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The Cancer Genome Atlas Project January 24, 2008
Program ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Organization ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
PI’s Ari Kahn SRA DCC Chuck Perou UNC   Rick Myers Stanford   Marc Ladanyi MSKCC   Joe Gray LBL   Steve Baylin JHU   Raju Kucherlapati Harvard/B&W   Matthew Meyerson Broad/DFCI CGCC Rick Wilson WashU   Eric Lander Broad   Richard Gibbs Baylor GSC Robert Penny IGC/TGEN BCR
URLs ,[object Object],[object Object],[object Object],[object Object]
Data Types DNA sequencing Somatic Mutations WashU DNA sequencing Somatic Mutations Baylor DNA sequencing Somatic Mutations Broad Illumina Infinium 550K BeadChip Array Copy Number Stanford Agilent 44K Array Transcription UNC Illumina GoldenGate Methylation JHU Agilent 244K Array Copy Number MSKCC Affymetrix Exon 1.0 ST Array Transcription LBL Agilent 244K Array Transcription and Copy Number Harvard/B&W Affymetrix U133 Plus 2.0 & SNP Array 6.0 Transcription and Copy Number Broad/DFCI Platform Analysis Institution
Data Levels ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Flow Tissue Source (MD Anderson, Henry Ford, …) ,[object Object],[object Object],[object Object],[object Object],GSC WGA CGCC DNA, mRNA DNA NCBI Trace Archive DCC sample data Bulk Download caTissue Core caArray caIntegrator “ tracking database”
Data Formats ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Where Does/Will the Data Go? ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

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TCGA data coordination center: Carl Schaefer and Ari Kahn (NCICB)

  • 1. The Cancer Genome Atlas Project January 24, 2008
  • 2.
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  • 4. PI’s Ari Kahn SRA DCC Chuck Perou UNC   Rick Myers Stanford   Marc Ladanyi MSKCC   Joe Gray LBL   Steve Baylin JHU   Raju Kucherlapati Harvard/B&W   Matthew Meyerson Broad/DFCI CGCC Rick Wilson WashU   Eric Lander Broad   Richard Gibbs Baylor GSC Robert Penny IGC/TGEN BCR
  • 5.
  • 6. Data Types DNA sequencing Somatic Mutations WashU DNA sequencing Somatic Mutations Baylor DNA sequencing Somatic Mutations Broad Illumina Infinium 550K BeadChip Array Copy Number Stanford Agilent 44K Array Transcription UNC Illumina GoldenGate Methylation JHU Agilent 244K Array Copy Number MSKCC Affymetrix Exon 1.0 ST Array Transcription LBL Agilent 244K Array Transcription and Copy Number Harvard/B&W Affymetrix U133 Plus 2.0 & SNP Array 6.0 Transcription and Copy Number Broad/DFCI Platform Analysis Institution
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  • 10.