定量生理學(2021年華中科技大學出版社出版的圖書)

《定量生理學》是2021年華中科技大學出版社出版的圖書。

基本介紹

• 中文名：定量生理學
• 作者：陳尚賓,[俄]阿列克謝·扎伊金
• 出版時間：2021年4月1日
• 出版社：華中科技大學出版社
• ISBN：9787568066785
• 開本：16 開
• 裝幀：平裝

內容簡介

Stephen Hawking says that the next 21st century will be the century of complexity and indeed now Systems Biology or Medicine means dealing with complexity. Both genome and physiome have been emerged in studying complex physiological systems. Computational and mathematical modelling has been regarded as an efficient tool to boost understanding about the living systems in normal or pathophysiological states.

This textbook introduces the students and researchers to the modelling and computational study of physiology (i.e. quantitative physiology), which is an increasingly important branch of systems biology. The topics cover basic methodology, case practices and advanced applications. This book aims to build multiscale model for investigating the function in living systems, or, how organisms, organ systems, organs, cells, and biomolecules carry out the chemical or physical functions that exist in a living system. Some of the models related on gene expression, calcium signalling, neural activity, blood dynamics and bone mechanics have been addressed. This book is devoted to set a paradigm for quantitative physiology by integrating biology, mathematics, physics and informatics etc.

圖書目錄

Part I Applied Methodology

1 Introduction to Quantitative Physiology . . . . . . . . 3

1.1 Understanding Physiology . . . . . . . . . . . . . . . . 3

1.2 Towards Quantitative Science . . . . . . . . . . . . . 4

1.3 FromGenome to Physiome . . . . . . . . . . . . . . . 5

1.4 Dealing with Complexity . . . . . . . . . . . . . . . . . 6

1.5 Why It Is Timely to Study Quantitative Physiology . . . . . . . . . . 6

1.5.1 Multi-Omic Revolution in Biology . 6

1.5.2 Big Data and PersonalisedMedicine 7

1.5.3 Genetic Editing and Synthetic Biology . . . . . . . . . . 8

1.6 Questions . . . . . 8

References . . . . . . . . . . 8

2 Systems and Modelling . . . . . . . . . 11

2.1 Modelling Process . . . . . . . . 11

2.2 Physiological Organ Systems . . . . . . . . 13

2.3 EquationModels . . . . . . . . . . 14

2.4 Using ODEs in Modelling Physiology . . . . . . 16

2.4.1 Modelling Oscillations . . . . . . . . . . . 16

2.4.2 Linear Stability Analysis . . . . . . . . . . 16

2.4.3 Solving ODEs with the δ-Function . 17

2.5 Conservation Laws in Physiology . . . . . . . . . . 18

2.5.1 Conservation ofMomentumand Energy . . . . . . . . .18

2.5.2 Boxing With and Without Gloves . . 19

2.5.3 RotationalMovement . . . . . . . . . . . . 20

2.6 Questions . . . . . 20

References . . . . 21

3 Introduction to Basic Modelling . . . . . . . 23

3.1 Building a SimpleMathematicalModel . . . . . 23

3.1.1 Model of Falling Flea . . . . . . . . . . . . 23

3.1.2 Scaling Arguments. . . . . . 25

3.1.3 Example: How High Can an Animal Jump? . . . . . . . 25

3.1.4 Example: How Fast Can we Walk before Breaking into a Run? . . . 25

3.2 Models that InvolveMetabolic Rate . . . . . . . . 26

3.2.1 Modelling Metabolic Rate . . . . . . . . 26

3.2.2 Example:Why do Large Birds find it Harder to Fly? . . . . . . . . . . . 27

3.2.3 Ludwig von Bertalanffy’s GrowthModel . . . . . . . 28

3.3 Questions . . . . . 29

Reference . . . . . . . . . . 29

xv

xvi Contents

4 Modelling Resources 31

4.1 Open Courses. . 31

4.2 Modelling Software . . . . . . . 31

4.3 Model Repositories . . . . . . . 34

4.4 Questions . . . . . 35

References . . . . . . . . . . 35

Part II Basic Case Studies

5 Modelling Gene Expression . . . . . . . 39

5.1 Modelling Transcriptional Regulation and Simple Networks . . . . . . . . . . . . . 39

5.1.1 Basic Notions and Equations. . . . . . . 39

5.1.2 Equations for Transcriptional Regulation . . . . . . . 39

5.1.3 Examples of Some Common Genetic Networks . . . . . . 41

5.2 Simultaneous Regulation by Inhibition and Activation . . . . . . . .. 42

5.3 Autorepressor with Delay. . . . . . . . 43

5.4 Bistable Genetic Switch . . . . . . . . . 44

5.5 Questions . . . . . 44

References . . . . . . . . . . 45

6 Metabolic Network . . 47

6.1 Metabolismand Network . . . . . . . 47

6.2 ConstructingMetabolic Network . . . . . . . . . . 49

6.3 Flux Balance Analysis . . . . . . . . 50

6.4 MyocardialMetabolic Network. . . . . . . . . . . . 51

6.5 Questions . . . . . 51

References . . . . . . . . . . 52

7 Calcium Signalling . . 53

7.1 Functions of Calcium . . . . . . 53

7.2 Calcium Oscillations . . . . . . . . 54

7.3 CalciumWaves 59

7.4 Questions . . . . . 59

References . . . . . . . . . . 60

8 Modelling Neural Activity . . . . . . . 61

8.1 Introduction to Brain Research . . . . . . . . . . . . 61

8.2 The Hodgkin–Huxley Model of Neuron Firing . . . . . . . . . 62

8.3 The FitzHugh–Nagumo Model: A Model of the HH Model . . . . . . . . . . . . . 63

8.3.1 Analysis of Phase Plane with Case Ia = 0 . . . . . . . . 63

8.3.2 Case Ia ＞0 and Conditions to Observe a Limit Cycle . . . . . . . . . . 64

8.4 Questions . . . . . 65

References . . . . . . . . . . 66

9 Blood Dynamics . . . . 67

9.1 Blood Hydrodynamics . . . . . . . 67

9.1.1 Basic Equations . . . . . . . . . . . . . . . . . 67

9.1.2 Poiseuille’s Law . . . . . . . . 67

9.2 Properties of Blood and ESR . . . . . . . 68

9.3 Elasticity of Blood Vessels . . . . . . 69

9.4 The PulseWave 69

9.5 Bernoulli’s Equation and What Happened to Arturo Toscanini in 1954 . . . . 70

9.6 The Korotkoff Sounds . . . . . . . . 71

9.7 Questions . . . . . 71

Reference . . . . . . . . . . . 72

Contents xvii

10 Bone and Body Mechanics . . . . . 73

10.1 Elastic Deformations and the Hooke’s Law. . 73

10.2 Why Long Bones are Hollow or Bending of Bones . . . . . . . . 74

10.3 Viscoelasticity of Bones . . . . . . . 77

10.4 Questions . . . . . 83

Reference . . . . . . . . . . 83

Part III Complex Applications

11 Constructive Effects of Noise . . . . . . . 87

. . . . . . . . . .

12 Complex and Surprising Dynamics in Gene Regulatory Networks . . . . . . . . . . 147

. . . . . . . . . .

13 Modelling Complex Phenomena in Physiology . . . 189

13.1 Cortical Spreading Depression (CSD) . . . . . . 189

13.1.1 What is CSD . . . . . . . . 189

13.1.2 Models of CSD . . . . . . . 189

13.1.3 Applications of CSDModels . . . . . . 192

13.1.4 Questions. . . . . . . . 196

13.2 Heart Physiome 197

13.2.1 Cardiovascular System. . . . . . . . . . . . 197

13.2.2 Heart Physiome . . . . . . . . . . . . . . . . . 198

13.2.3 Multi-Level Modelling . . . . . . . . . . . . 199

13.2.4 Questions. . . . . . . 201

13.3 Modelling of Kidney Autoregulation . . . . . . . 202

13.3.1 Renal Physiology . . . . . . . 202

13.3.2 Experimental Observations . . . . . . . . 204

13.3.3 Model of Nephron Autoregulation . . 205

13.3.4 Questions. . . . . . . . . .209

13.4 Brain Project . . 209

13.4.1 Mystery of Brain . . . . . . . . . . . . . . . . 209

13.4.2 Brain Projects . . . . . . . . . . . . . . . . . . . 210

13.4.3 Brain Simulation . . . . . . . 212

13.4.4 Mammalian Brain as a Network of Networks . . . . . . .215

13.4.5 Calculation of Integrated Information . . . . . . . . . . . . . . 223

13.4.6 Astrocytes and Integrated Information Theory of Consciousness . . 224

13.4.7 Questions. . . . . . . . . . . . 233

References . . . . . . . . . . 233

作者簡介

陳尚賓博士，武漢光電國家研究中心副教授，博士生導師。2001年於湖北師範學院獲物理學學士學位，2006年於華中科技大學獲生物醫學工程博士學位。2006年8月至今在華中科技大學工作；其間2008年2-5月在英國Bradford大學做訪問學者，2010-2012在加拿大英屬哥倫比亞大學（UBC）做博士後研究兩年。其研究工作涉及神經光學成像、神經系統建模、定量生理學，已主持完成國家自然科學基金兩項。已在Journal of Neuroscience，Biophysical Journal，Frontiers in Neuroscience等期刊發表第一作者（含通訊）論文十餘篇。2007年榮獲湖北省自然科學獎一等獎（排名5）。

合作者Alexey Zaikin教授是世界*尖高校倫敦大學學院（UCL）系統醫學和套用數學講席教授，研究興趣包括系統生物學、理論生物物理學、生物非線性動力學和隨機性建模等。Zaikin教授已發表學術論文逾百篇，包含Physical Review Letters多篇，谷歌學術統計h指數29。Zaikin教授自2016年以來短期受聘於華中科技大學工程科學學院，參與《定量生理學》課程教學。