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Pattern Recognition Ranking SNP/Genotyping Technology

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TOP SNP DATABASES

 

SNP/genetic variation databases were ranked by converting respondents’ ratings (“not useful/problematic,” “somewhat useful, but flawed,” “useful,” or “very useful”) and normalizing for the number of ratings given each platform. The Mouse SNP database scored the highest with a ranking of 292 (out of a possible 400), indicating that more than 90 percent of the database users who responded to the survey consider it “useful” or “very useful.”

 

1. Mouse SNP database, hosted by Roche (292)

2. NCBI public dbSNP, hosted by National Center for Biotechnology Information (270)

3. Human Genome Variation database, hosted by Karolinska Institute (257)

4. HAP database, Genaissance Pharmaceuticals (250)

5. The SNP Consortium database, hosted by Cold Spring Harbor Laboratory (238)

6. The Human Genome Mutation Database, hosted by University of Wales, Cardiff (200)

 

TOP GENOTYPING PLATFORMS

SNP/genotyping platforms were ranked by converting respondents’ ratings (either “poor,” “fair,” “good,” or “excellent”) into a points-based system and normalizing for the number of ratings given each platform. The highest possible score was 400, meaning more than 70 percent of Sequenom MassArray users who responded to the survey rated the platform either “good” or “excellent.”

 

1. Sequenom MassArray (276)

2. Affymetrix HuSNP probe array (250)

3. Applied Biosystems Assays on Demand (239)

4. Pyrosequencing PSQ system (226)

5. Orchid SNPstream (219)

6. Third Wave Invader Platform (209)

7. Illumina BeadArrays (200)

8. Amersham SNuPe kit (123)

 

TOP SNP/GENOTYPING AND PHARMACOGENOMICS COMPANIES

 

By converting respondents’ ratings of companies involved in SNPs, genotyping, or pharmacogenomics research (“going in the wrong direction,” “of potential interest but not critical now,” and “critically important to my field”) into a points-based system and normalizing for the number of ratings given each platform, the following picture emerges of the value placed on companies’ research. GlaxoSmithKline was highest ranked with a score of 196 (out of 300); slightly more than half of survey repondents rated GSK’s research “of potential interest but not critical now,” and the rest rated its work in SNPs “critically important to my field.”

 

1. GlaxoSmithKline, Brentford, UK (196)

2. Perlegen Sciences, Mountain View, Calif. (155)

3. Roche, Basel, Switzerland (153)

4. Genaissance Pharmaceuticals, New Haven, Conn. (147)

5. Sequenom, San Diego, Calif. (139)

6. DeCode Genetics, Reykjavik, Iceland (136)

7. DNA Sciences, Fremont, Calif. (129)

8. Third Wave Technologies, Madison, Wis. (113)

9. Amersham Biosciences, Little Chalfont, UK (111)

10. Celera Genomics, Rockville, Md. (100)

11. Variagenics, Sunnyvale, Calif. (96)

12. Incyte, Palo Alto, Calif. (89)

13. Orchid Biosciences, Princeton, NJ (80)

 

For more information about obtaining a full copy of the report, visit www.genomeweb.com/snpsnap.htm.

 

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