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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

AFFYMETRIX GENECHIP ARRAY STATION

By

Pierce Chuang, Vishu Rajamani, Jeremy Rasiah


Overview
Overview

  • Introduction to DNA/RNA

  • Sequencing Techniques

  • Affymetrix GeneChip Station

  • GeneChip Station Architecture

  • Manufacturing Process

  • Questions





Dna sequencing techniques
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 techniques1
DNA Sequencing Techniques

  • Sequencing By Hybridization (SBH)

    • Ex, target DNA sequence, AGCCTAGCTGAA

Affymetrix Microarray Specification





Genechip array
GeneChip Array

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


Results
Results

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



Detector architecture
Detector Architecture

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


Genechip array1
GeneChip Array

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



Array manufacturing process
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 process2
Array Manufacturing Process

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

  • Full length probes are usually 25 nucleotides long



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