Systems Biology Volume I: Genomics

by Rigoutsos, Isidore; Stephanopoulos, Gregory

• ISBN13: 9780195300819
• ISBN10: 0195300815
• Edition: 1st
• Format: Hardcover
• Copyright: 2006-09-14
• Publisher: Oxford University Press

Summary

The advent of genome sequencing and associated technologies has transformed biologists' ability to measure important classes of molecules and their interactions. This expanded cellular view has opened the field to thousands of interactions that previously were outside the researchers' reach.The processing and interpretation of these new vast quantities of interconnected data call for sophisticated mathematical models and computational methods. Systems biology meets this need by combining genomic knowledge with theoretical, experimental and computational approaches from a number oftraditional scientific disciplines to create a mechanistic explanation of cellular systems and processes. Systems Biology I: Genomics and Systems Biology II: Networks, Models, and Applications offer a much-needed study of genomic principles and their associated networks and models. Written for a wide audience, each volume presents a timely compendium of essential information that is necessary for acomprehensive study of the subject. The chapters in the two volumes reflect the hierarchical nature of systems biology. Chapter authors-world-recognized experts in their fields-provide authoritative discussions on a wide range of topics along this hierarchy. Volume I explores issues pertaining togenomics that range from prebiotic chemistry to noncoding RNAs. Volume II covers an equally wide spectrum, from mass spectrometry to embryonic stem cells. The two volumes are meant to provide a reliable reference for students and researchers alike.

Table of Contents

Contributors	xi
Systems Biology: A Perspective	xiii
1 Prebiotic Chemistry on the Primitive Earth	3	(54)
Stanley L. Miller & H. James Cleaves
2 Prebiotic Evolution and the Origin of Life: Is a System-Level Understanding Feasible?	57	(22)
Antonio Lazcano
3 Shotgun Fragment Assembly	79	(39)
Granger Sutton & Ian Dew
4 Gene Finding	118	(36)
John Besemer & Mark Borodovsky
5 Local Sequence Similarities	154	(12)
Temple F. Smith
6 Complete Prokaryotic Genomes: Reading and Comprehension	166	(21)
Michael Y. Galperin & Eugene V. Koonin
7 Protein Structure Prediction	187	(32)
Jeffrey Skolnick & Yang Zhang
8 DNA—Protein Interactions	219	(29)
Gary D. Stormo
9 Some Computational Problems Associated with Horizontal Gene Transfer	248	(21)
Michael Syvanen
10 Noncoding RNA and RNA Regulatory Networks in the Systems Biology of Animals	269	(34)
John S. Mattick
Index	303