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Algorithmic Bioprocesses 2009 ed. [Hardback]

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  • Formāts: Hardback, 742 pages, height x width: 235x155 mm, weight: 1304 g, 109 Illustrations, color; 138 Illustrations, black and white; XX, 742 p. 247 illus., 109 illus. in color., 1 Hardback
  • Sērija : Natural Computing Series
  • Izdošanas datums: 02-Sep-2009
  • Izdevniecība: Springer-Verlag Berlin and Heidelberg GmbH & Co. K
  • ISBN-10: 3540888683
  • ISBN-13: 9783540888680
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  • Formāts: Hardback, 742 pages, height x width: 235x155 mm, weight: 1304 g, 109 Illustrations, color; 138 Illustrations, black and white; XX, 742 p. 247 illus., 109 illus. in color., 1 Hardback
  • Sērija : Natural Computing Series
  • Izdošanas datums: 02-Sep-2009
  • Izdevniecība: Springer-Verlag Berlin and Heidelberg GmbH & Co. K
  • ISBN-10: 3540888683
  • ISBN-13: 9783540888680
Citas grāmatas par šo tēmu:
A fundamental understanding of algorithmic bioprocesses is key to learning how information processing occurs in nature at the cell level. The field is concerned with the interactions between computer science on the one hand and biology, chemistry, and DNA-oriented nanoscience on the other. In particular, this book offers a comprehensive overview of research into algorithmic self-assembly, RNA folding, the algorithmic foundations for biochemical reactions, and the algorithmic nature of developmental processes.









The editors of the book invited 36 chapters, written by the leading researchers in this area, and their contributions include detailed tutorials on the main topics, surveys of the state of the art in research, experimental results, and discussions of specific research goals. The main subjects addressed are sequence discovery, generation, and analysis; nanoconstructions and self-assembly; membrane computing; formal models and analysis; process calculi and automata; biochemical reactions; and other topics from natural computing, including molecular evolution, regulation of gene expression, light-based computing, cellular automata, realistic modelling of biological systems, and evolutionary computing.



This subject is inherently interdisciplinary, and this book will be of value to researchers in computer science and biology who study the impact of the exciting mutual interaction between our understanding of bioprocesses and our understanding of computation.

Recenzijas

"In a real sense, this book answers the question, 'What is the cutting edge of research connecting computer science with the biological sciences?' ... [ I]ts breadth of content is impressive, and its combination of advanced tutorials with ambitious new proposals is scientifically exciting. ... [ The book] will best serve TCS researchers who are looking for new questions to ask, and for new areas in which to apply their skills." (Aaron Sterling, The Book Review Column 43-3, 2012)

Part I Tribute
Grzegorz Rozenberg: A Magical Scientist and Brother
3(12)
Arto Salomaa
Part II Sequence Discovery, Generation, and Analysis
Monotony and Surprise
15(16)
Alberto Apostolico
Information Content of Sets of Biological Sequences Revisited
31(12)
Alessandra Carbone
Stefan Engelen
Duplication in DNA Sequences
43(20)
Masami Ito
Lila Kari
Zachary Kincaid
Shinnosuke Seki
Sequence and Structural Analyses for Functional Non-coding RNAs
63(20)
Yasubumi Sakakibara
Kengo Sato
Part III Gene Assembly in Ciliates
Strategies for RNA-Guided DNA Recombination
83(16)
Angela Angeleska
Natasa Jonoska
Masahico Saito
Laura F. Landweber
Reality-and-Desire in Ciliates
99(18)
Robert Brijder
Hendrik Jan Hoogeboom
Template-Guided Recombination: From Theory to Laboratory
117(24)
Mark Daley
Michael Domaratzki
Part IV Nanoconstructions and Self-assembly
DNA Cages with Icosahedral Symmetry in Bionanotechnology
141(18)
Natasa Jonoska
Anne Taormina
Reidun Twarock
Applying Symmetric Enumeration Method to One-Dimensional Assembly of Rotatable Tiles
159(26)
Satoshi Kobayashi
A Self-assembly Model of Time-Dependent Glue Strength
185(20)
Sudheer Sahu
Peng Yin
John H. Reif
The Perils of Polynucleotides Revisited
205(10)
Nadrian C. Seeman
Algorithmic Control: The Assembly and Operation of DNA Nanostructures and Molecular Machinery
215(14)
Andrew J. Turberfield
Part V Membrane Computing
On Nonuniversal Symport/Antiport P Systems
229(44)
Oscar H. Ibarra
Sara Woodworth
Spiking Neural P Systems. Recent Results, Research Topics
273(20)
Gheorghe Paun
Mario J. Perez-Jimenez
Membrane Computing Schema: A New Approach to Computation Using String Insertions
293(20)
Mario J. Perez-Jimenez
Takashi Yokomori
Part VI Formal Models and Analysis
Finite Splicing: Generative Capacity, New Models and Complexity Aspects
313(18)
Paola Bonizzoni
Remco Loos
Formal Models of the Calyx of Held
331(36)
Andrea Bracciali
Marcello Brunelli
Enrico Cataldo
Pierpaolo Degano
Understanding Network Behavior by Structured Representations of Transition Invariants
367(24)
Monika Heiner
Quantitative Verification Techniques for Biological Processes
391(20)
Marta Kwiatkowska
Gethin Norman
David Parker
A New Mathematical Model for the Heat Shock Response
411(18)
Ion Petre
Andrzej Mizera
Claire L. Hyder
Andrey Mikhailov
John E. Eriksson
Lea Sistonen
Ralph-Johan Back
Part VII Process Calculi and Automata
Artificial Biochemistry
429(34)
Luca Cardelli
Process Calculi Abstractions for Biology
463(24)
Maria Luisa Guerriero
Davide Prandi
Corrado Priami
Paola Quaglia
Deriving Differential Equations from Process Algebra Models in Reagent-Centric Style
487(18)
Jane Hillston
Adam Duguid
Programmable DNA-Based Finite Automata
505(14)
Tamar Ratner
Ehud Keinan
Part VIII Biochemical Reactions
A Multi-volume Approach to Stochastic Modeling with Membrane Systems
519(24)
Daniela Besozzi
Paolo Cazzaniga
Dario Pescini
Giancarlo Mauri
Programmability of Chemical Reaction Networks
543(42)
Matthew Cook
David Soloveichik
Erik Winfree
Jehoshua Brack
Log-gain Principles for Metabolic P Systems
585(22)
Vincenzo Manca
Hybrid Method for Simulating Small-Number Molecular Systems
607(16)
Kazufumi Mizunuma
Masami Hagiya
Part IX Broader Perspective
On Involutions Arising from Graphs
623(8)
Jurriaan Hage
Tero Harju
Parallel Computing by Xeroxing on Transparencies
631(8)
Tom Head
Some Undecidable Dynamical Properties for One-Dimensional Reversible Cellular Automata
639(22)
Jarkko Kari
Ville Lukkarila
On Using Divide and Conquer in Modeling Natural Systems
661(14)
Yaki Setty
Iran R. Cohen
Avi E. Mayo
David Harel
No Molecule Is an Island: Molecular Evolution and the Study of Sequence Space
675(30)
Erik A. Schultes
Peter T. Hraber
Thomas H. LaBean
Niching Methods: Speciation Theory Applied for Multi-modal Function Optimization
705(26)
Ofer M. Shir
Thomas Back
On the Concept of Cis-regulatory Information: From Sequence Motifs to Logic Functions
731
Ryan Tarpine
Sorin Istrail
The editors and contributors include most of the key researchers working on these topics worldwide.