By Falko Dressler (auth.), Corrado Priami (eds.)
The LNCS magazine Transactions on Computational platforms Biology is dedicated to inter- and multidisciplinary learn within the fields of desktop technology and existence sciences. It helps a paradigmatic shift within the suggestions from computing device and knowledge technological know-how to deal with the recent demanding situations coming up from the platforms orientated standpoint of organic phenomena.
The six papers chosen for this specified factor are: Bio-inspired Network-Centric Operation and regulate for Sensor/Actuator Networks; A Computationally speedy and Parametric version to Estimate Protein-Ligand Docking Time for Stochastic occasion established Simulation; Equation-Based Congestion keep watch over within the net Biologic setting; Computational considering in Biology; End-to-End info administration for platforms Biology; and a corrected model of: On Differentiation and Homeostatic Behaviours of Boolean Dynamical Systems
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Extra info for Transactions on Computational Systems Biology VIII
Representation and simulation of biochemical processes using the π-calculus process algebra. In: Proceedings of the Paciﬁc Symposium of Biocomputing 2001 (PSB2001), vol. 6, pp. 459–470 42. : Application of a stochastic name passing calculus to representation and simulation of molecular processes. Information Processing Letters 80, 25–31 43. : Representation and simulation of molecular pathways in the stochastic π-calculus. In: Proceedings of the 2nd workshop on Computation of Biochemical Pathways and Genetic Networks (2001) 44.
This requires a total of n3s iterations. 3 We next ﬁnd the average angle of rotation considering 3 docking points, θavg , ns ns 3 3 from the 3 diﬀerent θi ’s (1 ≤ i ≤ 3 ) calculated (where, θi denotes the angle computed using the above equations for the ith combination of 3 docking points). Assuming uniform probability for all these cases, we have: (n3s ) 3 = θavg i=1 θi3 ns 3 (26) Note that if greater number of docking points come within the threshold distance, j θavg (4 ≤ j ≤ ns ) will continue to decrease.
8. Volume swept out by the ligand molecule in time Δt The number of collisions during a time period Δt is determined when a ligand molecule will be inside the space that is created by the motion of the collision cross section over this time period due to the motion of the ligand molecule. As mentioned before, pb denotes the probability of collision of the ligand with the protein with enough kinetic energy for the binding to occur successfully. In time Δt, the ligand molecule sweeps out a volume ΔV given by: ΔV = πrP2 L U Δt Now, the probability of the ligand molecule being present in the collision volume ΔV is pL = 1 (it is given that one ligand molecule arrived creating a collision volume of ΔV ).
Transactions on Computational Systems Biology VIII by Falko Dressler (auth.), Corrado Priami (eds.)