DNA Microarray Market Trends (Installed Base, Applications, Purchase Plans and The Impact of Next-Gen Sequencing)

Table of Contents

TABLE OF CONTENTS

CHAPTER ONE: EXECUTIVE SUMMARY

• Introduction
• Scope
• Lab Demographics
• Summary of Findings

CHAPTER TWO: INTRODUCTION & DEMOGRAPHICS

• Methodology
• Outline
• Demographics
  • Regional Distribution of Respondents’ Labs
  • Industrial Distribution of Respondents Labs
  • Laboratory Function of Respondents’ Labs
    • OverallRegional Distribution
  • Positions/ Titles of Respondents
  • Distribution of Systems Installed
    • Numbers of Scanners/ Readers in Labs
    • Numbers of Fluidics Stations
    • Numbers of Hybridization Ovens
    • Number of Other Scanners/ Readers in Organization
    • Number of Other Scanners/ Readers in Organization
  • Brand(s) of Scanners/ Readers Owned

CHAPTER THREE: SYSTEM INSTALLATIONS

• Distribution of Scanner Models
  • Total and Average Number of Readers by Brand
  • Affymetrix Scanners/ Readers Installed
  • Illumina Scanners/ Readers Installed
  • Agilent Scanners/ Readers Installed
  • Molecular Devices (Axon) Readers/ Scanners Installed
  • Other Scanners/ Readers Installed
  • Brands of Scanners in Labs, Cross-Referenced
  • Brands of Hybridization Ovens
  • 3rd Party Software Used for Data Analysis
• Installed Base by Region
  • Overall Brand/ Type
• Installed Base of Readers by Industry Segment
• Installed Base of Readers by Laboratory Function
• Applications and Usage Trends
  • Applications, Chips, Number of Samples
  • Applications Run Overall and by Brand/ Type
  • Applications Most Likely to Increase
  • Number of Microarray Samples Run per Month, by Brand
  • Brand of Microarrays Used Most by Scanner/ Reader
  • Top Catalog Microarray Products Used, by Brand
  • Usage of Catalog vs Custom Chips
• Main Source for Custom Microarrays/ Probes
• Outsourcing
• Systems Used to Check Concentration, Size, Quality

CHAPTER FOUR: PREFERENCES AND EVALUATIONS

• Ratings and Evaluations of Systems
  • Ratings by Brand
  • End-user Verbatim Comments About Microarray System Brands
    • General (multiple brands)
    • Affymetrix
    • Agilent
    • Illumina
    • In-house/ spotted
    • NimbleGen
• Changes or Improvements, by Brand
  • Bottlenecks in Process, by Brand
  • Criteria for Choosing Sample Preparation Products
• Brands Used Most for Sample Preparation
  • RNA/DNA Extraction
  • Brands Used for Amplification and Labeling
• Difficulty of Data Analysis & Data Management
  • Data Analysis
  • Data Management
• End-User Verbatim Comments
  • Data Analysis

CHAPTER FIVE: FUTURE PURCHASE PLANS

• Time-Frame of Microarray System Purchase Plans
• System Purchases Planned Within Two Years
• Systems Labs Would Choose Today for Same Applications
• Expected Effects of Next-Gen Sequencing on Microarrays
  • Impact of Sequencing on Labs’ Microarray Usage
  • End-User Verbatim Comments
  • Near-term Effects, Large Effects
  • Longer term Effects
  • Minor effects

TABLE OF EXHIBITS

CHAPTER ONE: EXECUTIVE SUMMARY

Table 1-1: Summary of Findings

CHAPTER TWO: INTRODUCTION & DEMOGRAPHICS

• Table 2-1: Regional Distribution of Respondent Labs
• Figure 2-1: Regional Distribution of Respondent Labs
• Table 2-2: Industrial Distribution of Respondent Labs
• Figure 2-2: Industrial Distribution of Respondent Labs
• Table 2-3: Industrial Distribution by Region
• Table 2-4: Industrial Distribution by Region
• Figure 2-3: Industrial Distribution by Region
• Table 2-5: Distribution of Labs’ Main Function(s)
• Figure 2-4: Distribution of Labs’ Main Function(s)
• Table 2-6: Distribution of Lab Function(s) by Region
• Table 2-7: Distribution of Lab Function(s) by Region
• Figure 2-5: Distribution of Lab Function(s) by Region
• Table 2-9: Distribution of Respondents’ Position/ Title
• Figure 2-6: Distribution of Respondents’ Position/ Title
• Table 2-10: Distribution of Total Number of Scanners/ Readers
• Figure 2-7: Distribution of Total Number of Scanners/ Readers
• Table 2-11: Distribution of Number of Affymetrix Fluidics Stations
• Figure 2-8: Distribution of Number of Affymetrix Fluidics Stations
• Table 2-12: Distribution of Number of Hybridization Ovens
• Table 2-13: Number of Other Scanners/ Readers in Organization
• Table 2-14: Other Systems Used in Lab for These Applications
• Figure 2-9: Other Systems Used in Lab for These Applications
• Table 2-15: Brand(s) of Scanner/ Reader Owned
• Figure 2-10: Brand(s) of Scanner/ Reader Owned

CHAPTER THREE: SYSTEM INSTALLATIONS

• Table 3-1: Number of Systems Installed, by BrandFigure 3-1: Average Number of Systems Installed, by Brand
• Table 3-2: Scanner Models Installed in Affymetrix Owning Labs
• Figure 3-2: Scanner Models in Affymetrix Owning Labs (% of Sys)
• Table 3-4: System Models Installed in Illumina Owning Labs
• Figure 3-4: System Models Installed in Illumina Owning Labs (% of Sys)
• Table 3-5: Scanner Models Installed in Agilent Owning Labs
• Figure 3-5: Scanner Models Installed in Agilent Owning Labs (% of Sys)
• Table 3-6: Scanner Models Installed in Molec. Devices Owning Labs
• Figure 3-6: Scanners Installed in Molec. Devices Owning Labs (% of Sys)
• Table 3-7: Other Scanners Installed in Respondent Labs
• Figure 3-7: Other Scanners Installed in Respondent Labs (% of Systems)
• Table 3-8: Brands of Readers in Labs Owning Given Brand (# of Systems)
• Figure 3-8: Brands of Readers in Labs Owning Given Brand (% of Systems)
• Table 3-9: Brands of Hybridization Ovens Installed
• Figure 3-9: Brands of Hybridization Ovens Installed (% of Systems)
• Table 3-10: Third-Party Software Used for Data Analysis
• Table 3-11: Number of Scanners/ Readers by Region
• Table 3-12: Brands of Scanners/ Readers by Region
• Table 3-13: Brands of Scanners/ Readers by Region
• Figure 3-10: Brands of Scanners/ Readers by Region (% of Systems)
• Table 3-14: Regional Distribution Cross-Referenced by Brand
• Table 3-15: Number of Scanners/ Readers by Industry/ Segment
• Table 3-16: Brands of Scanners/ Readers by Industry/ Segment
• Table 3-17: Brands of Scanners/ Readers by Industry/ Segment
• Table 3-18: Industrial Distribution Cross-Referenced by Brand
• Table 3-19: Number of Scanners/ Readers by Lab Function
• Table 3-20: Brands of Scanners/ Readers by Lab Function
• Table 3-21: Brands of Scanners/ Readers by Lab Function
• Table 3-22: Lab Function Distribution, Cross-Referenced by Brand
• Table 3-23: Applications Run on System, by Brand of Reader
• Figure 3-11: Applications Run on System, by Brand of Reader
• Table 3-24: Applications Most Likely to Increase
• Figure 3-12: Applications Most Likely to Increase
• Table 3-25: Number of Samples/ Month, by Brand (# of Scanners)
• Table 3-26: Number of Samples/ Month, by Brand (% of Scanners)
• Table 3-27: # Samples/ Month by Brand, Cross-Referenced by # Samples
• Table 3-26: Microarray Brand(s) Used Most by Reader (# of Readers)
• Table 3-27: Microarray Brand(s) Used Most by Reader (% of Readers)
• Table 3-28: Brands Used by Reader, Cross-Referenced by Chip Brand
• Table 3-29: Top Three Microarrays Used, by Brand
• Table 3-30: Percentage Usage of Catalog vs Custom Chips
• Figure 3-13: Percentage Usage of Catalog vs Custom Chips
• Table 3-31: Source(s) of Custom Microarrays/ Probes (% of Labs)
• Figure 3-14: Source(s) of Custom Microarrays/ Probes (% of Labs)
• Table 3-32: Outsourcing of Microarray Samples
• Figure 3-15: Outsourcing of Microarray Samples
• Table 3-33: Reasons for Outsourcing Microarray Samples
• Figure 3-16: Reasons for Outsourcing Microarray Samples
• Table 3-34: Systems Used to Check Concentration, Size, Quality
• Figure 3-17: Systems Used to Check Concentration, Size, Quality

CHAPTER FOUR: PREFERENCES AND EVALUATIONS

• Table 4-1: Microarray Systems Ratings, by Major Brands (Cost, Throughput, Software, Dynamic Range, Ease of Use, Content on Arrays, Sample Size, Customer Service)Figure 4-1: Microarray Systems Ratings, by Brand (Cost, Throughput, Software, Dynamic Range, Ease of Use, Content on Arrays, Sample Size, Customer Service)
• Table 4-2: Features/ Steps to Improve or Change, by Brand
• Table 4-3: Features/ Steps to Improve or Change, by Brand
• Table 4-4
• : Bottleneck Where Samples Back Up, by Brand(Sample Prep, Fluidics, Labeling, Scanning, Data Analysis, Personnel, Hybridization, Other )
• Table 4-5: Bottleneck Where Samples Back Up, by Brand (Sample Prep, Fluidics, Labeling, Scanning, Data Analysis, Personnel, Hybridization, Other )
• Table 4-6: Criteria for Choosing Sample Preparation Products (Precedence, Cost, Ease of Use, Reproducibility, Throughput, Automation, Small Sample, Customer Service, Other)
• Figure 4-2: Criteria for Choosing Sample Preparation Products (Precedence, Cost, Ease of Use, Reproducibility, Throughput, Automation, Small Sample, Customer Service, Other)
• Table 4-7: Brands Used Most for RNA/ DNA Extraction
• Figure 4-3: Brands Used Most for RNA/ DNA Extraction
• Table 4-8: Brands Used Most for Amplification and Labeling
• Figure 4-4: Brands Used Most for Amplification and Labeling
• Table 4-9: Difficulty of Data Analysis
• Figure 4-5: Difficulty of Data Analysis
• Table 4-10: Difficult of Data Management
• Figure 4-6: Difficulty of Data Management

CHAPTER FIVE: FUTURE PURCHASE PLANS

• Table 5-1: Planned Purchases of Systems Within Two YearsFigure 5-1: Planned Purchases of Systems Within Two Years
• Table 5-2: Time-Frame of Purchase Plans Within Two Years
• Figure 5-2: Time-Frame of Purchase Plans Within Two Years
• Table 5-3: Brands of Planned System Purchases
• Figure 5-3: Brands of Planned System Purchases
• Table 5-4: System(s) Labs Would Choose Today for Same Applications
• Figure 5-4: System(s) Labs Would Choose Today for Same Applications
• Table 5-5: Impact of Next-Gen Sequencing