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Algorithms in computational molecular biology [[electronic resource] ] : techniques, approaches and applications / / edited by Mourad Elloumi, Albert Y. Zomaya
| Algorithms in computational molecular biology [[electronic resource] ] : techniques, approaches and applications / / edited by Mourad Elloumi, Albert Y. Zomaya |
| Pubbl/distr/stampa | Hoboken, New Jersey : , : John Wiley & Sons, , 2011 |
| Descrizione fisica | 1 online resource (1085 p.) |
| Disciplina | 572.80285 |
| Altri autori (Persone) |
ElloumiMourad
ZomayaAlbert Y |
| Collana | Wiley series on bioinformatics |
| Soggetto topico | Biophysics - Mathematical models |
| ISBN |
1-282-93963-7
9786612939631 0-470-89209-9 0-470-89210-2 |
| Formato | Materiale a stampa  |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
ALGORITHMS INCOMPUTATIONALMOLECULAR BIOLOGY; CONTENTS; PREFACE; CONTRIBUTORS; I STRINGS PROCESSING AND APPLICATION TO BIOLOGICAL SEQUENCES; 1 STRING DATA STRUCTURES FOR COMPUTATIONAL MOLECULAR BIOLOGY; 1.1 Introduction; 1.2 Main String Indexing Data Structures; 1.2.1 Suffix Trees; 1.2.2 Suffix Arrays; 1.3 Index Structures for Weighted Strings; 1.4 Index Structures for Indeterminate Strings; 1.5 String Data Structures in Memory Hierarchies; 1.6 Conclusions; References; 2 EFFICIENT RESTRICTED-CASE ALGORITHMS FOR PROBLEMS IN COMPUTATIONAL BIOLOGY; 2.1 The Need for Special Cases
2.2 Assessing Efficient Solvability Options for General Problems and Special Cases2.3 String and Sequence Problems; 2.4 Shortest Common Superstring; 2.4.1 Solving the General Problem; 2.4.2 Special Case: SCSt for Short Strings Over Small Alphabets; 2.4.3 Discussion; 2.5 Longest Common Subsequence; 2.5.1 Solving the General Problem; 2.5.2 Special Case: LCS of Similar Sequences; 2.5.3 Special Case: LCS Under Symbol-Occurrence Restrictions; 2.5.4 Discussion; 2.6 Common Approximate Substring; 2.6.1 Solving the General Problem; 2.6.2 Special Case: Common Approximate String; 2.6.3 Discussion 2.7 ConclusionReferences; 3 FINITE AUTOMATA IN PATTERN MATCHING; 3.1 Introduction; 3.1.1 Preliminaries; 3.2 Direct Use of DFA in Stringology; 3.2.1 Forward Automata; 3.2.2 Degenerate Strings; 3.2.3 Indexing Automata; 3.2.4 Filtering Automata; 3.2.5 Backward Automata; 3.2.6 Automata with Fail Function; 3.3 NFA Simulation; 3.3.1 Basic Simulation Method; 3.3.2 Bit Parallelism; 3.3.3 Dynamic Programming; 3.3.4 Basic Simulation Method with Deterministic State Cache; 3.4 Finite Automaton as Model of Computation; 3.5 Finite Automata Composition; 3.6 Summary; References 4 NEW DEVELOPMENTS IN PROCESSING OF DEGENERATE SEQUENCES4.1 Introduction; 4.1.1 Degenerate Primer Design Problem; 4.2 Background; 4.3 Basic Definitions; 4.4 Repetitive Structures in Degenerate Strings; 4.4.1 Using the Masking Technique; 4.4.2 Computing the Smallest Cover of the Degenerate String x; 4.4.3 Computing Maximal Local Covers of x; 4.4.4 Computing All Covers of x; 4.4.5 Computing the Seeds of x; 4.5 Conservative String Covering in Degenerate Strings; 4.5.1 Finding Constrained Pattern p in Degenerate String T; 4.5.2 Computing ?-Conservative Covers of Degenerate Strings 4.5.3 Computing ?-Conservative Seeds of Degenerate Strings4.6 Conclusion; References; 5 EXACT SEARCH ALGORITHMS FOR BIOLOGICAL SEQUENCES; 5.1 Introduction; 5.2 Single Pattern Matching Algorithms; 5.2.1 Algorithms for DNA Sequences; 5.2.2 Algorithms for Amino Acids; 5.3 Algorithms for Multiple Patterns; 5.3.1 Trie-Based Algorithms; 5.3.2 Filtering Algorithms; 5.3.3 Other Algorithms; 5.4 Application of Exact Set Pattern Matching for Read Mapping; 5.4.1 MPSCAN: An Efficient Exact Set Pattern Matching Tool for DNA/RNA Sequences; 5.4.2 Other Solutions for Mapping Reads 5.4.3 Comparison of Mapping Solutions |
| Record Nr. | UNINA-9910139396103321 |
| Hoboken, New Jersey : , : John Wiley & Sons, , 2011 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Algorithms in computational molecular biology : techniques, approaches and applications / / edited by Mourad Elloumi, Albert Y. Zomaya
| Algorithms in computational molecular biology : techniques, approaches and applications / / edited by Mourad Elloumi, Albert Y. Zomaya |
| Pubbl/distr/stampa | Hoboken, N.J., : Wiley, 2011 |
| Descrizione fisica | 1 online resource (1085 p.) |
| Disciplina | 572.80285 |
| Altri autori (Persone) |
ElloumiMourad
ZomayaAlbert Y |
| Collana | Wiley series on bioinformatics |
| Soggetto topico | Biophysics - Mathematical models |
| ISBN |
1-282-93963-7
9786612939631 0-470-89209-9 0-470-89210-2 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
ALGORITHMS INCOMPUTATIONALMOLECULAR BIOLOGY; CONTENTS; PREFACE; CONTRIBUTORS; I STRINGS PROCESSING AND APPLICATION TO BIOLOGICAL SEQUENCES; 1 STRING DATA STRUCTURES FOR COMPUTATIONAL MOLECULAR BIOLOGY; 1.1 Introduction; 1.2 Main String Indexing Data Structures; 1.2.1 Suffix Trees; 1.2.2 Suffix Arrays; 1.3 Index Structures for Weighted Strings; 1.4 Index Structures for Indeterminate Strings; 1.5 String Data Structures in Memory Hierarchies; 1.6 Conclusions; References; 2 EFFICIENT RESTRICTED-CASE ALGORITHMS FOR PROBLEMS IN COMPUTATIONAL BIOLOGY; 2.1 The Need for Special Cases
2.2 Assessing Efficient Solvability Options for General Problems and Special Cases2.3 String and Sequence Problems; 2.4 Shortest Common Superstring; 2.4.1 Solving the General Problem; 2.4.2 Special Case: SCSt for Short Strings Over Small Alphabets; 2.4.3 Discussion; 2.5 Longest Common Subsequence; 2.5.1 Solving the General Problem; 2.5.2 Special Case: LCS of Similar Sequences; 2.5.3 Special Case: LCS Under Symbol-Occurrence Restrictions; 2.5.4 Discussion; 2.6 Common Approximate Substring; 2.6.1 Solving the General Problem; 2.6.2 Special Case: Common Approximate String; 2.6.3 Discussion 2.7 ConclusionReferences; 3 FINITE AUTOMATA IN PATTERN MATCHING; 3.1 Introduction; 3.1.1 Preliminaries; 3.2 Direct Use of DFA in Stringology; 3.2.1 Forward Automata; 3.2.2 Degenerate Strings; 3.2.3 Indexing Automata; 3.2.4 Filtering Automata; 3.2.5 Backward Automata; 3.2.6 Automata with Fail Function; 3.3 NFA Simulation; 3.3.1 Basic Simulation Method; 3.3.2 Bit Parallelism; 3.3.3 Dynamic Programming; 3.3.4 Basic Simulation Method with Deterministic State Cache; 3.4 Finite Automaton as Model of Computation; 3.5 Finite Automata Composition; 3.6 Summary; References 4 NEW DEVELOPMENTS IN PROCESSING OF DEGENERATE SEQUENCES4.1 Introduction; 4.1.1 Degenerate Primer Design Problem; 4.2 Background; 4.3 Basic Definitions; 4.4 Repetitive Structures in Degenerate Strings; 4.4.1 Using the Masking Technique; 4.4.2 Computing the Smallest Cover of the Degenerate String x; 4.4.3 Computing Maximal Local Covers of x; 4.4.4 Computing All Covers of x; 4.4.5 Computing the Seeds of x; 4.5 Conservative String Covering in Degenerate Strings; 4.5.1 Finding Constrained Pattern p in Degenerate String T; 4.5.2 Computing ?-Conservative Covers of Degenerate Strings 4.5.3 Computing ?-Conservative Seeds of Degenerate Strings4.6 Conclusion; References; 5 EXACT SEARCH ALGORITHMS FOR BIOLOGICAL SEQUENCES; 5.1 Introduction; 5.2 Single Pattern Matching Algorithms; 5.2.1 Algorithms for DNA Sequences; 5.2.2 Algorithms for Amino Acids; 5.3 Algorithms for Multiple Patterns; 5.3.1 Trie-Based Algorithms; 5.3.2 Filtering Algorithms; 5.3.3 Other Algorithms; 5.4 Application of Exact Set Pattern Matching for Read Mapping; 5.4.1 MPSCAN: An Efficient Exact Set Pattern Matching Tool for DNA/RNA Sequences; 5.4.2 Other Solutions for Mapping Reads 5.4.3 Comparison of Mapping Solutions |
| Record Nr. | UNINA-9910825591603321 |
| Hoboken, N.J., : Wiley, 2011 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Algorithms in structural molecular biology [[electronic resource] /] / Bruce R. Donald
| Algorithms in structural molecular biology [[electronic resource] /] / Bruce R. Donald |
| Autore | Donald Bruce R |
| Pubbl/distr/stampa | Cambridge, Mass., : MIT Press, c2011 |
| Descrizione fisica | xxx, 429 p., [32] p. of plates : ill. (some col.) |
| Disciplina | 572/.33 |
| Collana | Computational molecular biology |
| Soggetto topico | Biophysics - Mathematical models |
| Soggetto genere / forma | Electronic books. |
| ISBN | 0-262-29872-4 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Record Nr. | UNINA-9910457344003321 |
Donald Bruce R
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| Cambridge, Mass., : MIT Press, c2011 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Constraint reasoning for differential models [[electronic resource] /] / Jorge Cruz
| Constraint reasoning for differential models [[electronic resource] /] / Jorge Cruz |
| Autore | Cruz Jorge |
| Pubbl/distr/stampa | Amsterdam ; ; Washington, D.C., : IOS Press, c2005 |
| Descrizione fisica | 1 online resource (244 p.) |
| Disciplina | 006.3 |
| Collana | Frontiers in artificial intelligence and applications |
| Soggetto topico |
Constraints (Artificial intelligence)
Differential equations Interval analysis (Mathematics) Biophysics - Mathematical models |
| Soggetto genere / forma | Electronic books. |
| ISBN |
1-280-24343-0
9786610243433 1-4237-9924-0 1-60750-121-X 600-00-0376-5 1-60129-102-7 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Title page; Table of Contents; Introduction; Interval Constraints; Constraint Satisfaction Problems; Interval Analysis; Constraint Propagation; Partial Consistencies; Global Hull-Consistency; Local Search; Experimental Results; Interval Constraints for Differential Equations; Ordinary Differential Equations; Constraint Satisfaction Differential Problems; Solving a CSDP; Biomedical Decision Support with ODEs; Conclusions and Future Work; References; Appendix A: Interval Analysis Theorems; Appendix B: Constraint Propagation Theorems |
| Record Nr. | UNINA-9910449786603321 |
|
Cruz Jorge
|
||
| Amsterdam ; ; Washington, D.C., : IOS Press, c2005 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Constraint reasoning for differential models [[electronic resource] /] / Jorge Cruz
| Constraint reasoning for differential models [[electronic resource] /] / Jorge Cruz |
| Autore | Cruz Jorge |
| Pubbl/distr/stampa | Amsterdam ; ; Washington, D.C., : IOS Press, c2005 |
| Descrizione fisica | 1 online resource (244 p.) |
| Disciplina | 006.3 |
| Collana | Frontiers in artificial intelligence and applications |
| Soggetto topico |
Constraints (Artificial intelligence)
Differential equations Interval analysis (Mathematics) Biophysics - Mathematical models |
| ISBN |
1-280-24343-0
9786610243433 1-4237-9924-0 1-60750-121-X 600-00-0376-5 1-60129-102-7 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Title page; Table of Contents; Introduction; Interval Constraints; Constraint Satisfaction Problems; Interval Analysis; Constraint Propagation; Partial Consistencies; Global Hull-Consistency; Local Search; Experimental Results; Interval Constraints for Differential Equations; Ordinary Differential Equations; Constraint Satisfaction Differential Problems; Solving a CSDP; Biomedical Decision Support with ODEs; Conclusions and Future Work; References; Appendix A: Interval Analysis Theorems; Appendix B: Constraint Propagation Theorems |
| Record Nr. | UNINA-9910783420503321 |
|
Cruz Jorge
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| Amsterdam ; ; Washington, D.C., : IOS Press, c2005 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Fractals in molecular biophysics / / T. Gregory Dewey, Department of Chemistry, University of Denver
| Fractals in molecular biophysics / / T. Gregory Dewey, Department of Chemistry, University of Denver |
| Autore | Dewey Thomas Gregory <1952-> |
| Pubbl/distr/stampa | Oxford ; ; New York : , : Oxford University Press, , [1997] |
| Descrizione fisica | 1 online resource (289 p.) |
| Disciplina | 574.8/8/0151474 |
| Collana | Topics in physical chemistry : a series of advanced textbooks and monographs |
| Soggetto topico |
Molecular biology - Mathematical models
Biophysics - Mathematical models Fractals |
| Soggetto genere / forma | Electronic books. |
| ISBN |
1-280-52698-X
9786610526987 0-19-535918-6 1-4294-0424-8 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Contents; 1 What Are Fractals?; 2 Fractal Aspects of Protein Structure; 3 Loops, Polymer Statistics, and Helix-Coil Transitions; 4 The Multifractality of Biomacromolecules; 5 Fractal Diffusion and Chemical Kinetics; 6 Are Protein Dynamics Fractal?; 7 Fractons and Vibrational Relaxation in Proteins; 8 Encoded Walks and Correlations in Sequence Data; 9 Percolation; 10 Chaos in Biochemical Systems; Index |
| Record Nr. | UNINA-9910458189003321 |
|
Dewey Thomas Gregory <1952->
|
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| Oxford ; ; New York : , : Oxford University Press, , [1997] | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Fractals in molecular biophysics / / T. Gregory Dewey, Department of Chemistry, University of Denver
| Fractals in molecular biophysics / / T. Gregory Dewey, Department of Chemistry, University of Denver |
| Autore | Dewey Thomas Gregory <1952-> |
| Pubbl/distr/stampa | Oxford ; ; New York : , : Oxford University Press, , [1997] |
| Descrizione fisica | 1 online resource (289 p.) |
| Disciplina | 574.8/8/0151474 |
| Collana | Topics in physical chemistry : a series of advanced textbooks and monographs |
| Soggetto topico |
Molecular biology - Mathematical models
Biophysics - Mathematical models Fractals |
| ISBN |
0-19-770404-2
1-280-52698-X 9786610526987 0-19-535918-6 1-4294-0424-8 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Contents; 1 What Are Fractals?; 2 Fractal Aspects of Protein Structure; 3 Loops, Polymer Statistics, and Helix-Coil Transitions; 4 The Multifractality of Biomacromolecules; 5 Fractal Diffusion and Chemical Kinetics; 6 Are Protein Dynamics Fractal?; 7 Fractons and Vibrational Relaxation in Proteins; 8 Encoded Walks and Correlations in Sequence Data; 9 Percolation; 10 Chaos in Biochemical Systems; Index |
| Record Nr. | UNINA-9910784779303321 |
|
Dewey Thomas Gregory <1952->
|
||
| Oxford ; ; New York : , : Oxford University Press, , [1997] | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Zoological physics : quantitative models of body design, actions, and physical limitations of animals / Boye K. Ahlborn
| Zoological physics : quantitative models of body design, actions, and physical limitations of animals / Boye K. Ahlborn |
| Autore | Ahlborn, Boye |
| Pubbl/distr/stampa | Berlin : Springer, c2004 |
| Descrizione fisica | xix, 430 p. : ill. ; 24 cm |
| Disciplina | 571.41 |
| Soggetto topico |
Physiology - Mathematical models
Animal mechanics - Mathematical models Biophysics - Mathematical models |
| ISBN | 9783540208464 |
| Classificazione | LC QP33.6.M36 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Record Nr. | UNISALENTO-991003332019707536 |
|
Ahlborn, Boye
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| Berlin : Springer, c2004 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. del Salento | ||
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