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Stochastic models of diffusion contr...

Batada, Nizar Nooruddin.

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Stochastic models of diffusion controlled macromolecular interactions.

Record Type:	Electronic resources : Monograph/item
Title/Author:	Stochastic models of diffusion controlled macromolecular interactions./
Author:	Batada, Nizar Nooruddin.
Description:	104 p.
Notes:	Source: Dissertation Abstracts International, Volume: 65-11, Section: B, page: 5585.
Contained By:	Dissertation Abstracts International65-11B.
Subject:	Biophysics, General. -
Online resource:	http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3153021
ISBN:	0496134663

Stochastic models of diffusion controlled macromolecular interactions.
Batada, Nizar Nooruddin.

Stochastic models of diffusion controlled macromolecular interactions. - 104 p.

Source: Dissertation Abstracts International, Volume: 65-11, Section: B, page: 5585.

Thesis (Ph.D.)--Stanford University, 2005.

In this thesis, I study the factors that influence the rate of various diffusion-controlled reactions by creating Stochastic models of the encounter process and by computing the rate at which the first interaction event occurs. The importance of estimating the magnitude of the diffusion-limited rate stems from the fact that it provides an upper limit on the possible rate of the overall reactions. The following models, which aim to explain certain features of signal transduction pathways in eukaryotic cell, will be presented: protein-protein interaction in the cytoplasm, protein-protein interaction on the cell surface and capture of diffusing nucleotide triphosphates by RNA polymerase II. The models on protein-protein interactions in the cytoplasm and on the cell surface are simple enough that Ito Calculus can be used exclusively; however, the problem of NTP capture by RNA polymerase required that details of the electrostatic fields and the geometry of the NTP entry pore needed to be taken into consideration. Since these features are not easily described by a simple functions, this model was not analytically tractable and as a result the stochastic differential equations describing the movement of NTP had to be simulated in order to determine the quantities of interest.

ISBN: 0496134663Subjects--Topical Terms:

1019105
Biophysics, General.

Stochastic models of diffusion controlled macromolecular interactions.
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100 1 $a Batada, Nizar Nooruddin. $3 1928003
245 1 0 $a Stochastic models of diffusion controlled macromolecular interactions.
300 $a 104 p.
500 $a Source: Dissertation Abstracts International, Volume: 65-11, Section: B, page: 5585.
500 $a Adviser: Michael Levitt.
502 $a Thesis (Ph.D.)--Stanford University, 2005.
520 $a In this thesis, I study the factors that influence the rate of various diffusion-controlled reactions by creating Stochastic models of the encounter process and by computing the rate at which the first interaction event occurs. The importance of estimating the magnitude of the diffusion-limited rate stems from the fact that it provides an upper limit on the possible rate of the overall reactions. The following models, which aim to explain certain features of signal transduction pathways in eukaryotic cell, will be presented: protein-protein interaction in the cytoplasm, protein-protein interaction on the cell surface and capture of diffusing nucleotide triphosphates by RNA polymerase II. The models on protein-protein interactions in the cytoplasm and on the cell surface are simple enough that Ito Calculus can be used exclusively; however, the problem of NTP capture by RNA polymerase required that details of the electrostatic fields and the geometry of the NTP entry pore needed to be taken into consideration. Since these features are not easily described by a simple functions, this model was not analytically tractable and as a result the stochastic differential equations describing the movement of NTP had to be simulated in order to determine the quantities of interest.
590 $a School code: 0212.
650 4 $a Biophysics, General. $3 1019105
690 $a 0786
710 2 0 $a Stanford University. $3 754827
773 0 $t Dissertation Abstracts International $g 65-11B.
790 1 0 $a Levitt, Michael, $e advisor
790 $a 0212
791 $a Ph.D.
792 $a 2005
856 4 0 $u http://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=3153021