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ORCIDEncyclopedia of Bioinformatics and Computational Biology 2019
- Shoba Ranganathan, Michael Gribskov, Kenta Nakai, Christian Schönbach:
Encyclopedia of Bioinformatics and Computational Biology - Volume 1. Elsevier 2019, ISBN 978-0-12-811432-2 - Shoba Ranganathan
:
Preface. - Nadia Pisanti:
Algorithms Foundations. 1-4 - Massimo Cafaro, Italo Epicoco, Marco Pulimeno:
Techniques for Designing Bioinformatics Algorithms. 5-14 - Francesco Cauteruccio, Giorgio Terracina, Domenico Ursino:
Algorithms for Strings and Sequences: Searching Motifs. 15-21 - Stefano Beretta:
Algorithms for Strings and Sequences: Pairwise Alignment. 22-29 - Pietro Hiram Guzzi:
Algorithms for Strings and Sequences: Multiple Alignment. 30-31 - Giuseppe Tradigo, Francesca Rondinelli, Gianluca Pollastri:
Algorithms for Structure Comparison and Analysis: Prediction of Tertiary Structures of Proteins. 32-37 - Marco Wiltgen:
Algorithms for Structure Comparison and Analysis: Homology Modelling of Proteins. 38-61 - Rahul Kaushik, Ankita Singh, B. Jayaram:
Ab initio Protein Structure Prediction. 62-76 - Giuseppe Tradigo, Francesca Rondinelli, Gianluca Pollastri:
Algorithms for Structure Comparison and Analysis: Docking. 77-80 - Paolo Lo Giudice, Domenico Ursino:
Algorithms for Graph and Network Analysis: Graph Indexes/Descriptors. 81-88 - Paolo Lo Giudice, Domenico Ursino:
Algorithms for Graph and Network Analysis: Traversing/Searching/Sampling Graphs. 89-94 - Clara Pizzuti, Simona E. Rombo:
Algorithms for Graph and Network Analysis: Clustering and Search of Motifs in Graphs. 95-101 - Luigi Palopoli, Simona E. Rombo:
Algorithms for Graph and Network Analysis: Graph Alignment. 102-109 - Mariaconcetta Bilotta, Giuseppe Tradigo, Pierangelo Veltri:
Bioinformatics Data Models, Representation and Storage. 110-116 - Antonella Guzzo:
Data Storage and Representation. 117-125 - Barbara Calabrese:
Experimental Platforms for Extracting Biological Data: Mass Spectrometry, Microarray, Next Generation Sequencing. 126-129 - Barbara Calabrese:
Standards and Models for Biological Data: Common Formats. 130-136 - Barbara Calabrese:
Standards and Models for Biological Data: FGED and HUPO. 137-141 - Giuseppe Agapito:
Standards and Models for Biological Data: SBML. 142-146 - Giuseppe Agapito:
Standards and Models for Biological Data: BioPAX. 147-153 - Alfredo Tirado-Ramos, Laura S. Manuel:
Models for Computable Phenotyping. 154-159 - Mario Cannataro, Giuseppe Agapito:
Computing for Bioinformatics. 160-175 - Giuseppe Agapito:
Computing Languages for Bioinformatics: Perl. 176-186 - Giuseppe Agapito:
Computing Languages for Bioinformatics: BioPerl. 187-194 - Pietro H. Guzzi:
Computing Languages for Bioinformatics: Python. 195-198 - Marianna Milano:
Computing Languages for Bioinformatics: R. 199-205 - Pietro H. Guzzi:
Computing Languages for Bioinformatics: Java. 206-208 - Ivan Merelli:
Parallel Architectures for Bioinformatics. 209-214 - Domenico Talia:
Models and Languages for High-Performance Computing. 215-220 - Giuseppe Cattaneo, Raffaele Giancarlo, Umberto Ferraro Petrillo, Gianluca Roscigno:
MapReduce in Computational Biology Via Hadoop and Spark. 221-229 - Ivan Merelli:
Infrastructure for High-Performance Computing: Grids and Grid Computing. 230-235 - Paolo Trunfio:
Infrastructures for High-Performance Computing: Cloud Computing. 236-239 - Fabrizio Marozzo:
Infrastructures for High-Performance Computing: Cloud Infrastructures. 240-246 - Fabrizio Marozzo, Paolo Trunfio:
Infrastructures for High-Performance Computing: Cloud Computing Development Environments. 247-251 - Barbara Calabrese:
Cloud-Based Bioinformatics Tools. 252-256 - Barbara Calabrese:
Cloud-Based Bioinformatics Platforms. 257-260 - Barbara Calabrese:
Cloud-Based Molecular Modeling Systems. 261-264 - Francesco Buccafurri, Vincenzo De Angelis, Gianluca Lax, Serena Nicolazzo, Antonino Nocera:
The Challenge of Privacy in the Cloud. 265-271 - Kaitao Lai, Natalie Twine, Aidan O'Brien, Yi Guo, Denis C. Bauer:
Artificial Intelligence and Machine Learning in Bioinformatics. 272-286 - Francesco Scarcello:
Artificial Intelligence. 287-293 - Francesco Ricca, Giorgio Terracina:
Knowledge and Reasoning. 294-299 - Jyotsna Talreja Wassan, Haiying Wang, Huiru Zheng:
Machine Learning in Bioinformatics. 300-308 - Alfredo Garro, Max Mühlhäuser, Andrea Tundis, Stefano Mariani, Andrea Omicini, Giuseppe Vizzari:
Intelligent Agents and Environment. 309-314 - Alfredo Garro, Max Mühlhäuser, Andrea Tundis, Matteo Baldoni, Cristina Baroglio, Federico Bergenti, Paolo Torroni:
Intelligent Agents: Multi-Agent Systems. 315-320 - Giovanni Stracquadanio, Panos M. Pardalos:
Stochastic Methods for Global Optimization and Problem Solving. 321-327 - Chiara Zucco:
Data Mining in Bioinformatics. 328-335 - Massimo Guarascio, Giuseppe Manco, Ettore Ritacco:
Knowledge Discovery in Databases. 336-341 - Mauro Castelli, Leonardo Vanneschi, Álvaro Rubio-Largo:
Supervised Learning: Classification. 342-349 - Angela Serra, Roberto Tagliaferri:
Unsupervised Learning: Clustering. 350-357 - Massimo Cafaro, Italo Epicoco, Marco Pulimeno:
Data Mining: Mining Frequent Patterns, Associations Rules, and Correlations. 358-366 - Giuseppe Di Fatta:
Association Rules and Frequent Patterns. 367-373 - Michele Fratello, Roberto Tagliaferri:
Decision Trees and Random Forests. 374-383 - Alfonso Urso, Antonino Fiannaca, Massimo La Rosa, Valentina Ravì, Riccardo Rizzo:
Data Mining: Classification and Prediction. 384-402 - Daniel Berrar:
Bayes' Theorem and Naive Bayes Classifier. 403-412 - Alfonso Urso, Antonino Fiannaca, Massimo La Rosa, Valentina Ravì, Riccardo Rizzo:
Data Mining: Prediction Methods. 413-430 - Paola Galdi, Roberto Tagliaferri:
Data Mining: Accuracy and Error Measures for Classification and Prediction. 431-436 - Alessia Amelio, Andrea Tagarelli:
Data Mining: Clustering. 437-448 - Raffaele Giancarlo, Filippo Utro:
Computation Cluster Validation in the Big Data Era. 449-455 - Fabrizio Angiulli:
Data Mining: Outlier Detection. 456-462 - Swarup Roy, Pooja Sharma, Keshab Nath, Dhruba K. Bhattacharyya, Jugal K. Kalita:
Pre-Processing: A Data Preparation Step. 463-471 - Barbara Calabrese:
Data Cleaning. 472-476 - Barbara Calabrese:
Data Integration and Transformation. 477-479 - Barbara Calabrese:
Data Reduction. 480-485 - Italia De Feis:
Dimensionality Reduction. 486-494 - Italo Zoppis, Giancarlo Mauri, Riccardo Dondi:
Kernel Machines: Introduction. 495-502 - Italo Zoppis, Giancarlo Mauri, Riccardo Dondi:
Kernel Methods: Support Vector Machines. 503-510 - Italo Zoppis, Giancarlo Mauri, Riccardo Dondi:
Kernel Machines: Applications. 511-518 - Chiara Zucco:
Multiple Learners Combination: Introduction. 519-524 - Chiara Zucco:
Multiple Learners Combination: Bagging. 525-530 - Chiara Zucco:
Multiple Learners Combination: Boosting. 531-535 - Chiara Zucco:
Multiple Learners Combination: Stacking. 536-538 - Chiara Zucco:
Multiple Learners Combination: Cascading. 539-541 - Daniel Berrar:
Cross-Validation. 542-545 - Daniel Berrar:
Performance Measures for Binary Classification. 546-560 - Xu Han, Chee Keong Kwoh:
Natural Language Processing Approaches in Bioinformatics. 561-574 - Carmen De Maio, Giuseppe Fenza, Vincenzo Loia, Mimmo Parente:
Text Mining Basics in Bioinformatics. 575-585 - Danilo Cavaliere, Sabrina Senatore, Vincenzo Loia:
Data-Information-Concept Continuum From a Text Mining Perspective. 586-601 - Andre Lamurias, Francisco M. Couto:
Text Mining for Bioinformatics Using Biomedical Literature. 602-611 - Leonardo Vanneschi, Mauro Castelli:
Multilayer Perceptrons. 612-620 - Leonardo Vanneschi, Mauro Castelli:
Delta Rule and Backpropagation. 621-633 - Massimo Guarascio, Giuseppe Manco, Ettore Ritacco:
Deep Learning. 634-647 - Antonella Iuliano, Monica Franzese:
Introduction to Biostatistics. 648-671 - Monica Franzese, Antonella Iuliano:
Descriptive Statistics. 672-684 - Haiying Wang, Jyotsna Talreja Wassan, Huiru Zheng:
Measurements of Accuracy in Biostatistics. 685-690 - Claudia Angelini:
Hypothesis Testing. 691-697 - Daniela De Canditiis:
Statistical Inference Techniques. 698-705 - Monica Franzese, Antonella Iuliano:
Correlation Analysis. 706-721 - Claudia Angelini:
Regression Analysis. 722-730 - Audrone Jakaitiene:
Nonlinear Regression Models. 731-737 - Luisa Cutillo:
Parametric and Multivariate Methods. 738-746 - Maria Francesca Carfora:
Stochastic Processes. 747-752 - Monica Franzese, Antonella Iuliano:
Hidden Markov Models. 753-762 - Barbara Calabrese:
Linkage Disequilibrium. 763-765 - Daniel Berrar:
Introduction to the Non-Parametric Bootstrap. 766-773 - David Simoncini, Kam Y. J. Zhang:
Population-Based Sampling and Fragment-Based De Novo Protein Structure Prediction. 774-784 - Gianluigi Greco, Marco Manna, Francesco Ricca:
Ontology: Introduction. 785-789 - Valeria Fionda, Giuseppe Pirrò:
Ontology: Definition Languages. 790-799 - Valeria Fionda, Giuseppe Pirrò:
Ontology: Querying Languages and Development. 800-808 - Pietro H. Guzzi:
Ontology in Bioinformatics. 809-812 - Marco Masseroli:
Biological and Medical Ontologies: Introduction. 813-822 - Marco Masseroli:
Biological and Medical Ontologies: GO and GOA. 823-831 - Davide Chicco, Marco Masseroli:
Biological and Medical Ontologies: Protein Ontology (PRO). 832-837 - Anna Bernasconi, Marco Masseroli:
Biological and Medical Ontologies: Disease Ontology (DO). 838-847 - Anna Bernasconi, Marco Masseroli:
Biological and Medical Ontologies: Human Phenotype Ontology (HPO). 848-857 - Anna Bernasconi, Marco Masseroli:
Biological and Medical Ontologies: Systems Biology Ontology (SBO). 858-866 - Pietro H. Guzzi:
Ontology-Based Annotation Methods. 867-869 - Francisco M. Couto, Andre Lamurias:
Semantic Similarity Definition. 870-876 - Giuseppe Pirrò:
Semantic Similarity Functions and Measures. 877-888 - Marianna Milano:
Tools for Semantic Analysis Based on Semantic Similarity. 889-895 - Pietro H. Guzzi:
Functional Enrichment Analysis Methods. 896-897 - Erinija Pranckeviciene:
Gene Prioritization Using Semantic Similarity. 898-906 - Marianna Milano:
Gene Prioritization Tools. 907-914 - Valeria Fionda:
Networks in Biology. 915-921 - Stefano Beretta, Luca Denti, Marco Previtali:
Graph Theory and Definitions. 922-927 - Stefano Beretta, Luca Denti, Marco Previtali:
Network Properties. 928-932 - Riccardo Dondi, Giancarlo Mauri, Italo Zoppis:
Graph Isomorphism. 933-939 - Riccardo Dondi, Giancarlo Mauri, Italo Zoppis:
Graph Algorithms. 940-949 - Raffaele Giancarlo, Daniele Greco, Francesco Landolina, Simona E. Rombo:
Network Centralities and Node Ranking. 950-957 - Giuseppe Manco, Ettore Ritacco, Massimo Guarascio:
Network Topology. 958-967 - Massimo Guarascio, Giuseppe Manco, Ettore Ritacco:
Network Models. 968-977 - Marco Pellegrini:
Community Detection in Biological Networks. 978-987 - Max Kotlyar, Chiara Pastrello, Andrea E. M. Rossos, Igor Jurisica:
Protein-Protein Interaction Databases. 988-996 - Swarup Roy, Hazel N. Manners, Ahed Elmsallati, Jugal K. Kalita:
Alignment of Protein-Protein Interaction Networks. 997-1015 - Anne-Christin Hauschild, Chiara Pastrello, Andrea E. M. Rossos, Igor Jurisica:
Visualization of Biomedical Networks. 1016-1035 - Asuda Sharma, Hesham Ali, Dario Ghersi:
Cluster Analysis of Biological Networks. 1036-1046 - Giuseppe Agapito:
Biological Pathways. 1047-1062 - Ramakanth Chirravuri Venkata, Dario Ghersi:
Biological Pathway Data Formats and Standards. 1063-1066 - Ramakanth Chirravuri Venkata, Dario Ghersi:
Biological Pathway Analysis. 1067-1070 - Sara Rahmati, Chiara Pastrello, Andrea E. M. Rossos, Igor Jurisica:
Two Decades of Biological Pathway Databases: Results and Challenges. 1071-1084 - Giuseppe Agapito:
Visualization of Biological Pathways. 1085-1091 - Marco Masseroli:
Integrative Bioinformatics. 1092-1098 - Maria Teresa Di Martino, Pietro H. Guzzi:
Integrative Bioinformatics of Transcriptome: Databases, Tools and Pipelines. 1099-1103 - Pietro Cinaglia, Domenico Mirarchi, Pierangelo Veltri:
Information Retrieval in Life Sciences. 1104-1108
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