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DNA Sequencing Equipment and Services Markets

DNA sequencing can be defined as any biochemical method for determining the order of the nucleotide bases, adenine, guanine, cytosine, and thymine, (A,G,C,T) in a DNA nucleotide. DNA Sequencing has accelerated research and discovery, which created a brisk market for sequencing systems that perform this work. That market has been relatively stable for the last several years, with a dominant vendor, Applied Biosystems, and relatively few changes taking place in the products or technologies.

That is about to change as new products come to market. Kalorama Information's DNA Sequencing Equipment and Services Markets is your guide to this emerging market for DNA Sequencing Equipment and Services Markets. The report includes:

• DNA Sequencer Revenues by Industry and by Leading Systems
• Forecast of Sequencer Revenues to 2012
• Review of Major Sequencers and Comparison of Features.
• Profiles of Key Companies in the Marketplace.
• Review of Major Deals and Litigation affecting the marketplace.
• Review of Technologies Under Development and Recent Grant Awardees.

Kalorama Information's DNA Sequencing Equipment and Service Markets represents research culled from a variety of secondary sources. But the true insights originated from interviews with market experts; these interviews were used to confirm numbers and test forecast assumptions.

Table of Contents

CHAPTER ONE: Executive Summary

• DNA Sequencing Applications
• Types of Samples
• Market Trends
• Scope and Methodology

CHAPTER TWO: Introduction

• Background
• DNA Sequencing Applications
• Types of Samples
• DNA Sequencing Strategies
• DNA Sequencing Chemistries and Techniques
  • Sanger Sequencing
  • Single Nucleotide Addition; Pyrosequencing
  • Cyclic Reversible Terminators

CHAPTER THREE: Sequencer Market Trends and

• Funding Trends
• Market Trends
  • Market Fragmenting Into Multiple Applications, Products
  • Synergies Appearing Between Companies’ Products
• Microbes and Metagenomics Gaining Importance
• Various Disruptive Technologies Rapidly Appearing On Market
• Miniaturization of Sanger and CE Technology
• Paired-End Techniques, Increasing Read-Lengths Expanding Applications
  • Development of Multiplexing Approaches Extends Market
  • SNP and Other Experiments Moving to Sequencing for Higher Detail
  • Continued Rapid Growth in Sequence Production
• Funding Trends
  • Funding and Consortia for Sequencing
  • The Cancer Genome Atlas Pilot Project
• Cancer Sequencing Project
  • FUGE - Functional Genomics in Norway
• NSF / USDA Microbial Genome Sequencing Program
• OTHER FUNDING

CHAPTER FOUR: DNA Sequencer Products

• 454 Life Sciences (Branford, CT) / Roche
  • Genome Sequencer 20
  • Genome Sequencer FLX.
• Applied Biosystems (Foster City, CA)
  • ABI Prism 310 Genetic Analyzer
  • ABI Prism 3100-Avant Genetic Analyzer
  • Applied Biosystems 3100 Genetic Analyzer
  • Applied Biosystems 3130 Genetic Analyzer
  • Applied Biosystems 3130xl Genetic Analyzer
  • Applied Biosystems 3730 DNA Analyzer
  • Applied Biosystems 3730xl DNA Analyzer
  • SOLiD (early access)
• Beckman Coulter
  • CEQ 8000; CEQ 8800
  • GE Healthcare
  • MegaBACE 500.
  • MegaBACE 750
  • MegaBACE 1000
  • MegaBACE 1500
  • MegaBACE 4000
• Illumina / Solexa
  • Illumina Genome Analyzer
• LI-COR Biosciences (Lincoln, NE)
  • 4300

CHAPTER FIVE: Market Data

• Revenues and Forecast

CHAPTER SIX: Competitive Analysis

• Features and Strengths of Next-Generation Sequencers
• 454 Life Sciences - Strengths / Advantages
• 454 Life Sciences - Weaknesses / Disadvantages
• Applied Biosystems SOLiD - Strength / Advantages
• Applied Biosystems SOLiD - Weaknesses / Disadvantages
• Illumina Genome Analyzer - Strength / Advantages
• Illumina Genome Analyzer - Weaknesses / Disadvantages

CHAPTER SEVEN: Intellectual Property and Litigation

• Affymetrix Wins Patent Infringement Case Against Illumina
• Applied Biosystems and Amersham plc (GE Healthcare) Settle Sequencing Patent Litigation
• Applied Biosystems Sues Solexa and Former Chief Patent Counsel
• Beckman Coulter and Applied Biosystems Settle Outstanding Legal Disputes
• Cepheid and Idaho Technology Settle Dispute Over PCR Patents
• Enzo Biochem Disputes CalTech Sequencing Patents
• Huang v. CalTech

CHAPTER EIGHT: Deals
CHAPTER NINE: Corporate Profiles

• 454 Life Sciences  (Branford, CT) / Roche
• Applied Biosystems (Foster City, CA)
• Beckman Coulter (Fullerton, CA)
• GE Healthcare Life Sciences (Little Chalfont, UK)
• Helicos Biosciences (Cambridge, MA)
• Illumina / Solexa
• Intelligent Bio-Systems (Waltham, MA)
• LI-COR Biosciences (Lincoln, NE)
• NABsys (Providence, RI)

CHAPTER TEN: Technologies Under Development

• NHGRI Funds Next Generation of Sequencing Technologies
• 454 Life Sciences Corp
  • “Massively Parallel High Throughput, Low Cost Sequencing”
  • “454 Life Sciences Massively Parallel System DNA Sequencing”
• Agencourt Personal Genomics [Applied Biosystems]
  • “Bead-based Polony Sequencing”
• Arizona State University, Tempe
  • “Multiplexed Reactive Sequencing of DNA”
• Baylor College of Medicine, Human Genome Sequencing Ctr
  • “Ultrafast SBS Method for Large-Scale Human Resequencing”
• Columbia University
  • “An Integrated System for DNA Sequencing by Synthesis”
• Harvard University, Rowland Institute; moved to Boston Univ.
  • “Ultra-fast Nanopore Readout Platform for Designed DNA's”
• LI-COR Inc.
  • “Single-Molecule DNA Sequencing Using Charge-Switch dNTPs”
• Microchip Biotechnologies Inc
  • “Microbead INtegrated DNA Sequencer (MINDS) System”
• Stanford University
  • “High-Throughput, Single-Molecule DNA Sequencing”
• Stanford Genome Technology Center
  • “Pyrosequencing Array for DNA Sequencing”
• University of Gainesville, Florida
  • “DNA Sequencing Using Nanopores”
  • “Polymerases for Sequencing by Synthesis”
• Second Group of Grants, $1000 Genome
• Arizona State University, Tempe
  • “Molecular Reading Head for Single-Molecule DNA Sequencing”
• Oak Ridge National Laboratory
  • “Experimental R&D for Rapid Sequencing Nanotechnology”
  • “Computational R&D for Rapid Sequencing Nanotechnology”
• Stanford University
  • “Single Molecule Nucleic Acid Detection with Nanopipettes”
• University of British Columbia, Vancouver
  • “Nanopores for Trans-Membrane Bio-Molecule Detection”
• University of Maine, Orono
  • “High-speed Nanopore Gene Sequencing”
• University of North Carolina, Chapel Hill
  • “Nanotechnology for the Structural Interrogation of DNA”
  • NHGRI Expands Effort to Revolutionize Sequencing Technologies
• Agencourt Personal Genomics [Applied Biosystems]
  • “Bead-Based Polony Sequencing (Supplemental)”
• Network Biosystems
  • “$100,000 Genome Using Integrated Microfluidic CE”
  • The State University of New York, Stony Brook (SUNY)
  • “Ultra High Throughput DNA Sequencing System Based on 2D Monolith
  • Multi-Capillary Arrays and Nanoliter Reaction Volume”
• Columbia University
• “Modulating Nucleotide Size in DNA for Detection by Nanopore”
• Duke University
  • “Droplet-Based Digital Microfluidic Genome Sequencing”
• Harvard University
  • “Electronic Sequencing in Nanopores”
• Nanofluidics
  • “Real-Time Multiplex Single-Molecule DNA Sequencing”
• New York University
  • “Haplotype Sequencing Via Single Molecule Hybridization”
• Oxford University and The Scripps Research Institute
  • “Single-Molecule DNA Sequencing with Engineered Nanopores”
• University of California, San Diego
  • “Massively Parallel Cloning and Sequencing of DNA”
• University of Illinois at Urbana-Champaign
  • “Sequencing a DNA Molecule Using a Synthetic Nanopore”
• VisiGen Biotechnologies
  • “Real-Time DNA Sequencing”
  • “NHGRI Aims to Make DNA Sequencing Faster, More Cost Effective”,
  • “Fabrication of Universal DNA Nanoarrays for Sequencing by Hybridization”
• Boston University
  • “High-Throughput DNA Sequencing Using Design Polymers and Nanopore Arrays”
• Case Western Reserve University
  • “Large-Scale Nanopore Arrays for DNA Sequencing”
• General Electric Global Research
  • “Closed Complex Single Molecule Sequencing”
• Helicos Biosciences
  • “High Accuracy Single Molecule DNA Sequencing by Synthesis”
• Lehigh University
  • “Force Spectroscopy Platform for Label Free Genome Sequencing”
• University of California, San Diego
  • “Genome Sequencing by Ligation Using Nano-Arrays of Single DNA Molecules”
• University of North Carolina, Chapel Hill
  • “Nanoscale Fluidic Technologies for Rapidly Sequencing Single DNA Molecules”
• University of Washington, Seattle
  • “Engineering MspA for Nanopore Sequencing”
• Baylor College of Medicine, HGS
  • “Ultrafast SBS Method for Large-Scale Human Resequencing”
• Intelligent Bio-Systems
  • “High-Throughput DNA Sequencing by Synthesis Platform”
  • Other Microfluidics and Lab-on-a-Chip

CHAPTER ELEVEN: Challenges and Strategic

• RecommendationS
• Market Challenges
  • Saturation, Technology Advances Threaten Market Growth
  • Next-Generation Vendors Contending With 454’s Head-Start
  • Rapid Changes, Multiple Variables Creating Unpredictable Market
  • Labs Hesitant to Invest in Unproven Technologies
  • Segments Resisting Change Where Long Read-Lengths Key
  • New Technologies Create Data Management Issues
  • Recent Acquisitions Make Tougher Environment for New Entrants
• Strategic Recommendations
  • Increase Products’ Value Through Software Tools
  • Explore Demand in Expanding Industry Segments
  • Address Niche Markets Resulting From Fragmentation
  • Increase Value by Combining with Complementary Content
  • Establish Early Connections With End-Users
  • Balance Risks by Diversifying Applications
  • Move Towards Diagnostic Environment Requires Partnering

 

 

table of exhibits

 

CHAPTER ONE: Executive Summary

• Table 1-1: DNA Sequencer Equipment Revenues 1999-2006
• Figure 1-1: Trending in the DNA Sequencer Equipment Market 2006-2012

Chapter three: Sequencer Market Trends and Funding Trensd

• Figure 3-1: Distribution of Archaeal and Bacterial Genome Projects, Q1 2007
• (JGI, TIGR, J Venter, World)
• Figure 3-2: Phylogenetic Distribution of Bacterial Genome Projects, Q1 '07
• Figure 3-3: Number of Completely Sequenced Genomes (Published vs
• Unpublished) 1999 through Q1 2007
• Figure 3-4: Distribution of Number of Projects Among Major SequencingCenters Q1 2007
• Figure 3-5: Funding by the Top Agencies in DNA Sequencing
• Figure 3-6: U.S. Funding for the Human Genome Project DOE vs NIH 1990-2003
• Figure 3-7: Distribution of the Number of Bacterial Sequencing Projects byArea of Focus (Agriculture/Food, Biomedical, Biotech, Environmental,Evolutionary)
• Table 3-1: FUGE Funding Recipients
• Table 3-2  Large-Scale Sequencing Centers NHGRI Funding, 2007
• Figure 3-8: NHGRI Funding of Large-Scale Sequencing Centers by Organization2004-2006 (cumulative)
• Figure 3-9: NHGRI Funding of Large-Scale Sequencing Centersby Organization 2007Figure 3-10: Broad Institute Organizational Structure
• Table 3-3: NSF Plant Genome Research Project Recent Funding Awards(Title Start Date, Expiration Date, PI, Organizatino, Funding Amount)Table 3-4: NSF / USDA Microbial Genome Sequencing Program Recent
• Funding Awards (Title, Start Date, Expiration Date, PI, Organization,Funding Amount)

Chapter four: DNA Sequencer Products

• Table 4-1: Key Products and Technologies Currently on the Market by Company (Company, Product/ Technology, Comments)

Chapter five: Market Data

• Table 5-1: DNA Sequencer Equipment Revenues 1999-2006
• Table 5-2: DNA Sequencer Equipment Revenues 2006-2012
• Figure 5-1 DNA Sequencer Market, Market Share  by Industry, 2006
• Figure 5-2: Trending in the DNA Sequencer Equipment Market 1999-2006
• Figure 5-3: ABI’s Quarterly Overall Sequencing Revenues 2001 to 2006
• Figure 5-4: ABI’s Quarterly Overall Sequencing Revenues Q3 2005 to Q4 2006
• Figure 5-5: Estimated Forecasted Price of Sequencing a Genome 1990-2030
• Figure 5-6: Trending in the DNA Sequencer Equipment Market, 2006-2012

Chapter SIX: Competitive Analysis

• Table 6-1: Revenues and Market Shares of Leading DNA Sequencer System
• Suppliers, 2006 (Company, Market Share, Revenues, Trend)
• Figure 6-1: Market Shares, DNA Sequencer Systems, 2006
• Table 6-2: Comparison of Next-Generation Sequencer System Features (Reads,
• Read Length, Number of Samples at Once, BP Output, Cost Comparison withSanger/ CE, Consumable Cost per Run)

chapter seven: Intellectual Property and Litigation

• Table 7-1: Selected Sequencing-Related Patents Assigned or Licensed to Applied
• Biosystems (Assignee, Title, Patent #)

Chapter eight: Deals

• Table 8-1: Notable Deals in Recent Years (Companies, Date, Details

Chapter ten: Technologies Under Development

• Table 10-1: First Set of NHGRI “$100,000 Genome” Grant Awardees
• October 2004 (Awardee, Title, Amount, Term)
• Table 10-2: First Set of NHGRI “$1,000 Genome” Grant Awardees
• October 2004 (Awardee, Title, Amount, Term)
• Table 10-3: Second Set of NHGRI “$100,000 Genome” Grant Awardees
• August 2005 (Awardee, Title, Amount, Term)
• Table 10-4: Second Set of NHGRI “$1,000 Genome” Grant Awardees
• August 2005 (Awardee, Title, Amount, Term)
• Table 10-5: Latest Set of NHGRI “$1,000 Genome” Grant Awardees
• October 2006 (Awardee, Title, Amount, Term)
• Table 10-6: Latest Set of NHGRI “$100,000 Genome” Grant Awardees
• October 2006 (Awardee, Title, Amount, Term)
• Table 10-7: Selected Group s Workingon Microfluidics for DNA Sequencing
• Applications (Number of Channels, Read Length, Time)

 

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