
| Notes |
Print version record |
| Subject |
Biology -- Mathematical models -- Congresses
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Biology -- Computer simulation -- Congresses
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Molecular biology -- Mathematical models -- Congresses
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Molecular biology -- Computer simulation -- Congresses
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SCIENCE -- Life Sciences -- Molecular Biology.
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Biology -- Computer simulation
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Biology -- Mathematical models
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Molecular biology -- Computer simulation
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Molecular biology -- Mathematical models
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| Genre/Form |
Conference papers and proceedings
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| Form |
Electronic book
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| Author |
Altman, Russ.
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| ISBN |
9789812776136 |
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9812776133 |
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