Effects of intrinsic and extrinsic noises on transposons kinetics

声明

摘要

Abstract

CONTENTS

Chapter 1．Introduction and background

1．1 Biological noise

1．2 Sources of Biological Noise

1．2．1 Intrinsic Noise

1．2．2 Extrinsic Noise

1．3 Transposable element

1．3．1 Aminimal model of interactions between LINEs and SINEs

1．3．2 Noise-induced predator-prey oscillations in their stochastic model

1．3．3．fluctuations of individuaI molecules

1．3．4 Biochemical Reaction Networks

1．4 The contents and arrangements of this thesis

Chapter 2．The Research theory and method of nonlinear stochastic dynamics

2．1 Introduction

2．2 Chemical master equation

2．3Langevin equation

2．4 Fokker-Planck equation

2．5 Langevin theory

Chapter 3．Intrinsic noise in cell populations dynamics of colorectal cancer

3．1．Introduction

3．2 General model with four feedback mechanisms

3．2．1 Mutational processes and tumor initiation

3．2．2 Steady states

3．2．3 A van der Waals-like Loop on Fano Facto

3．3 Comparisons the results with different methods

Chapter 4．Noise propagation in phenotypic transition cascades of clonal populations

4．1 Introduction

4．2 General Model

4．3 Theoretical Formulas For Noise Propagation

4．4 Noise Propagation In The Bidirectional Transition Cascade

4．4．1 Model and noise propagation formulae

4．4．2 Effects of MGR g1 on fluctuatioas and noise propagation in two species

4．4．3 Effects of ITR s1 on fluctuations and noise propagation in two species

4．5 Noise Propagation In The Bidirectional Unidirectional Transition Cascade

4．5．1 Model and noise propagation formulae

4．5．2 Effects of ITR s1 on fluctuations and noise propagation in three phenotypic states

4．5．3 Effects of MGR g1 on fluctuations and noise propagation in three phenotypie states

Chapter 5．Effects of intrinsic and extrinsic noises on transposons kinetics

5．1 Introduction

5．2 Mathematical Model

5．2．1 The model with intrinsic noises

5．2．2 The model with extrinsic noises

5．3 Mathematical Model

5．3．1 Additive noise-induced predator-prey oscillations in transposonkinetics

5．3．2 Multiplicative noise-induced predator-prey oscillations in transposon dynamics

5．3．3 The power spectrum of L(t) and S(t) oscillations

5．3．4 The probability distributions of L(t) and S(t)

5．3．5 The normalized correlation function of L(t)and s(t)

Chapter 6．Summary and outlook

References

Publications

Acknowledgments

第1章简介和背景

1．1生物噪音

1．2生物噪声源

1．2．1内在噪声

1．2．2外在噪声

1．3转座因子

1．3．1转座因子的分类

1．3．2动态场中TE的演变

1．3．3可模塑的转座元件

1．4本论文的内容和安排

第2章非线性随机动力学的研究理论与方法

2．1化学主方程

2．2朗之万方程

2．3福克普朗克方程

2．4朗之万理论

第3章 结直肠癌细胞群动态的内在噪声

3．1具有四种反馈机制的通用模型

3．2由于净增长率，将多样性与四个反馈进行比较

3．2．1突变过程和肿瘤开始

3．2．2稳态

3．2．3 Fano Facto上的范德华式循环

3．3用不同的方法比较结果

第4章克隆种群表型转换级联中的噪声传播

4．1前言

4．2一般模型

4．3噪声传播的理论公式

4．4双向转换级联中的噪声传播

4．4．1模型和噪声传播公式

4．4．2 MGR g1对两个物种中的波动和噪声传播的影响

4．4．3 ITR S1对两个物种中的波动和噪声传播的影响

4．5双向单向转换级联中的噪声传播

4．5．1模型和噪声传播公式

4．5．2 ITR s1对三种表型状态下的波动和噪声传播的影响

4．5．3 MGR g1对三种表型状态下的波动和噪声传播的影响

第5章内在和外在噪声对转座子动力学的影响

5．1简介

5．2数学模型

5．2．1内在噪声的模型

5．2．2具有外在噪声的模型

5．3数学模型

5．3．1转座子动力学中加性噪声诱导的捕食者-被捕食者振荡

5．3．2转座子动力学中的乘性噪声诱导的捕食者-被捕食者振荡

5．3．3L(t)和S(t)振荡的功率谱

5．3．4 L(t)和S(t)的概率分布

5．3．5 L (t)和S(t)的归一化相关函数

第6章总结和展望