Genome Annotation (Hardcover)

DNA Sequencing Strategies The Evolution of DNA Sequencing TechnologiesDNA Sequence Assembly StrategiesNext-Generation SequencingSequencing Bias and Error Rates Coding Sequence Prediction Introduction Mapping Messenger RNA (mRNA) Statistical ModelsCross-Species Methods Combining Gene Predictions Splice Variants Between the GenesIntroduction Transcription FactorsRNAPseudogenesOther Repeats Genome-Associated Data Introduction Operons MetagenomicsIndividual Genomes Characterization of Gene Function through Bioinformatics: The Early Days Overview Stand-Alone Tools and Tools for the Early Internet PackagesFrom FASTA Files to Annotated GenomesConclusion Visualization Techniques and Tools for Genomic Data Introduction Visualization of Sequencing Data Visualization of Multiple Sequence Alignments Visualization of Hierarchical StructuresVisualization of Gene Expression Data Functional Annotation Introduction Biophysical and Biochemical FeaturePrediction Protein Domains Similarity SearchesPairwise Alignment MethodsConclusion Automated Annotation Systems Introduction MAGPIEGeneric Model Organism Database (GMOD)AGeSEnsemblSummary Dynamic Annotation Systems: End-User-Driven Annotation and VisualizationIntroduction Web-Based Genome Annotation BrowsersStand-Alone Genome Annotation BrowsersComparative Visualization of Genomes Web-Based WorkflowsIntroduction Principles of Web-Based WorkflowsGalaxyTavernaSeahawkConclusion Analysis Pipelines for Next-Generation Sequencing Data Introduction Genome Sequence Reconstruction Analysis Pipelines: Case StudiesNext-Generation Genome Browsing Index References appear at the end of each chapter.