Bioinformatics Report 2003 - 3rd Edition

Published by: Visiongain

Published: Feb. 1, 2003

Table of Contents

• 1.1 Emerging Market of Life Science Informatics: Where Informatic Technology
  
• Combines with Science & Research
  
• 1.1.1 Trends in Life Science Informatics Marketplace set to Continue
  
• 1.2 The Application of Informatics in the Pharmaceutical Industry
  
• Table 1. Value of the Worldwide Pharmaceutical Market by Drug Purchases &
  
• Regions in the 12 months to June 2002
  
• Graph 1. Market Value of the Worldwide Pharmaceutical Industry by Regional
  
• Drug Purchases
  
• 1.3 Aims of this Report
  
• 1.3.1 Questions to be Answered in this Report
  
• 1.4 Informatic Terms & Definitions
  
• 1.4.1 Broad Definitions for the Bioinformatics Term
  
• 1.5 Bioinformatics Vs Computational Informatics
  
• 1.5.1 What is Bioinformatics?
  
• 1.5.2 How is Computational Informatics Different to Bioinformatics?
  
• 1.5.3 The Roots of Bioinformatics in Computational Biology
  
• 1.5.4 Ambiguity Surrounding the Definition of Bioinformatics
  
• 1.6 Informatics Defined & Terms used in this Report

2. Overview of IT Expenditure in the US Healthcare Industry

• Table 2. Market Value of the IT Healthcare Industry in the US
  
• Graph 2. Value of the IT Healthcare Market in the US by Total Expenditure
  
• Graph 3. % Growth of the IT Healthcare Market in the US

3. Impact of Informatics on Drug Discovery & Development

• 3.1 Potential Benefits of Informatic Tools
  
• Figure 1. Potential Applications of Informatics to Drug Discovery &
  Development

4. Factors Linked to IT Expenditure in the Pharma & Biotech Industry

• 4.1 Market Value of Informatics in the Healthcare & Pharmaceutical Sector
  
• Table 3. Total IT Expenditure in the US Healthcare Market
  
• Graph 4. Breakdown of Total IT Expenditure in the US Healthcare Market by
  Sectors
  
• Table 4. Expenditure of Leading Pharmaceutical Companies on New Technologies
  
• Graph 5. Pharmaceutical Expenditure on New Technologies
  
• 4.2 Informatics Market Forecast
  
• Graph 6. Forecast Growth for the Informatics Market in the Biopharmaceutical
  Sector

5. Current Informatic Issues facing Biotech & Pharma Companies

• 5.1 Companies involved in Informatics
  
• Table 5. Informatic Market Areas in the Pharmaceutical & Biotechnology
  Sector
  
• Graph 7. Trends in the Demands for Informatics in the Biopharmaceutical
  Sector
  
• 5.2 A Revamp in the Traditional Focus of Established Informatics Business
  Models
  
• 5.2.1 Established Informatics Business Models
  
• 5.2.2 New Business Models
  
• 5.3 The Recent Boom & Bust of Companies with Investments in Informatic Tools
  & Technologies
  
• 5.4 Companies with the Potential to Prosper From the Informatics Investment
  Gold Rush
  
• 5.5. Companies Floundering in the Informatics Boom
  Case Study: DoubleTwist Closes its Doors to Business
  
• 5.5.1 Informatics Companies Struggling to Survive in the Advent of Changing
  Market Needs & Fierce Competition
  
• 5.6 Informatics Market Areas in the Biopharmaceutical Industry
  
• 5.6.1 Software Providers
  
• 5.6.2 Informatic Platforms Providers
  
• 5.6.3 Companies that Sell Informatic Infrastructures & Solutions
  
• 5.6.4 Companies offering Informatic Tools & Content
  
• 5.7 Hurdles that Face Informatics Service/ Product Providers in the
  Biopharmaceutical Market
  
• 5.7.1 Intense Competition in the Marketplace: Small Startups Vs Large
  Companies
  
• 5.7.2 The Business Constraint of Providing Informatic Solutions
  
• 5.7.3 Business Preference of Big Pharma & Big Biotech to Invest in the
  Development of in-house Informatic Solutions
  
• 5.7.4 Customer Base: Demands for Informatic Services
  
• 5.8 Recent Trends in the Business Strategies Adopted by Informatic Companies
  
• 5.8.1 The Decision to Adapt to Changing Market Demands
  
• 5.8.2 Informatics Companies to Span Life Science Market Areas
  
• 5.8.3 Changing the Focus from Informatics Services to Tackling Therapeutic
  Drug R&D Bottlenecks & Content
  
• 5.8.4 Expanding Services to Incorporate Drug R&D Processes
  
• 5.9 The commercialization of Informatics in the Pharmaceutical &
  Biotechnology Industry
  
• 5.9.1 Recent Trend from In Vivo Research to In Silico Research
  
• 5.9.2 Shift in Commercial Focus for the Application of Informatics
  
• 5.10 Commercial Informatics Strategies in the Biotechnology Sector
  
• 5.10.1 The Use of Informatics to Transform Genomic Sequence Data into the
  Commercial Commodity of Drug Targets
  
• 5.11 Innovations in the Pharmaceutical Industry
  
• 5.11.1 Two key Pharmaceutical Approaches to Drug R&D
  
• 5.11.2 Informatics as a Tool for Analyzing Different Types of Data
  
• Table 6. Different Types of Data & Information Analysed by Informatics
  Techniques
  
• 5.12 Why Companies with Informatic Investments in Data Analysis have yet to
  see a Business Boom
  
• 5.12.1 Compatibility of Different Informatic Tools: The Demand for
  Standardized Tools & Data Integration
  Case Study: National Center for Biotechnology Information (NCBI) & the
  Complexities of Integrating Several Databases
  
• 5.12.2 Vast Amounts of Data that have yet to be Organized & Analysed
  
• 5.12.3 Data Mining: Converting Data into Commercial Information
  
• 5.13 Overcoming Bottlenecks in the R&D Process
  
• 5.13.1 Competition Pressures & Drug Development
  
• 5.13.2 Regulatory Issues & In Silico Research
  
• 5.13.3 Industry Over-hype & the Anticipation of Informatics
  
• 5.14 Is it Too Early to Invest in Informatics?
  
• 5.14.1 The Future of Informatics in the Biopharmaceutical Industry
  
• 5.15 Key Issues to Consider Prior to Adopting an Informatics Business
  Strategy
  
• 5.15.1 Matching Company's Business Goals to the Informatics Strategy
  
• 5.15.2 Assessing the Range of Technologies Available
  Case Study: Bayer's Informatics Approach
  
• 5.15.3 Professional Personnel with Key Informatic Skills & Knowledge
  
• 5.15.4 Pharmaceutical Outsourcing of Informatic Needs

6. Survey of Informatics Experts in the Biopharmaceutical Industry

• Graph 8. Question 1: How would you Define the Term "Bioinformatics"?
  
• Table 6. % Response to Question1 - Defining Bioinformatics
  
• 6.1 Analysis of Industry Experts' Views on Definitions for the Term
  Bioinformatics
  
• Graph 9. Question 2: Would you Draw a Distinction between Computational
  Informatics/ Biology & Bioinformatics?
  
• Table 7. % Response to Question 2 - Bioinformatics Vs Computational Biology/
  Informatics
  
• 6.2 Analysis of Distinctions between Bioinformatics & Computational
  Research/ Biology/ Informatics
  
• Graph 10. Question 3: In which Areas of Pharmaceutical/ Biotechnology
  Research have Informatics had the Most Impact?
  
• Table 8. % Response to Question 3 - In which Areas of Pharmaceutical/
  Biotechnology Research have Informatics had the Most Impact?
  
• 6.3 Analysis of Industry Experts' Viewpoints on the Impact of Informatics in
  R&D
  
• Graph 11. Question 4: To what Extent can Informatics Facilitate the
  Pharmacological Drug Discovery & Clinical Development Process?
  
• 6.4 Analysis of the Potentials of Informatics to Facilitate Drug Discovery &
  Development
  
• Graph 12. Question 5: What has been the Impact of Informatics in the
  Pharmaceutical & Biotechnology Sector?
  
• Table 9. % Response to Question 5 - Impact of Informatics in the
  Pharmaceutical & Biotechnology Industry
  
• 6.5 The Impact of Informatics in the Pharmaceutical & Biotechnology Industry
  
• Graph 13. Question 6: Has there been any Recent Trends in the use of
  Informatics in the Biotechnology & Pharmaceutical Sector?
  
• Table 10. % Response to Question 6 -Has there been any Recent Trends in the
  use of Informatics in the Biotechnology & Pharmaceutical Sector?
  
• 6.6 Analysis of Experts' Views on Trends in the Bioinformatics Market & Uses
  of Informatics
  
• Graph 14. Question 7: What are the Key Issues that Pharmaceutical or
  Biotechnology Companies must Consider Prior to Investing in Informatic
  Solutions?
  
• Table 11. % Response to Question 7 - What are the Key Issues that
  Pharmaceutical or Biotechnology Companies must Consider Prior to Investing
  in Informatic Solutions or Bioinformatics?
  
• 6.7 Key Issues to Consider Prior to Investing/ Acquiring Informatics Tools &
  Technologies
  
• 6.7.1 Specialist People
  
• 6.7.2 Underlying Business Goals & Informatics
  
• 6.7.3 Outsourcing
  
• 6.7.4 Integrated Technology Platforms
  
• 6.7.5 Hardware & Software Considerations
  
• 6.7.6 Summary of Key Issues to Consider for Investing in Informatics
  
• Graph 15. Question 8: Which Informatics Areas, Services & Technologies have
  the Greatest Potential for Growth in the Biotechnology/ Pharmaceutical
  Sector?
  
• Table 12. % Response to Question 8 - Which Informatics Areas, Services &
  Technologies have the Greatest Potential for Growth in the Biotechnology/
  Pharmaceutical Sector?
  
• 6.8 Informatic Areas with the Potential for Growth
  
• 6.9 Additional Comments Raised in the Survey
  
• 6.10 Summary of Experts' Views on Application & Potential of Informatics in
  Industry

7. Informatic Tools & Technologies

• 7.1 Informatic Tools & Applications for Biopharmaceutical Research
  
• 7.2 Genomic & Proteomic Databases
  
• 7.2.1 Gene Sequence Database (GSDB) & the Human Genome
  
• 7.2.2 Data on Biomolecular Pathways
  
• 7.2.3 Protein Data Bank (PDB)
  
• 7.2.4 DNA Microarray Chips & Gene Expression Data
  
• Table 13. Public Biological Databases with Genomic or Proteomic Information
  
• 7.2.5 Genomic Databases
  
• 7.2.6 GenBank
  
• 7.3 Tools & Techniques for Sequence Analysis, Pairwise Alignment & Database
  Searches
  
• 7.3.1 Different Types of Sequence Data Analysis
  
• Table 14. Sequence Analysis Software Tools & Research Techniques
  
• 7.3.2 Gene Finding Software Programs
  
• 7.3.3 DNA Feature Detection Software
  
• 7.3.4 DNA Translation
  
• 7.3.5 Programs for Pairwise Sequence Analysis & Comparisons
  
• 7.3.6 Sequence Queries & Biological Databases
  
• 7.3.7 Using BLAST for Local Alignment-Based Searching
  
• 7.3. 8 FASTA Algorithm Tool for Local Sequence Alignment Studies
  
• 7.3.9 Multiple Sequence Alignment Tools
  
• 7.4 Local Vs Global Alignment Informatics Tools
  
• 7.4.1 Summary of Multiple Alignment Software & Approaches
  
• Table 15. Local Alignment Software Tools
  
• Table 16. Multiple Alignment Software Tools
  
• Table 17. Global Alignment Software Tools
  
• 7.5 Genomic & Proteomic Informatics Tools for the Visualization of Protein
  Structures & Function
  
• 7.5.1 Gene Sequencing
  
• 7.5.2 Laboratory Information Management Systems (LIMS)
  
• 7.5.3 Selected Sources of Genomic Information on the Web
  
• 7.5.4 Functional Genomics & Sequenced-Based Approaches for Analyzing Gene
  Expression
  
• 7.5.6 Emerging DNA Microarray Technologies & the use of Informatics
  
• 7.5.7 Informatic Tools & Technologies in Proteomics
  
• 7.5.8 Tools for Proteomic Analysis: ExPASy, SWISS-PROT & TrEMBL
  
• 7.5.9 Standardization & the Array Approach
  
• 7.6 Biochemical Pathway Databases
  
• 7.6.1 WIT & KEGG Metabolic Pathway Resources
  
• 7.6.2 PathDB Metabolic Pathway Database
  
• Table 18. Summary of Tools & Techniques for Proteomic and Genomic Studies
  
• 7.7 Data Mining Techniques Applied to Databases
  
• 7.7.1 Machine Learning
  
• 7.7.2 Data Mining based on Machine Learning Approaches
  
• 7.7.3 Decision Trees
  
• 7.7.4 Neural Networks
  
• 7.7.5 Genetic Algorithms
  
• Table 19. Data Mining Tools & Techniques
  
• 7.7.6 Support Vector Machine (SVM)

8. Industry News & Developments

• 8.1 Accelrys Set to Market New Proteomics Tool For Molecular Modeling
  
• 8.2 Lion Bioscience & PerkinElmer to Release SNPscorer Software
  
• 8.3 Ardais & Affymetrix Collaborate on a Molecular Fingerprinting Research
  Project
  
• 8.4 GeneData Introduces Expressionist 4.0 Suite for Microarray Processing
  
• 8.5 HP Installs $22 Million Supercomputer System at the Wellcome Trust
  Sanger Institute (WTSI)
  
• 8.6 Los Alamos National Laboratory Selects Linux NetworX to Build a
  Supercomputer
  
• 8.7 Amersham Launches New LEADseeker Multimodality Imaging System
  
• 8.8 Imaging Research Collaborates with Amersham
  
• 8.9 Illumina Signs Agreement to Conduct SNP Genotyping for GlaxoSmithKline
  
• 8.10 Perlegen Develops a New Genotyping Platform
  
• 8.11 Proteom Forms Alliance with SC BioSciences
  
• 8.12 InforMax Launches LabShare for Vector NTI
  
• 8.13 Affymetrix & Biotique Systems Collaborate to Offer Transcriptome Data
  to the Public
  
• 8.14 Science Factory Launches New Comprehensive Bioinformatics Software
  Package

9. Company Profiles

• 9.1 Structural Bioinformatics Inc
  
• 9.1.1 Company Mission & Market
  
• 9.1.2 The IT Business & Drug Discovery Goals of SBI
  
• 9.1.3 Financial
  
• 9.1.4 Collaborations & Alliances
  
• 9.1.5 Strategic Partners of SBI
  
• 9.1.6 Products & Services
  
• Figure 2. Structural Bioinformatics Product & Services
  
  
• 9.2 Compugen
  
• 9.2.1 Company Mission & Market
  
• 9.2.2 Financial
  
• 9.2.3 Business Areas & Services
  
• 9.2.4 Products
  
  
• 9.3 Accelrys Inc
  
• 9.3.1 Company Mission & Market
  
• 9.3.2 Financial
  
• 9.3.3 Accelrys Consortia
  
• 9.3.4 Selected Products & Services
  
  
• 9.4 Applied Biosystems
  
• 9.4.1 Company Mission & Market
  
• 9.4.2 Financials
  
• 9.4.3 Recent Collaborations
  
• 9.4.4 Selected Products & Services
  
• Table 20. Applied Biosystems Group Software Products
  
  
• 9.5 Incyte Genomics
  
• 9.5.1 Company Mission & Market
  
• 9.5.2 Financials
  
• 9.5.3 Collaborations & Alliances
  
• 9.5.3(a) Current Collaborations
  
• 9.5.3(b) Technology Collaborations
  
• 9.5.3(c) Academic Collaborations
  
• Table 21. Incyte Genomics Products & Services
  
  
• 9.6 Lion Bioscience
  
• 9.6.1 Company Mission & Market
  
• 9.6.1(a) Life Science Informatics (LSI)
  
• 9.6.2 Financials
  
• 9.6.3 Collaborating Partners
  
• 9.6.4 Software Products & Informatics Solutions
  
• 9.6.4(a) Products & Technologies
  
  
• 9.7 Gene Logic
  
• 9.7.1 Company Mission & Market
  
• 9.7.2 Financials
  
• 9.7.3 Collaborations & Alliances
  
• 9.7.3 (a) Business & Scientific Relationships with Select Companies
  List of Companies Utilizing Gene Logic's Products & Services
  
• 9.7.4 Products & Services
  
• 9.7.4(a) Approach
  
• 9.7.4(b) Gene Logic's Proprietary READS Service & Technology
  
• 9.7.4(c) Custom Discovery Database Services
  
• 9.7.4(d) GeneExpress Products
  
• 9.7.4(e) Genesis: GeneExpress Enterprise System Software
  
  
• 9.8 IBM Life Sciences
  
• 9.8.1 Company Mission & Market
  
• 9.8.2 Financials
  
• 9.8.3 Selected Collaborations & Alliances (Business Partners)
  
• 9.8.4 Life Science Solutions for Pharmaceutical & Biotechnology R&D
  
• 9.8.4(a) IBM Bioinformatics & Biocontent
  
  
• 9.9 Informax
  
• 9.9.1 Company Mission & Market
  
• 9.9.2 Financials
  
• 9.9.3 Collaborations & Business Partners
  
• 9.9.3(a) Hardware Partners
  
• 9.9.3(b) Software Partners
  
• 9.9.3(c) Content Providers
  
• 9.9.4 Products & Services
  
• 9.9.4(a) Informatics Products
  
• 9.9.4(b) Informax Partner Products
  
• 9.9.4(c) Services
  
  
• 9.10 CuraGen
  
• 9.10.1 Company Mission & Market
  
• 9.10.2 Financials
  
• 9.10.3 Technology Products
  
• 9.10.3(a) Established Drug Target Discovery and Validation Engine
  
• 9.10.4 CuraGen's suite of integrated technologies for Drug Discovery &
  Development
  
• 9.10.4(a) GeneScape: Bioinformatics System
  
• 9.10.5 CuraGen's 4 Discovery Technologies for streamlining the Drug
  Discovery & Pre-Clinical Drug Development Process
  
  
• 9.11 Affymetrix
  
• 9.11.1 Company Mission & Market
  
• 9.11.2 Financials
  
• 9.11.3 Collaborations & Alliances
  
• 9.11.4 Products & Services
  
• 9.11.5 Application of Affymetrix' Gene Expression Arrays & DNA Analysis
  Products to Research
  Applications of Affymetrix' GeneChip Probe Arrays for Gene Expression
  Analysis
  
  
• 9.12 Amersham Biosciences
  
• 9.12.1 Company Mission & Market
  
• 9.12.2 Financials
  
• 9.12.3 Collaborations & Alliances
  
• Table 22. Strategic Partners of Amersham Biosciences
  
• 9.12.4 Selected Products & Services
  
  
• 9.13 TimeLogic
  
• 9.13.1 Company Mission & Market
  
• 9.13.2 Collaborations & Alliances
  
• 9.13.3 Products & Services
  
• 9.13.3(a) Products
  
• 9.13.3(b) Services
  
  
• 9.14 Sun Microsystems
  
• 9.14.1 Company Mission & Market
  
• 9.14.2 Financials
  
• 9.14.3 Collaborations & Alliances
  
• 9.14.4 Sun's Technological Products, Software Applications & Services
  
• 9.14.4(a) Software products & the Sun One Platform
  
• 9.14.4(b) Sun Network Storage
  
• 9.14.4(c) Sun Services
  
• 9.14.4(d) Computer Systems
  
• 9.14.4(e) The Sun Global Life Science Group
  
• 9.14.4(f) Sun's Informatics Solutions for Life Sciences
  
• Table 23. Summary of Sun's Life Science Products & Services
  
  
• 9.15 Silicon Genetics
  
• 9.15.1 Company Mission & Market
  
• 9.15.2 Financials
  
• 9.15.3 Life Science & Industry users of Silicon Genetics' Products
  
• 9.15.4 Products & Services
  
  
• 9.16 3rd Millennium
  
• 9.16.1 Company Mission & Market
  
• 9.16.2 Financials
  
• 9.16.3 Alliances & Partnerships
  
• 9.16.4 Consulting Services

10 visiongain Analysis

• 10.1 Emergence of Informatic Applications in the Biotechnology &
  Pharmaceutical Industry
  
• Graph 16. Trends in the Demands for Informatics
  
• Table 24. Informatic Market Areas in the Pharmaceutical & Biotechnology
  Sector
  
• Table 25. Potential Benefits of Informatics in Drug Discovery & Development
  
• 10.2 The Current State of the Informatics Market
  
• 10.2.1 Companies with the Potential to Prosper From Informatics
  
• 10.2.2 Why Companies have yet to Benefit from Informatics Investments
  
• 10.3 Informatics Challenges in Life Sciences Sector
  
• 10.3.1 Decision to Outsource or Develop in-house Informatic Solutions &
  Proprietary Technologies/Tools
  
• 10.3.2 Intense Competition in the Marketplace
  
• 10.3.3 The Demise of DoubleTwist in the Informatics Market
  
• 10.4 Key Strategies to Combat Informatics Challenges in the Life Science
  Market
  
• 10.4.1 Broadening Business Strategy to Span other Life Science Areas
  
• 10.4.2 Shifting Focus from Informatics Services to R&D Bottlenecks
  
• 10.5 Summary of Issues to Consider Prior to Investing in Informatics
  
• 10.6 The Future of Informatic Applications in the Biopharmaceutical Industry
  
• Graph 17. Forecast Growth for the Informatics Market in the
  Biopharmaceutical Sector
  
• 10.7 Recent Trends in Informatic Tools & Technologies
  
• 10.7.1 New Software Tools
  
• 10.7.2 New Technologies & the Development of Supercomputers
  
• 10.8 Survey of Industry Experts' Views on Informatics in the Biotechnology &
  Pharmaceutical Industry
  
• 10.8.1 Summary of Results Collected from the Informatics Survey
  
• 10.9 Closing Comments - The Future of Informatics in the Biotechnology &
  Pharmaceutical Industry

Appendix 1. Selected Transcript of Interviews with Key Industry Experts

• Appendix 1.1 Interview with Dr Edward Maggio, Chairman & CEO, Structural
  Bioinformatics
  
• Appendix 1.2 Interview with Dr. George J. Maalouf, President, Genomix
  Corporation
  
• Appendix 1.3 Interview with Dr David Speechly, Vice President of Investor
  Relations, Applied Biosystems

Appendix 2. visiongain's Survey of Industry Experts' Views on Informatics


Appendix 3. Glossary of Genomic & Informatic Terms

• Appendix 3.1 Genomic Terms
  
• Appendix 3.2 Informatics & Bionformatics Terms

Appendix 4. About visiongain

Abstract

The forecast value for the worldwide bioinformatics market will be approximately $7 billion by 2007. Biotechnology and pharmaceutical companies are set to continue the recent trend of purchasing content and informatic solutions from commercial vendors.

Shouldn't you make sure you benefit from this market?

The average cost of bringing a new molecular entity (NME) to the pharmaceutical market is $600 million, illustrating the immense R&D challenge faced by drug developers. Traditionally, only 10 per cent of all NMEs that enter development successful reach the market.

Forecast IT expenditure in the US healthcare industry is estimated to be $58 billion in 2005, an increase of 136 per cent from 2001.

Included in this report:

• 25 tables
• 17 graphs
• Unique industry survey
• Detailed profiles of 16 leading companies

Can you afford to be without this new visiongain report?

This new visiongain report provides you with the most detailed and up-to-date analysis, news, developments, experts' opinions and insight into the informatics market.

This new visiongain report contains:

• 1. Detailed analysis of the latest trends in bioinformatics
• 2. In-depth profiles of 16 leading companies with informatic tools and technologies
• 3. 5-year forecasts
• 4. survey of industry experts' views on informatics
• 5. Potential of informatic applications
• 6. Market predictions of trends in US expenditure on IT solutions
• 7. Projections for future applications in drug discovery, R&D
• 8. Analysis of commercial business strategies
• 9. Latest developments
• 10. Comprehensive insight into bioinformatics business strategies

The visiongain report will play an essential part in your business information needs.

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