Читать книгу A Framework for Scientific Discovery through Video Games - Seth Cooper - Страница 7

Contents

Preface

Chapter 1Introduction

1.1 Motivation

1.2 Problem Statement

1.2.1 Game Design Problem

1.2.2 Biochemistry Discovery Problem

1.3 Outline

Chapter 2Related Literature

2.1 Volunteer Computing and Human Computation

2.2 Serious Games and Gamification

2.3 Computational Biochemistry

Chapter 3 Framework

3.1 Introduction

3.2 Biochemistry Background

3.3 Framework Description

3.3.1 Architecture

3.3.2 Coevolution Strategy

3.3.3 Categorization as a game

3.4 Game Design Challenges

3.4.1 Visualizations

3.4.2 Interactions

3.4.3 Scoring

3.4.4 Introductory Levels

3.5 Rewards and Social Interaction

3.5.1 Rewards and ranking types

3.6 Conclusion

Chapter 4Protein Structure Prediction

4.1 Introduction

4.2 Quest to the Natives

4.3 CASP8 Experiments

4.4 Evaluation

4.5 Rebuild and Refine Comparison

4.5.1 First strand swap example

4.5.2 Player contribution and expertise

4.6 Alignment Tool and CASP9

4.7 Solution of Crystal Structure

4.8 Conclusion

Chapter 5Protein Design

5.1 Introduction

5.2 Framework Extension

5.2.1 Foldit

5.2.2 Iteration Strategy

5.3 Science Transfer

5.3.1 Visualizations

5.3.2 Tools

5.3.3 Conditions

5.4 Introductory Levels

5.5 Examples

5.5.1 Fibronectin

5.5.2 Diels-Alder

5.6 Conclusion

Chapter 6Protein Structure Refinement Algorithms

6.1 Introduction

6.2 RelatedWork

6.3 Overview

6.3.1 Cookbook

6.4 CASP9 Analysis

6.4.1 Recipe Sharing

6.4.2 Inheritance Relationships

6.4.3 Ratings

6.5 Script Recipe Adoption Analysis

6.6 Algorithm Categories

6.7 Context Dependence

6.8 Recipe Evolution

6.9 Performance Comparison

6.10 Conclusion

Chapter 7Conclusion

7.1 Contributions

7.2 Future Work

Bibliography

Author’s Biography