Table of Contents

A Note From the Editors
Basu, S.; Cassandras, C. G., Page(s): 3-3

Guest Editorial Special Issue on Systems Biology
Khammash, M.; Tomlin, C. J.; Vidyasagar, M., Page(s): 4-7

Appreciation of the Machinations of the Blind Watchmaker
Arkin, A.; Doyle, J., Page(s): 8-9

Structural Alignment of RNAs Using Profile-csHMMs and Its Application to RNA Homology Search: Overview and New Results
Byung-Jun Yoon; Vaidyanathan, P.P., Page(s): 10-25

The 4M (Mixed Memory Markov Model) Algorithm for Finding Genes in Prokaryotic Genomes
Vidyasagar, M.; Mande, S.S.; Reddy, C.V.S.K.; Rao, V.V.R. ,Page(s): 26-37

Subtilin Production by Bacillus Subtilis: Stochastic Hybrid Models and Parameter Identification
Cinquemani, E.; Porreca, R.; Ferrari-Trecate, G.; Lygeros, J., Page(s): 38-50

Stochastic Modeling and Control of Biological Systems: The Lactose Regulation System of Escherichia ColiJulius, A.A.; Halasz, A.; Sakar, M.S.; Rubin, H.; Kumar, V.; Pappas, G.J., Page(s): 51-65


Further Results on Stabilization of Periodic Trajectories for a Chemostat With Two Species
Mazenc, F.; Malisoff, M.; Harmand, J.Page(s): 66-74


A Passivity-Based Approach to Stability of Spatially Distributed Systems With a Cyclic Interconnection Structure Jovanovic, M.R.; Arcak, M.; Sontag, E.D.Page(s): 75-86


Bistable Biological Systems: A Characterization Through Local Compact Input-to-State Stability
Chaves, M.; Eissing, T.; Allgwer, F.Page(s): 87-100

Model for Photosynthesis and Photoinhibition: Parameter Identification Based on the Harmonic Irradiation $O_{2}$ Response Measurement
Rehak, B.; Celikovsky, S.; Papacek, S.Page(s): 101-108


An Adjoint-Based Parameter Identification Algorithm Applied to Planar Cell Polarity Signaling
Raffard, R.L.; Amonlirdviman, K.; Axelrod, J.D.; Tomlin, C.J.Page(s): 109-121


Passivity and Optimal Control of Descriptor Biological Complex Systems
Peiyong Liu; Qingling Zhang; Xiaoguang Yang; Li Yang Page(s): 122-125


Systems Analysis of Regulatory Processes Underlying Eukaryotic Gradient Perception
Krishnan, J.; Iglesias, P.A.Page(s): 126-138


Controllability Analysis of Biosystems Based on Piecewise-Affine Systems Approach
Azuma, S.; Yanagisawa, E.; Imura, J.Page(s): 139-152


The Switching Threshold Reconstruction Problem for Piecewise-Affine Models of Genetic Regulatory Networks Drulhe, S.; Ferrari-Trecate, G.; de Jong, H. Page(s): 153-165


Oscillations in I/O Monotone Systems Under Negative Feedback
Angeli, D.; Sontag, E.D.Page(s): 166-176


Sensitivity Measures for Oscillating Systems: Application to Mammalian Circadian Gene Network
Taylor, S.R.; Gunawan, R.; Petzold, L.R.; Doyle, F.J.Page(s): 177-188


Noise in Gene Regulatory Networks
Lestas, I.; Paulsson, J.; Ross, N.E.; Vinnicombe, G. Page(s): 189-20


The Finite State Projection Approach for the Analysis of Stochastic Noise in Gene Networks
Munsky, B.; Khammash, M.Page(s): 201-214


Temporal Logic Analysis of Gene Networks Under Parameter Uncertainty
Batt, G.; Belta, C.; Weiss, R .Page(s): 215-229


Clinical Tests of Therapeutical Failures Based on Mathematical Modeling of the HIV Infection
Ouattara, D.A.; Mhawej, M.-J.; Moog, C.H.Page(s): 230-241


IEEE Transactions on Circuits and Systems—I: Regular Papers blank page
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