{"product_id":"an-introduction-to-high-content-screening-isbn-9780470624562","title":"An Introduction To High Content Screening","description":"\u003cp\u003e\u003cbr\u003e Using a collaborative and interdisciplinary author base with experience in the pharmaceutical industry and academia, this book is a practical resource for high content (HC) techniques.\u003c\/p\u003e \u003cp\u003e• Instructs readers on the fundamentals of high content screening (HCS) techniques\u003cbr\u003e • Focuses on practical and widely-used techniques like image processing and multiparametric assays\u003cbr\u003e • Breaks down HCS into individual modules for training and connects them at the end\u003cbr\u003e • Includes a tutorial chapter that works through sample HCS assays, glossary, and detailed appendices\u003c\/p\u003e \u003cp\u003ePREFACE xvii\u003c\/p\u003e \u003cp\u003eCONTRIBUTORS xix\u003c\/p\u003e \u003cp\u003e\u003cb\u003e1 Introduction 1\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eSteven A. Haney\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e1.1 The Beginning of High Content Screening, 1\u003c\/p\u003e \u003cp\u003e1.2 Six Skill Sets Essential for Running HCS Experiments, 4\u003c\/p\u003e \u003cp\u003e1.3 Integrating Skill Sets into a Team, 7\u003c\/p\u003e \u003cp\u003e1.4 A Few Words on Experimental Design, 8\u003c\/p\u003e \u003cp\u003e1.5 Conclusions, 9\u003c\/p\u003e \u003cp\u003eKey Points, 9\u003c\/p\u003e \u003cp\u003eFurther Reading, 10\u003c\/p\u003e \u003cp\u003eReferences, 10\u003c\/p\u003e \u003cp\u003e\u003cb\u003eSECTION I FIRST PRINCIPLES 11\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003e2 Fluorescence and Cell Labeling 13\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eAnthony Davies and Steven A. Haney\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e2.1 Introduction, 13\u003c\/p\u003e \u003cp\u003e2.2 Anatomy of Fluorescent Probes, Labels, and Dyes, 14\u003c\/p\u003e \u003cp\u003e2.3 Stokes’ Shift and Biological Fluorophores, 15\u003c\/p\u003e \u003cp\u003e2.4 Fluorophore Properties, 16\u003c\/p\u003e \u003cp\u003e2.5 Localization of Fluorophores Within Cells, 18\u003c\/p\u003e \u003cp\u003e2.6 Multiplexing Fluorescent Reagents, 26\u003c\/p\u003e \u003cp\u003e2.7 Specialized Imaging Applications Derived from Complex Properties of Fluorescence, 27\u003c\/p\u003e \u003cp\u003e2.8 Conclusions, 30\u003c\/p\u003e \u003cp\u003eKey Points, 31\u003c\/p\u003e \u003cp\u003eFurther Reading, 31\u003c\/p\u003e \u003cp\u003eReferences, 31\u003c\/p\u003e \u003cp\u003e\u003cb\u003e3 Microscopy Fundamentals 33\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eSteven A. Haney, Anthony Davies, and Douglas Bowman\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e3.1 Introducing HCS Hardware, 33\u003c\/p\u003e \u003cp\u003e3.2 Deconstructing Light Microscopy, 37\u003c\/p\u003e \u003cp\u003e3.3 Using the Imager to Collect Data, 43\u003c\/p\u003e \u003cp\u003e3.4 Conclusions, 45\u003c\/p\u003e \u003cp\u003eKey Points, 45\u003c\/p\u003e \u003cp\u003eFurther Reading, 46\u003c\/p\u003e \u003cp\u003eReferences, 46\u003c\/p\u003e \u003cp\u003e\u003cb\u003e4 Image Processing 47\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eJohn Bradley, Douglas Bowman, and Arijit Chakravarty\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e4.1 Overview of Image Processing and Image Analysis in HCS, 47\u003c\/p\u003e \u003cp\u003e4.2 What is a Digital Image?, 48\u003c\/p\u003e \u003cp\u003e4.3 “Addressing” Pixel Values in Image Analysis Algorithms, 48\u003c\/p\u003e \u003cp\u003e4.4 Image Analysis Workflow, 49\u003c\/p\u003e \u003cp\u003e4.5 Conclusions, 60\u003c\/p\u003e \u003cp\u003eKey Points, 60\u003c\/p\u003e \u003cp\u003eFurther Reading, 60\u003c\/p\u003e \u003cp\u003eReferences, 60\u003c\/p\u003e \u003cp\u003e\u003cb\u003eSECTION II GETTING STARTED 63\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003e5 A General Guide to Selecting and Setting Up a High Content Imaging Platform 65\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eCraig Furman, Douglas Bowman, Anthony Davies, Caroline Shamu, and Steven A. Haney\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e5.1 Determining Expectations of the HCS System, 65\u003c\/p\u003e \u003cp\u003e5.2 Establishing an HC Platform Acquisition Team, 66\u003c\/p\u003e \u003cp\u003e5.3 Basic Hardware Decisions, 67\u003c\/p\u003e \u003cp\u003e5.4 Data Generation, Analysis, and Retention, 72\u003c\/p\u003e \u003cp\u003e5.5 Installation, 73\u003c\/p\u003e \u003cp\u003e5.6 Managing the System, 75\u003c\/p\u003e \u003cp\u003e5.7 Setting Up Workflows for Researchers, 77\u003c\/p\u003e \u003cp\u003e5.8 Conclusions, 78\u003c\/p\u003e \u003cp\u003eKey Points, 79\u003c\/p\u003e \u003cp\u003eFurther Reading, 79\u003c\/p\u003e \u003cp\u003e\u003cb\u003e6 Informatics Considerations 81\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eJay Copeland and Caroline Shamu\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e6.1 Informatics Infrastructure for High Content Screening, 81\u003c\/p\u003e \u003cp\u003e6.2 Using Databases to Store HCS Data, 86\u003c\/p\u003e \u003cp\u003e6.3 Mechanics of an Informatics Solution, 89\u003c\/p\u003e \u003cp\u003e6.4 Developing Image Analysis Pipelines: Data Management Considerations, 95\u003c\/p\u003e \u003cp\u003e6.5 Compliance With Emerging Data Standards, 99\u003c\/p\u003e \u003cp\u003e6.6 Conclusions, 101\u003c\/p\u003e \u003cp\u003eKey Points, 102\u003c\/p\u003e \u003cp\u003eFurther Reading, 102\u003c\/p\u003e \u003cp\u003eReferences, 102\u003c\/p\u003e \u003cp\u003e\u003cb\u003e7 Basic High Content Assay Development 103\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eSteven A. Haney and Douglas Bowman\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e7.1 Introduction, 103\u003c\/p\u003e \u003cp\u003e7.2 Initial Technical Considerations for Developing a High Content Assay, 103\u003c\/p\u003e \u003cp\u003e7.3 A Simple Protocol to Fix and Stain Cells, 107\u003c\/p\u003e \u003cp\u003e7.4 Image Capture and Examining Images, 109\u003c\/p\u003e \u003cp\u003e7.5 Conclusions, 111\u003c\/p\u003e \u003cp\u003eKey Points, 112\u003c\/p\u003e \u003cp\u003eFurther Reading, 112\u003c\/p\u003e \u003cp\u003eReference, 112\u003c\/p\u003e \u003cp\u003e\u003cb\u003eSECTION III ANALYZING DATA 113\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003e8 Designing Metrics for High Content Assays 115\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eArijit Chakravarty, Steven A. Haney, and Douglas Bowman\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e8.1 Introduction: Features, Metrics, Results, 115\u003c\/p\u003e \u003cp\u003e8.2 Looking at Features, 116\u003c\/p\u003e \u003cp\u003e8.3 Metrics and Results: The Metric is the Message, 120\u003c\/p\u003e \u003cp\u003e8.4 Types of High Content Assays and Their Metrics, 121\u003c\/p\u003e \u003cp\u003e8.5 Metrics to Results: Putting it all Together, 126\u003c\/p\u003e \u003cp\u003e8.6 Conclusions, 128\u003c\/p\u003e \u003cp\u003eKey Points, 128\u003c\/p\u003e \u003cp\u003eFurther Reading, 129\u003c\/p\u003e \u003cp\u003eReferences, 129\u003c\/p\u003e \u003cp\u003e\u003cb\u003e9 Analyzing Well-Level Data 131\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eSteven A Haney and John Ringeling\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e9.1 Introduction, 131\u003c\/p\u003e \u003cp\u003e9.2 Reviewing Data, 132\u003c\/p\u003e \u003cp\u003e9.3 Plate and Control Normalizations of Data, 134\u003c\/p\u003e \u003cp\u003e9.4 Calculation of Assay Statistics, 135\u003c\/p\u003e \u003cp\u003e9.5 Data Analysis: Hit Selection, 138\u003c\/p\u003e \u003cp\u003e9.6 IC 50 Determinations, 139\u003c\/p\u003e \u003cp\u003e9.7 Conclusions, 143\u003c\/p\u003e \u003cp\u003eKey Points, 143\u003c\/p\u003e \u003cp\u003eFurther Reading, 143\u003c\/p\u003e \u003cp\u003eReferences, 144\u003c\/p\u003e \u003cp\u003e\u003cb\u003e10 Analyzing Cell-Level Data 145\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eSteven A. Haney, Lin Guey, and Arijit Chakravarty\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e10.1 Introduction, 145\u003c\/p\u003e \u003cp\u003e10.2 Understanding General Statistical Terms and Concepts, 146\u003c\/p\u003e \u003cp\u003e10.3 Examining Data, 149\u003c\/p\u003e \u003cp\u003e10.4 Developing a Data Analysis Plan, 155\u003c\/p\u003e \u003cp\u003e10.5 Cell-Level Data Analysis: Comparing Distributions Through Inferential Statistics, 158\u003c\/p\u003e \u003cp\u003e10.6 Analyzing Normal (or Transformed) Data, 159\u003c\/p\u003e \u003cp\u003e10.7 Analyzing Non-Normal Data, 160\u003c\/p\u003e \u003cp\u003e10.8 When to Call For Help, 162\u003c\/p\u003e \u003cp\u003e10.9 Conclusions, 162\u003c\/p\u003e \u003cp\u003eKey Points, 162\u003c\/p\u003e \u003cp\u003eFurther Reading, 163\u003c\/p\u003e \u003cp\u003eReferences, 163\u003c\/p\u003e \u003cp\u003e\u003cb\u003eSECTION IV ADVANCED WORK 165\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003e11 Designing Robust Assays 167\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eArijit Chakravarty, Douglas Bowman, Anthony Davies, Steven A. Haney, and Caroline Shamu\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e11.1 Introduction, 167\u003c\/p\u003e \u003cp\u003e11.2 Common Technical Issues in High Content Assays, 167\u003c\/p\u003e \u003cp\u003e11.3 Designing Assays to Minimize Trouble, 172\u003c\/p\u003e \u003cp\u003e11.4 Looking for Trouble: Building in Quality Control, 177\u003c\/p\u003e \u003cp\u003e11.5 Conclusions, 179\u003c\/p\u003e \u003cp\u003eKey Points, 180\u003c\/p\u003e \u003cp\u003eFurther Reading, 180\u003c\/p\u003e \u003cp\u003eReferences, 180\u003c\/p\u003e \u003cp\u003e\u003cb\u003e12 Automation and Screening 181\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eJohn Ringeling, John Donovan, Arijit Chakravarty, Anthony Davies, Steven A Haney, Douglas Bowman, and Ben Knight\u003cbr\u003e\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e12.1 Introduction, 181\u003c\/p\u003e \u003cp\u003e12.2 Some Preliminary Considerations, 181\u003c\/p\u003e \u003cp\u003e12.3 Laboratory Options, 183\u003c\/p\u003e \u003cp\u003e12.4 The Automated HCS Laboratory, 186\u003c\/p\u003e \u003cp\u003e12.5 Conclusions, 192\u003c\/p\u003e \u003cp\u003eKey Points, 192\u003c\/p\u003e \u003cp\u003eFurther Reading, 193\u003c\/p\u003e \u003cp\u003e\u003cb\u003e13 High Content Analysis for Tissue Samples 195\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eKristine Burke, Vaishali Shinde, Alice McDonald, Douglas Bowman, and Arijit Chakravarty\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e13.1 Introduction, 195\u003c\/p\u003e \u003cp\u003e13.2 Design Choices in Setting Up a High Content Assay in Tissue, 196\u003c\/p\u003e \u003cp\u003e13.3 System Configuration: Aspects Unique to Tissue-Based HCS, 199\u003c\/p\u003e \u003cp\u003e13.4 Data Analysis, 203\u003c\/p\u003e \u003cp\u003e13.5 Conclusions, 207\u003c\/p\u003e \u003cp\u003eKey Points, 207\u003c\/p\u003e \u003cp\u003eFurther Reading, 207\u003c\/p\u003e \u003cp\u003eReferences, 208\u003c\/p\u003e \u003cp\u003e\u003cb\u003eSECTION V HIGH CONTENT ANALYTICS 209\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003e14 Factoring and Clustering High Content Data 211\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eSteven A. Haney\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e14.1 Introduction, 211\u003c\/p\u003e \u003cp\u003e14.2 Common Unsupervised Learning Methods, 212\u003c\/p\u003e \u003cp\u003e14.3 Preparing for an Unsupervised Learning Study, 218\u003c\/p\u003e \u003cp\u003e14.4 Conclusions, 228\u003c\/p\u003e \u003cp\u003eKey Points, 228\u003c\/p\u003e \u003cp\u003eFurther Reading, 228\u003c\/p\u003e \u003cp\u003eReferences, 229\u003c\/p\u003e \u003cp\u003e\u003cb\u003e15 Supervised Machine Learning 231\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eJeff Palmer and Arijit Chakravarty\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003e15.1 Introduction, 231\u003c\/p\u003e \u003cp\u003e15.2 Foundational Concepts, 232\u003c\/p\u003e \u003cp\u003e15.3 Choosing a Machine Learning Algorithm, 234\u003c\/p\u003e \u003cp\u003e15.4 When Do You Need Machine Learning, and How Do You Use IT?, 243\u003c\/p\u003e \u003cp\u003e15.5 Conclusions, 244\u003c\/p\u003e \u003cp\u003eKey Points, 244\u003c\/p\u003e \u003cp\u003eFurther Reading, 244\u003c\/p\u003e \u003cp\u003e\u003cb\u003eAppendix A Websites and Additional Information on Instruments, Reagents, and Instruction 247\u003c\/b\u003e\u003c\/p\u003e \u003cp\u003e\u003cb\u003eAppendix B A Few Words About One Letter: Using R to Quickly\u003c\/b\u003e \u003cb\u003eAnalyze HCS Data 249\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eSteven A. Haney\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eB.1 Introduction, 249\u003c\/p\u003e \u003cp\u003eB.2 Setting Up R, 250\u003c\/p\u003e \u003cp\u003eB.3 Analyzing Data in R, 253\u003c\/p\u003e \u003cp\u003eB.4 Where to Go Next, 261\u003c\/p\u003e \u003cp\u003eFurther Reading, 263\u003c\/p\u003e \u003cp\u003e\u003cb\u003eAppendix C Hypothesis Testing for High Content Data: A Refresher 265\u003c\/b\u003e\u003cbr\u003e \u003ci\u003eLin Guey and Arijit Chakravarty\u003c\/i\u003e\u003c\/p\u003e \u003cp\u003eC.1 Introduction, 265\u003c\/p\u003e \u003cp\u003eC.2 Defining Simple Hypothesis Testing, 266\u003c\/p\u003e \u003cp\u003eC.3 Simple Statistical Tests to Compare Two Groups, 269\u003c\/p\u003e \u003cp\u003eC.4 Statistical Tests on Groups of Samples, 276\u003c\/p\u003e \u003cp\u003eC.5 Introduction to Regression Models, 280\u003c\/p\u003e \u003cp\u003eC.6 Conclusions, 285\u003c\/p\u003e \u003cp\u003eKey Concepts, 286\u003c\/p\u003e \u003cp\u003eFurther Reading, 286\u003c\/p\u003e \u003cp\u003eGLOSSARY 287\u003c\/p\u003e \u003cp\u003eTUTORIAL 295\u003c\/p\u003e \u003cp\u003eINDEX 323\u003c\/p\u003e \u003cb\u003eSteven Haney \u003c\/b\u003eis a Senior Research Advisor and Group Leader at Eli Lilly and Company. He edited the book \u003ci\u003eHigh Content Screening: Science, Techniques, and Applications\u003c\/i\u003e (Wiley, 2008).\u003cbr\u003e\u003cb\u003e\u003cbr\u003eDouglas Bowman\u003c\/b\u003e is an Associate Scientific Fellow at Takeda Pharmaceuticals.\u003cbr\u003e\u003cb\u003e\u003cbr\u003eArijit Chakravarty\u003c\/b\u003e is the Director of Modeling and Simulation (DMPK) at Takeda Pharmaceuticals.\u003cbr\u003e\u003cb\u003e\u003cbr\u003eAnthony Davies\u003c\/b\u003e is Center Director, Translational Cell Imaging, Queensland University Of Technology, Queensland, Australia.\u003cbr\u003e\u003cb\u003e\u003cbr\u003eCaroline Shamu\u003c\/b\u003e is the Director of the ICCB-Longwood Screening Facility at Harvard Medical School.  \u003cp\u003eMaster the Power of High Content Screening\u003c\/p\u003e \u003cp\u003eAlthough the level of interest and investment in high content (HC) technologies is growing rapidly, new users have been missing a standard and accessible introduction to the field. This book fills that need as a practical resource for HC techniques.\u003c\/p\u003e \u003cp\u003eUsing a collaborative and interdisciplinary author base with experience in the pharmaceutical industry and academia, this book focuses on the fundamental concepts, rather than advanced material. The major objectives for the book are to educate people about the basic principles underlying HC screening that are rarely (or never) discussed in many publications in the field, and to provide the technical training needed to enable readers to design and implement their own HC screens. These objectives are met through the main text of the book, a tutorial chapter and a detailed appendix.\u003c\/p\u003e \u003cp\u003e• Instructs readers on the fundamentals of high content screening (HCS) techniques\u003cbr\u003e • Focuses on practical and widely-used techniques like image processing and multiparametric assays\u003cbr\u003e • Breaks down HCS into individual modules for training and connects them at the end\u003cbr\u003e • Includes a tutorial chapter that works through sample HCS assays, glossary, and detailed appendices\u003c\/p\u003e","brand":"Wiley","offers":[{"title":"Default Title","offer_id":47988726464741,"sku":"NP9780470624562","price":144.95,"currency_code":"USD","in_stock":false}],"thumbnail_url":"\/\/cdn.shopify.com\/s\/files\/1\/1842\/7735\/files\/9780470624562.jpg?v=1761781348","url":"https:\/\/k12savings.com\/es\/products\/an-introduction-to-high-content-screening-isbn-9780470624562","provider":"K12savings","version":"1.0","type":"link"}