Jurisica / Wigle Knowledge Discovery in Proteomics

Erscheinungsjahr 2010
ISBN: 978-1-4200-3516-2
Verlag: Taylor & Francis
Format: PDF
Kopierschutz: Adobe DRM (»Systemvoraussetzungen)

E-Book, Englisch, 360 Seiten

Reihe: Chapman & Hall/CRC Mathematical & Computational Biology

Multi-modal representations, the lack of complete and consistent domain theories, rapid evolution of domain knowledge, high dimensionality, and large amounts of missing information - these are challenges inherent in modern proteomics. As our understanding of protein structure and function becomes ever more complicated, we have reached a point where the actual management of data is a major stumbling block to the interpretation of results from proteomic platforms, to knowledge discovery.

Knowledge Discovery in Proteomics presents timely, authoritative discussions on some of the key issues in high-throughput proteomics, exploring examples that represent some of the major challenges of knowledge discovery in the field. The authors focus on five specific domains:

- Mass spectrometry-based protein analysis

- Protein-protein interaction network analysis

- Systematic high-throughput protein crystallization

- Systematic, integrated analysis of multiple data repositories

- Systems biology

In each area, the authors describe the challenges created by the type of data produced and present potential solutions to the problem of data mining within the domain. They take a systems approach, covering individual data and integrating its computational aspects, from data preprocessing, storage, and access to analysis, visualization, and interpretation.

With clear exposition, practical examples, and rich illustrations, this book presents an outstanding overview of this emerging field, and builds the background needed for the fruitful exchange of ideas between computational and biological scientists.

Zielgruppe

Bioinformaticians and computational biologists; biologists and chemists working in genetics and proteomics; researchers in biotechnology/pharmaceutical industry; graduate students in bioinformatics; and computer scientists in knowledge discovery and data mining

Autoren/Hrsg.

Jurisica, Igor

Wigle, Dennis

Fachgebiete

• Mathematik | Informatik Mathematik Numerik und Wissenschaftliches Rechnen Computeranwendungen in der Mathematik
• Naturwissenschaften Biowissenschaften Biowissenschaften
• Mathematik | Informatik Mathematik Numerik und Wissenschaftliches Rechnen Angewandte Mathematik, Mathematische Modelle

Inhaltsverzeichnis

INTRODUCTION
Knowledge Discovery
Proteomics

KNOWLEDGE MANAGEMENT
Computational Analysis, Visualization, and Interpretation of HTP Proteomic Data
Introduction to Data Management
Knowledge Management
Conclusions

CURRENT STATUS AND FUTURE PROSPECTS OF MASS SPECTROMETRY
Basic Concepts of Mass Spectrometry
Multidimensional Chromatography
Protein Quantitation
Detection of Post-Translation Modifications
Global Data Analysis, Informatics Resources, and Data Mining

GRAPH THEORY ANALYSIS OF PROTEIN-PROTEIN INTERACTIONS
Graph Theoretic Terminology
Biological Terminology
Large Network Models
Protein Interaction Networks
Detection of Dense Subnetworks
Conclusions

HTP PROTEIN CRYSTALLIZATION APPROACHES
Protein Crystallization
Image Analysis in http Protein Crystallization
Case-based Planning of Crystallization Experiments
Protein Crystallization Knowledge Discovery
Conclusions

INTEGRATION OF DIVERSE DATA, ALGORITHMS, AND DOMAINS

Integration of Data and Tools
Characterizing and Predicting Protein-Protein Interactions
Approaches to Data Integration
Conclusions

FROM HIGH-THROUGHPUT TO SYSTEMS BIOLOGY
An Overview of Systems Biology
Systematic Biology
Protein-Protein Interactions
Modular Biology from Protein Interaction Domains
Protein Interaction Networks
Theoretical Models of Biological Systems
Software Development for System Modeling
Cancer as a System Failure

References