Affymetrix genechip array station
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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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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)


Genes


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


DNA Sequencing Techniques

  • Sequencing By Hybridization (SBH)

    • Ex, target DNA sequence, AGCCTAGCTGAA

Affymetrix Microarray Specification


Affymetrix GeneChip Station


Assay Preparation


Probes


GeneChip Array

source: http://bach2.biosci.arizona.edu/


Results

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


Affymetrix GeneChip Station Architecture


Detector Architecture

source: http://www.affymetrix.com/


GeneChip Array

source: http://bach2.biosci.arizona.edu/


GeneChip Array Cross Section


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


Array Manufacturing Process


Array Manufacturing Process

  • This process is repeated several times to produce longer probes.

  • Full length probes are usually 25 nucleotides long


Questions ?


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