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E-raamat: Information Processing in Cells and Tissues: 9th International Conference, IPCAT 2012, Cambridge, UK, March 31 -- April 2, 2012, Proceedings

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This book constitutes the refereed proceedings of the 9th International Conference on Information in Cells and Tissues, IPCAT 2012, held in Cambridge, UK, in March/April 2012. The 13 revised full papers presented together with 26 extended abstracts were carefully reviewed and selected from numerous submissions. The papers cover a wide range of topics in disciplines related to genetic and epigenetic networks, transcriptomics and gene regulation, signalling pathways and responses, protein structure and metabolic networks, patterning and rhythm generation, neural modelling and neural networks, biomedical modelling and signal processing, information processing and representation, and algorithmic approaches in computational biology.
Genetic and Epigenetic Networks
Using Artificial Epigenetic Regulatory Networks to Control Complex Tasks within Chaotic Systems
1(11)
Alexander P. Turner
Michael A. Lones
Luis A. Fuente
Susan Stepney
Leo S. Caves
Andy M. Tyrrell
A Gene Regulatory Network Simulation of Heterosis
12(5)
Peter Martin Ferdinand Emmrich
Hannah Elizabeth Roberts
Vera Pancaldi
Comparing Discrete and Piecewise Affine Differential Equation Models of Gene Regulatory Networks
17(14)
Shahrad Jamshidi
Heike Siebert
Alexander Bockmayr
Automatic Inference of Regulatory and Dynamical Properties from Incomplete Gene Interaction and Expression Data
25(6)
Fabien Corblin
Eric Fanchon
Laurent Trilling
Claudine Chaouiya
Denis Thieffry
Transcriptomics and Gene Regulation
CRISPR Transcript Processing: An Unusual Mechanism for Rapid Production of Desired Molecules
31(4)
Marko Djordjevic
Konstantin Severinov
Magdalena Djordjevic
A Comprehensive Computational Model to Simulate Transcription Factor Binding in Prokaryotes
35(3)
Nicolae Radu Zabet
Boris Adryan
Signalling Pathways and Responses
Evolved Artificial Signalling Networks for the Control of a Conservative Complex Dynamical System
38(12)
Luis A. Fuente
Michael A. Lones
Alexander P. Turner
Susan Stepney
Leo S. Caves
Andy M. Tyrrell
The Effect of Membrane Receptor Clustering on Spatio-temporal Cell Signalling Dynamics
50(12)
Bertrand R. Care
Hedi A. Soula
Systems Biology Analysis of Kinase Inhibitor Protein Target Profiles in Leukemia Treatments
62(5)
Jacques Colinge
Uwe Rix
Keiryn L. Bennett
Giulio Superti-Furga
Multispecific Interactions in Enzymatic Signalling Cascades
67(7)
Daniel D. Seaton
J. Krishnan
Protein Structure and Metabolic Networks
Role of Physico-chemical Properties of Amino Acids in Protein's Structural Organization: A Network Perspective
74(8)
Dhriti Sengupta
Sudip Kundu
Tailored Strategies for the Analysis of Metabolomic Data
82(8)
Kristen Feher
Kathrin Jurchott
Joachim Selbig
Patterning and Rhythm Generation
Evolving Locomotion for a Simulated 12-DOF Quadruped Robot
90(9)
Gordon Klaus
Kyrre Glette
Mats Hovin
Predictive Modelling of Stem Cell Differentiation and Apoptosis in C. Elegans
99(6)
Antje Beyer
Ralf Eberhard
Nir Piterman
Michael O. Hengartner
Alex Hajnal
Jasmin Fisher
Criticality of Spatiotemporal Dynamics in Contact Mediated Pattern Formation
105(12)
Nicholas S. Flann
Hamid Mohamadlou
Gregory J. Podgorski
Neural Modelling and Neural Networks
The Vasopressin System Asynchronous Burst Firing as a Signal Encoding Mechanism
117(14)
Duncan J. MacGregor
Tom F. Clayton
Gareth Leng
The Effective Calcium/Calmodulin Concentration Determines the Sensitivity of CaMKII to the Frequency of Calcium Oscillations
131(5)
Thiago M. Pinto
Maria J. Schilstra
Volker Steuber
The Effect of Different Types of Synaptic Plasticity on the Performance of Associative Memory Networks with Excitatory and Inhibitory Sub-populations
136(7)
Alex Metaxas
Reinoud Maex
Volker Steuber
Rod Adams
Neil Davey
Simulating Neurons in Reaction-Diffusion Chemistry
143(7)
James Stovold
Simon O'Keefe
Biomedical Modelling and Signal Processing
Extending an Established Simulation: Exploration of the Possible Effects Using a Case Study in Experimental Autoimmune Encephalomyelitis
150(12)
Richard B. Greaves
Mark Read
Jon Timmis
Paul S. Andrews
Vipin Kumar
Human Uterine Excitation Patterns Leading to Labour: Synchronization or Propagation?
162(15)
Eleftheria Pervolaraki
Arun V. Holden
Evolving Computational Dynamical Systems to Recognise Abnormal Human Motor Function
177(6)
Michael A. Lones
Stephen L. Smith
Andy M. Tyrrell
Jane E. Alty
D.R. Stuart Jamieson
Heat-Maps and Visualization for Heterogeneous Biomedical Data Based on Information Distance Geometry
183(5)
Esther Loeliger
Chrystopher L. Nehaniv
Alastair J. Munro
Information Processing and Representation
Bio-inspired Information Processing Applied to Engineering Systems
188(12)
Cristina Costa Santini
Understanding the Regulation of Predatory and Anti-prey Behaviours for an Artificial Organism
200(12)
Maizura Mokhtar
Closing the Gap between Life and Physics
212(4)
Ron Cottam
Willy Ranson
Roger Vounckx
Algebraic Analysis of the Computation in the Belousov-Zhabotinksy Reaction
216(9)
Paolo Dini
Chrystopher L. Nehaniv
Attila Egri-Nagy
Maria J. Schilstra
Algorithmic Approaches in Computational Biology
Improving Transcription Factor Binding Site Predictions by Using Randomised Negative Examples
225(13)
Faisal Rezwan
Yi Sun
Neil Davey
Rod Adams
Alistair G. Rust
Mark Robinson
Finding the Minimal Gene Regulatory Function in the Presence of Undefined Transitional States Using a Genetic Algorithm
238(12)
Rocio Chave-Alvarez
Arturo Chavoya
Cuauhtemoc Lopez-Martin
Extracting Tailored Protein Complexes from Protein-Protein Interaction Networks
250(14)
Hiroshi Okamoto
A Parallel Algorithm for Multiple Biological Sequence Alignment
264(13)
Irma R. Andalon-Garcia
Arturo Chavoya
M.E. Meda-Campana
Author Index 277