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Genome Annotation
Paul M.K. Gordon, Christoph W. Sensen
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Últimas novedades biología
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From individual tools to genome analysis, this book provides an overview of annotation strategies and toolkits currently in use. Presenting a combination of principles and practice, the authors elucidate database search engines and HTML-based annotation systems for specialists in computational biology and bioinformatics who use genome annotation in their work. They also introduce web service-based annotation pipelines. The text includes a CD-ROM with MAGPIE and Bluejay, genome annotation systems and viewers that are used in thousands of laboratories around the world.
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The Sequence Databanks as a Prerequisite
Tools of the Trade: Data Generation and Data Integration
DNA Sequencing Strategies
Gene Finding Strategies
Database Search Strategies
Between the Genes
Additional Data Types
Emerging Data
Single Gene Analysis Tools
PCGene: Workstation-based Gene Analysis
GCG and EGCG: Server-based Gene Analysis
EMBOSS: Today’s Reality of Server-based Gene Analysis
Static Annotation Systems: Concepts of Data Integration
Searching for Evidence: An End-User’s Perspective
MAGPIE: An HTML-based Genome Analysis and Annotation System
Artemis: DNA Sequence Viewer and Annotation Tool
Distributed Annotation System (DAS)
GMOD Tools
Dynamic Annotation Systems: End user-driven Annotation and Visualization
Bluejay: An XML-based Genome Visualization and Data Integration
System
NCBI Map Viewer
UCSC Genome Browser
Ensemble Genome Browser
Gbrowse
Other Tools
Web Service Based Annotation Pipelines
Web Services & BioMOBY
Taverna: Workflow Generation by Visual Programming
Seahawk: Web Service Integration
Coping with Massive Volumes of Data
Scalable Representation
Level-of-Detail Management
Data Visualization
2D Visualization: Represention on a Plane
3D Visualization: Building 3D Models of Genomic Context
4D Visualization: Time-Dependent Data and 3D Models
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