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AFFYMETRIX GENECHIP ARRAY STATION

AFFYMETRIX GENECHIP ARRAY STATION. By. Pierce Chuang, Vishu Rajamani, Jeremy Rasiah. Overview. Introduction to DNA/RNA Sequencing Techniques Affymetrix GeneChip Station GeneChip Station Architecture Manufacturing Process Questions. Introduction to DNA/RNA. Introduction DNA/RNA (cont’d).

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AFFYMETRIX GENECHIP ARRAY STATION

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  1. AFFYMETRIX GENECHIP ARRAY STATION By Pierce Chuang, Vishu Rajamani, Jeremy Rasiah

  2. Overview • Introduction to DNA/RNA • Sequencing Techniques • Affymetrix GeneChip Station • GeneChip Station Architecture • Manufacturing Process • Questions

  3. Introduction to DNA/RNA

  4. Introduction DNA/RNA (cont’d)

  5. Genes

  6. DNA Sequencing Techniques • Chain-terminator method (Sanger) • Dideoxynuclotides triphosphates (ddNTPs) as DNA chain terminators • Sequence roughly 550,000 bases in a day • Requires thirty years of uninterrupted operation to sequence all nucleotides in the human genome

  7. DNA Sequencing Techniques • Sequencing By Hybridization (SBH) • Ex, target DNA sequence, AGCCTAGCTGAA Affymetrix Microarray Specification

  8. Affymetrix GeneChip Station

  9. Assay Preparation

  10. Probes

  11. GeneChip Array source: http://bach2.biosci.arizona.edu/

  12. Results source: http://www.med.upenn.edu/

  13. Affymetrix GeneChip Station Architecture

  14. Detector Architecture source: http://www.affymetrix.com/

  15. GeneChip Array source: http://bach2.biosci.arizona.edu/

  16. GeneChip Array Cross Section

  17. Array Manufacturing Process • 2: substrates, SiO2, Si, GaAs, or Glass. • 6: Linker Molecules. Ex, Aryl Acetylene • 8: Mask, for photolithographic process • 10: Activated Linker Molecules

  18. Array Manufacturing Process

  19. Array Manufacturing Process • This process is repeated several times to produce longer probes. • Full length probes are usually 25 nucleotides long

  20. Questions ?

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