Bioinformatics: Volume I: Data, Sequence Analysis and Evolution (Hardcover, 2008)

Table of Contents Bioinformatics: Volume I: Data, Sequence Analysis and Evolution Section I: Data and Databases Chapter 1. Managing Sequence Data Ilene Karsch Mizrachi Chapter 2. RNA Structure Determination by NMR Lincoln G. Scott and Mirko Hennig Chapter 3. Protein Structure Determination by X-ray Crystallography Andrea Ilari and Carmelinda Savino Chapter 4. Pre-processing of Microarray Data and Analysis of Differential Expression Steffen Durinck Chapter 5. Developing an Ontology Midori A. Harris Chapter 6. Genome Annotation Hideya Kawaji and Yoshihide Hayashizaki Section II: Sequence Analysis Chapter 7. Multiple Sequence Alignment Walter Pirovano and Jaap Heringa Chapter 8. Finding Genes in Genome Sequence Alice Carolyn McHardy Chapter 9. Bioinformatics Detection of Alternative Splicing Namshin Kim and Christopher Lee Chapter 10. Reconsruction of full-length isoforms from Splice Graphs Yi Xing and Christopher Lee Chapter 11. Sequence Segmentation Jonathan Keith Chapter 12. Discovering Sequence Motifs Timothy L. Bailey Section III: Phylogenetics and Evolution Chapter 13. Modeling Sequence Evolution Pietro Lio and Martin Bishop Chapter 14. Inferring Trees Simon Whelan Chapter 15. Detecting the Presence and Location of Selection in Proteins Tim Massingham Chapter 16. Phylogenetic Model Evaluation Lars Sommer Jermiin, Vivek Jayaswal, Faisal Ababneh and John Robinson Chapter 17. Inferring Ancestral Gene Order Julian M. Catchen, John S. Conery and John H. Postlethwait Chapter 18. Genome Rearrangement by the Double Cut and Join Operation Richard Friedberg, Aaron E. Darling and Sophia Yancopoulos Chapter 19. Inferring Ancestral Protein Interaction Networks Jose M. Peregrin-Alvarez Chapter 20. Computational Tools for the Analysis of Rearrangements in Mammalian Genomes Guillaume Bourque and Glenn Tesler Chapter 21. Detecting Lateral Genetic Transfer: a Phylogenetic Approach Robert G. Beiko and Mark A. Ragan Chapter 22. Detecting Genetic Recombination Georg F. Weiller Chapter 23. Inferring patterns of migration Paul M.E. Bunje and Thierry Wirth Chapter 24. Fixed-Parameter Algorithms in Phylogenetics Jens Gramm, Arfst Nickelsen and Till Tantau