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Kalorama's Proteomics 50: Competing Technologies and Alliances in an Emerging Industry

With the Human Genome Project in its culminating phase, scientists are turning to the task of converting the soon to be completed DNA sequence into information that will improve human medicine and health care. One of the key challenges ahead is understanding how proteins direct biological functions. Proteomics, the science of the cellular protein universe, attempts to catalog and characterize proteins, compare variations in their expression levels under different conditions (i.e., various stages of disease compared with nondisease states), study their interactions, and identify their functional roles. However, these studies will not produce a complete "proteome," or a map of an organism, because cells are always changing, as is protein expression. Scientists believe there is a powerful distinction to be made between the molecular function of an isolated protein and the function of that protein in the complex cellular environment.

The goals of proteomics in medicine are to provide the ability to predict rather than confirm disease and to construct a new, systematic way to discover drugs. A preliminary step in achieving these goals requires that researchers acquire or invent the technology to fit its aspirations. Several approaches are being studied including structural genomics, a branch of proteomics, which studies the shapes of proteins with the goal of constructing a lexicon as well as an understanding of where in the body different proteins are produced, and how each is controlled. One molecular biologist, Richard Burgess of the McArdle Laboratory for Cancer Research at the University of Wisconsin, defines the scope of proteomics as "a grab bag of activities that are all in the postgenomics or functional genomics area, or the what-do-we-need-to-know-to-make-sense-of-all-the-genomics-data arena."

Proteomics is not the study of proteins one by one, as has been done traditionally, but in an automated, large-scale manner that requires new technologies and techniques. Proteomics includes not only the identification and quantification of proteins, but also the determination of their localization, modifications, interactions, activities, and, ultimately, their function. Considerable effort is currently being devoted to the development of novel technologies to unravel the mystery of proteins.

Companies competing in the proteomics space offer technology platforms for discovering or screening drug candidates or diagnostic markers. One of the ways emerging proteomics companies fund their enterprises, is selling their services to the pharmaceutical industry through an wide array of alliances and collaborations. This report will examine competing technologies, and the alliances being formed in the proteomics arena today.


Scope And Methodology

Although proteomics is being promoted as a separate industry, it is in fact a set of technologies, which are being increasingly used in combination with genomic technologies in the post-genomic era. This report provides an overview of the state-of- the-art of proteomics technologies, and profiles proteomics competitors. Companies competing in the proteomics sector offer platform technologies for discovering or screening drug candidates or diagnostic markers. One of the ways emerging proteomics companies fund their enterprises is by selling their services to the pharmaceutical industry through an array of alliances and collaborations. This report examines competing technologies, and the alliances being formed in the proteomics arena today.

Information in this report comes from both primary and secondary sources. An exhaustive search of online databases, scientific journals, investment reports, and company literature make up the secondary source material. Interviews with representatives of companies involved in proteomic research, academic institutions, research laboratories, professional associations, and government agencies make up the primary research. Data from all sources were compiled and analyzed in order to ascertain the best possible estimates of the market size and trends.

Key technologies discussed in depth include:

  • Protein Separation
  • Protein Identification and Characterization
  • Protein Chip Technology
  • Protein Function Studies

50 proteomic companies are profiled in this report, including:

  • Applied Biosystems
  • AxCell Biosciences
  • Cellomics
  • Cephergen Biosystems, Inc.
  • Dyax Corporation
  • GPC Biotech
  • Hybrigenics
  • InCyte Proteomics
  • Large Scale Proteomics Corporation
  • MDS Proteomics, Inc.
  • MediChem Life Sciences
  • Oxford GlycoSciences
  • Packard BioScience
  • Structural Bioinformatics
  • Syrrx

Chapter 1: Executive Summary


    Scope and Methodology
    Proteomics and Genomics
    Proteomics and Bioinformatics
    Challenges Facing Proteomics Research
    • The Magnitude and Complexity of the Task
    • Proteomics Data Are Increasing Exponentially
    • Technological Challenges
    • Increasing Need for Interdisciplinary Research Collaborations

    Proteomics Technologies
    • Protein Separation
    • Mass Spectrometry
    • Protein Chip Technology
    • Protein Function Studies
    • Bioinformatics

    Proteomics Technology Applications and Potential Markets
    • Proteomics In Perspective
    • Proteomics Technology Applications

    Markets for Proteomics Technologies
    Pharmaceutical Industry Trends
    Healthcare Trends
    Competitors in Proteomics
    Funding Sources for Proteomics
    • Proteomics Startups Attract Venture Capital
    • Federal Funding for Proteomics Institutes and Research Centers

Chapter 2: Introduction


    Biological Research in the Post-Genomic Era
    Proteomics and Genomics
    Proteomics and Bioinformatics
    Challenges Facing Proteomics Research
    • The Magnitude and Complexity of the Task
    • Proteomics Data Are Increasing Exponentially
    • Technological Challenges
    • Increasing Need for Interdisciplinary Research Collaborations

Chapter 3: Proteomics Technologies


    Overview
    Principal Steps in Protein Analysis
    • Protein Separation
    • Protein Identification and Characterization
    • Protein Chip Technology

    Protein Function Studies
    • Protein-Protein Interactions
    • Interaction Mapping and Analysis

    Bioinformatics
    • Large Scale Databases

Chapter 4: Technology Applications And Potential Markets


    Proteomics in Perspective
    Proteomics Technology Applications
    • Basic Biological Research
    • Disease Markers For Diagnostics and Therapeutic Drug Discovery
    • Proteins as Biomarkers
    • Proteomics in Drug Discovery

    Markets for Proteomics Technologies
    • Proteomics Technologies Market Value
    • Pharmaceutical Industry Trends
    • Healthcare Trends

    Competitive Landscape
    Funding Sources for Proteomics
    • Proteomics Startups Attract Venture Capital
    • Federal Funding for Proteomics Institutes and Research Centers

Chapter 5: Kalorama's Proteomics 50: Company Profiles


    Activx Biosciences Inc.
    AlphaGene Inc.
    Applied Biosystems Group
    Archemix Corporation
    Athersys Incorporated
    AxCell Biosciences Corporation
    Beyond Genomics Incorporated
    Biacore International AB
    Caliper Technologies
    Caprion Pharmaceuticals Inc.
    Ciphergen Biosystems, Inc.
    Compugen Ltd.
    CuraGen Corporation
    DoubleTwist Incorporated
    Exelixis Incorporated
    GPC Biotech AG
    Geneva Bioinformatics SA (GeneBio)
    GeneData Incorporated
    GeneProt Incorporated
    Genomic Solutions Incorporated
    Hybrigenics SA
    Incyte Genomics Incorporated
    Inpharmatica Ltd
    Integrative Proteomics, Inc.
    Large Scale Biology Corporation
    LigoCyte Pharmacuticals, Inc.
    LumiCyte Incorporated
    Lynx Therapeutics Incorporated
    MDS Proteomics Incorporated
    MediChem Life Sciences
    Molecular Staging Incorporated
    Myriad Genetics Incorporated
    NeoGenesis Incorporated
    Novalon Pharmaceutical Corporation
    Odyssey Pharmaceuticals Incorporated
    Oxford Glycosciences
    Pepscan Systems
    Phylos Incorporated
    Protein Pathways Incorporated
    Proteome Systems Limited
    ProteoMetrics, Inc
    Protiveris Incorporated
    Rigel Pharmaceuticals Incorporated
    Sense Proteomic Limited
    SYNX Pharma Incorporated
    Syrrx Incorporated
    WITA Proteomics AG
    Xencor Incorporated
    Xerion Pharmaceuticals GmbH
    Zyomyx Incorporated

Appendix--Company Index

List of Exhibits


    Table 3-1: Top Protein Separation Technologies
    Table 3-2: Top Protein Identification and Characterization Technologies
    Table 3-3: Top Protein Chip Technology
    Table 3-4: Top Technologies in Protein Function Studies
    Table 3-5: Selected Databases Available for Proteomics Research
    Table 4-1: Kalorama's Proteomics 50 in Collaborations with Pharmaceutical Companies
    Figure 3-1: Proteomics Toolbox Technologies
    Figure 4-1: Value of Proteomics Technologies, 2001-2006

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