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Computational systems bioinformatics [[electronic resource] ] : CSB2007 Conference proceedings, volume 6, University of California, San Diego, 13-17 August 2007 / / editors, Peter Markstein, Ying Xu
| Computational systems bioinformatics [[electronic resource] ] : CSB2007 Conference proceedings, volume 6, University of California, San Diego, 13-17 August 2007 / / editors, Peter Markstein, Ying Xu |
| Pubbl/distr/stampa | London, : Imperial College Press |
| Descrizione fisica | 1 online resource (472 p.) |
| Disciplina | 572.80285 |
| Altri autori (Persone) |
MarksteinPeter
XuYing <1960-> |
| Collana |
Series on Advances in Bioinformatics and Computational Biology
Series on advances in bioinformatics and computational biology |
| Soggetto topico |
Bioinformatics
Biological systems - Computer simulation Biological systems - Simulation methods Computational biology |
| Soggetto genere / forma | Electronic books. |
| ISBN |
1-281-86759-4
9786611867591 1-86094-873-1 |
| Formato | Materiale a stampa  |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
CONTENTS; Preface; Committees; Referees; Keynote Address; Quantitative Aspects of Gene Regulation in Bacteria: Amplification. Threshold, and Combinatorial Control Terry Hwa; Whole-Genome Analysis of Dorsal Gradient Thresholds in the Drosophila Embryo Julia ZeitlingeK Rob Zinzen, Dmitri Papatsenko et al.; Invited Talks; Learning Predictive Models of Gene Regulation Christina Leslie; The Phylofacts Phylogenomic Encyclopedias: Structural Phylogenomic Analysis Across the Tree of Life Kimmen Golander; Mapping and Analysis of the Human Interactome Network Kavitha Venkatesan; 1. INTRODUCTION
Gene-Centered Protein-DNA lnteractome Mapping A.J. Marian WalhoutProteomics; Algorithm for Peptide Sequencing by Tandem Mass Spectrometry Based on Better Preprocessing and Anti-S ymmetric Computational Model Kang Ning and Hon Wai Leong; 1. INTRODUCTION; Preprocessing to remove noisy peaks; The anti-symmetric problem; 2. ANALYSIS OF PROBLEMS AND CURRENT ALGORITHMS; 2.1. General Terminologies; 2.2. Datasets; 2.3. Problems Analysis; 3. NEW COMPUTATIONAL MODELS AND ALGORITHM; 3.1. Preprocessing to remove noisy peaks and introduce pseudo peaks; 3.2. The Anti-symmetric Problem 3.3. Novel Peptide Sequencing Algorithm4. EXPERIMENTS; 4.1. Experiment Settings; 4.2. Results; 5. CONCLUSIONS; References; Algorithms for Selecting Breakpoint Locations to Optimize Diversity in Protein Engineering by Site-Directed Protein Recombination Wei Zheng, Xiaoduan Ye, Alan A4 Friedman and Chris Bailey-Kellogg; 1. INTRODUCTION; 2. METHODS; 2.1. Library Diversity; 2.2. Metrics for Breakpoint Selection; 2.3. Dynamic Programming for Breakpoint Selection; 3. RESULTS A N D DISCUSSION; 4. CONCLUSION; ACKNOWLEDGMENTS; References An Algorithmic Approach to Automated High-Throughput Identification of Disulfide Connectivity in Proteins Using Tandem Mass Spectrometry Timothy Lee, Rahul Singh, Ten-Yang Yen and Bruce Macher1. INTRODUCTION; 1.1. Comparison of the Proposed Approach with Related Works; 2. THE PROPOSED METHOD; 2.1. Problem Formulation; 2.2. Algorithmic Framework; 2.2.1. Finding the MS spectrum match; 2.2.2. Finding the MS/MS spectrum match; 2.2.3. Finding a perfect matching of maximum weight for a fully connected graph; 2.2.4. Consideration of missed proteolytic cleavages and intra-molecular bonded cysteines 2.2.5. Peak finding in the presence of noise2.2.6. Addressing isotopic variation and neutral loss; 2.2.7. Interpretation of peaks given charge state uncertainty; 2.2.8. Overall complexity; 3. EXPERIMENTAL RESULTS; 3.1. Description of the Data and Experimental Procedures; 3.2. Summary of Results; 3.2.1. Analysis of the effect of varying threshold t on results; 3.2.2. Comparison with MS2Assign program; 4. CONCLUSIONS AND DISCUSSION; Acknowledgments; References; Biomedical Application; Cancer Molecular Pattern Discovery by Subspace Consensus Kernel Classification Xiaoxu Hun; 1. INTRODUCTION 1 .1. Nonnegative matrix factorization |
| Record Nr. | UNINA-9910451116403321 |
| London, : Imperial College Press | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Computational systems bioinformatics [[electronic resource] ] : CSB2007 Conference proceedings, volume 6, University of California, San Diego, 13-17 August 2007 / / editors, Peter Markstein, Ying Xu
| Computational systems bioinformatics [[electronic resource] ] : CSB2007 Conference proceedings, volume 6, University of California, San Diego, 13-17 August 2007 / / editors, Peter Markstein, Ying Xu |
| Pubbl/distr/stampa | London, : Imperial College Press |
| Descrizione fisica | 1 online resource (472 p.) |
| Disciplina | 572.80285 |
| Altri autori (Persone) |
MarksteinPeter
XuYing <1960-> |
| Collana |
Series on Advances in Bioinformatics and Computational Biology
Series on advances in bioinformatics and computational biology |
| Soggetto topico |
Bioinformatics
Biological systems - Computer simulation Biological systems - Simulation methods Computational biology |
| ISBN |
1-281-86759-4
9786611867591 1-86094-873-1 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
CONTENTS; Preface; Committees; Referees; Keynote Address; Quantitative Aspects of Gene Regulation in Bacteria: Amplification. Threshold, and Combinatorial Control Terry Hwa; Whole-Genome Analysis of Dorsal Gradient Thresholds in the Drosophila Embryo Julia ZeitlingeK Rob Zinzen, Dmitri Papatsenko et al.; Invited Talks; Learning Predictive Models of Gene Regulation Christina Leslie; The Phylofacts Phylogenomic Encyclopedias: Structural Phylogenomic Analysis Across the Tree of Life Kimmen Golander; Mapping and Analysis of the Human Interactome Network Kavitha Venkatesan; 1. INTRODUCTION
Gene-Centered Protein-DNA lnteractome Mapping A.J. Marian WalhoutProteomics; Algorithm for Peptide Sequencing by Tandem Mass Spectrometry Based on Better Preprocessing and Anti-S ymmetric Computational Model Kang Ning and Hon Wai Leong; 1. INTRODUCTION; Preprocessing to remove noisy peaks; The anti-symmetric problem; 2. ANALYSIS OF PROBLEMS AND CURRENT ALGORITHMS; 2.1. General Terminologies; 2.2. Datasets; 2.3. Problems Analysis; 3. NEW COMPUTATIONAL MODELS AND ALGORITHM; 3.1. Preprocessing to remove noisy peaks and introduce pseudo peaks; 3.2. The Anti-symmetric Problem 3.3. Novel Peptide Sequencing Algorithm4. EXPERIMENTS; 4.1. Experiment Settings; 4.2. Results; 5. CONCLUSIONS; References; Algorithms for Selecting Breakpoint Locations to Optimize Diversity in Protein Engineering by Site-Directed Protein Recombination Wei Zheng, Xiaoduan Ye, Alan A4 Friedman and Chris Bailey-Kellogg; 1. INTRODUCTION; 2. METHODS; 2.1. Library Diversity; 2.2. Metrics for Breakpoint Selection; 2.3. Dynamic Programming for Breakpoint Selection; 3. RESULTS A N D DISCUSSION; 4. CONCLUSION; ACKNOWLEDGMENTS; References An Algorithmic Approach to Automated High-Throughput Identification of Disulfide Connectivity in Proteins Using Tandem Mass Spectrometry Timothy Lee, Rahul Singh, Ten-Yang Yen and Bruce Macher1. INTRODUCTION; 1.1. Comparison of the Proposed Approach with Related Works; 2. THE PROPOSED METHOD; 2.1. Problem Formulation; 2.2. Algorithmic Framework; 2.2.1. Finding the MS spectrum match; 2.2.2. Finding the MS/MS spectrum match; 2.2.3. Finding a perfect matching of maximum weight for a fully connected graph; 2.2.4. Consideration of missed proteolytic cleavages and intra-molecular bonded cysteines 2.2.5. Peak finding in the presence of noise2.2.6. Addressing isotopic variation and neutral loss; 2.2.7. Interpretation of peaks given charge state uncertainty; 2.2.8. Overall complexity; 3. EXPERIMENTAL RESULTS; 3.1. Description of the Data and Experimental Procedures; 3.2. Summary of Results; 3.2.1. Analysis of the effect of varying threshold t on results; 3.2.2. Comparison with MS2Assign program; 4. CONCLUSIONS AND DISCUSSION; Acknowledgments; References; Biomedical Application; Cancer Molecular Pattern Discovery by Subspace Consensus Kernel Classification Xiaoxu Hun; 1. INTRODUCTION 1 .1. Nonnegative matrix factorization |
| Record Nr. | UNINA-9910784980403321 |
| London, : Imperial College Press | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Computational systems bioinformatics [[electronic resource] ] : CSB2006 conference proceedings, Stanford CA, 14-18 August 2006 / / editors, Peter Markstein, Ying Xu
| Computational systems bioinformatics [[electronic resource] ] : CSB2006 conference proceedings, Stanford CA, 14-18 August 2006 / / editors, Peter Markstein, Ying Xu |
| Pubbl/distr/stampa | London, : Imperial College Press, c2006 |
| Descrizione fisica | 1 online resource (416 p.) |
| Disciplina | 572.80285 |
| Altri autori (Persone) |
MarksteinPeter
XuYing <1960-> |
| Collana | Series on advances in bioinformatics and computational biology |
| Soggetto topico |
Bioinformatics
Computational biology Biological systems - Computer simulation Biological systems - Simulation methods |
| Soggetto genere / forma | Electronic books. |
| ISBN |
1-281-86737-3
9786611867379 1-86094-757-3 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
CONTENTS ; Committees ; Referees ; Preface ; Keynote Addresses ; Exploring the Ocean's Microbes: Sequencing the Seven Seas ; Don't Know Much About Philosophy: The Confusion Over Bio-Ontologies ; Invited Talks
Biomedical Informatics Research Network (BIRN): Building a National Collaboratory for BioMedical and Brain Research Protein Network Comparative Genomics ; Systems Biology in Two Dimensions: Understanding and Engineering Membranes as Dynamical Systems ; Bioinformatics at Microsoft Research Movie Crunching in Biological Dynamic Imaging Engineering Nucleic Acid-Based Molecular Sensors for Probing and Programming Cellular Systems ; Reactome: A Knowledgebase of Biological Pathways ; Structural Bioinformatics Effective Optimization Algorithms for Fragment-Assembly based Protein Structure Prediction Transmembrane Helix and Topology Prediction Using Hierarchical SVM Classifiers and an Alternating Geometric Scoring Function ; Protein Fold Recognition Using the Gradient Boost Algorithm A Graph-Based Automated NMR Backbone Resonance Sequential Assignment A Data-Driven Systematic Search Algorithm for Structure Determination of Denatured or Disordered Proteins ; Multiple Structure Alignment by Optimal RMSD Implies that the Average Structure is a Consensus Identification of a-Helices from Low Resolution Protein Density Maps |
| Record Nr. | UNINA-9910451319503321 |
| London, : Imperial College Press, c2006 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Computational systems bioinformatics [[electronic resource] ] : CSB2006 conference proceedings, Stanford CA, 14-18 August 2006 / / editors, Peter Markstein, Ying Xu
| Computational systems bioinformatics [[electronic resource] ] : CSB2006 conference proceedings, Stanford CA, 14-18 August 2006 / / editors, Peter Markstein, Ying Xu |
| Pubbl/distr/stampa | London, : Imperial College Press, c2006 |
| Descrizione fisica | 1 online resource (416 p.) |
| Disciplina | 572.80285 |
| Altri autori (Persone) |
MarksteinPeter
XuYing <1960-> |
| Collana | Series on advances in bioinformatics and computational biology |
| Soggetto topico |
Bioinformatics
Computational biology Biological systems - Computer simulation Biological systems - Simulation methods |
| ISBN |
1-281-86737-3
9786611867379 1-86094-757-3 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
CONTENTS ; Committees ; Referees ; Preface ; Keynote Addresses ; Exploring the Ocean's Microbes: Sequencing the Seven Seas ; Don't Know Much About Philosophy: The Confusion Over Bio-Ontologies ; Invited Talks
Biomedical Informatics Research Network (BIRN): Building a National Collaboratory for BioMedical and Brain Research Protein Network Comparative Genomics ; Systems Biology in Two Dimensions: Understanding and Engineering Membranes as Dynamical Systems ; Bioinformatics at Microsoft Research Movie Crunching in Biological Dynamic Imaging Engineering Nucleic Acid-Based Molecular Sensors for Probing and Programming Cellular Systems ; Reactome: A Knowledgebase of Biological Pathways ; Structural Bioinformatics Effective Optimization Algorithms for Fragment-Assembly based Protein Structure Prediction Transmembrane Helix and Topology Prediction Using Hierarchical SVM Classifiers and an Alternating Geometric Scoring Function ; Protein Fold Recognition Using the Gradient Boost Algorithm A Graph-Based Automated NMR Backbone Resonance Sequential Assignment A Data-Driven Systematic Search Algorithm for Structure Determination of Denatured or Disordered Proteins ; Multiple Structure Alignment by Optimal RMSD Implies that the Average Structure is a Consensus Identification of a-Helices from Low Resolution Protein Density Maps |
| Record Nr. | UNINA-9910784998003321 |
| London, : Imperial College Press, c2006 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||