SciGeneAutomating Array Workflows

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Automating aCGH Workflows — from DNA to Scanner

Array Comparative Genomic Hybridization (aCGH)

Overview

       

Manual processing of genetic tests can be complex and may require a completely new set of skills for laboratory personnel. To simplify and streamline the workflow for microarray-based tests, new “operator friendly” automation tools are required. SciGene has three specialized instruments that work separately or together to automate the workflow from sample labeling through array hybridization and post-hybridization processing. The instruments are platform “agnostic” and can be used with all commercial microarrays including those from Agilent, Roche NimbleGen, BlueGnome and others.


  Automating aCGH-based tests
         

aCGH Workflow

Automating the Microarray Workflow

   
 

Case Study

DNA Labeling and Purification

 
ArrayPrep Target Preparation System
 

Kyle Sundin
“I run a busy aCGH-based genetic testing laboratory where we process more than 250 patient samples each week using BAC and oligo microarrays. As our operation has grown, we have worked closely with SciGene to automate our laboratory workflow.

Little Dipper Processors with ozone control have been in operation for over two years and provide clean arrays ready for scanning without risk of ozone degradation. We are incorporating the new ArrayPrep Target Preparation system into our laboratory to automate the many steps normally used for DNA labeling and clean up. SciGene’s automation technology has enabled us to handle increasing sample volumes while improving reproducibility and throughput. SciGene has been a committed and responsive partner over the years.” — Kyle Sundin, Laboratory Manager
Signature Genomic Laboratories, LLC


The ArrayPrep® Target Preparation System is a robotic liquid handling and incubation system that automates DNA labeling and array hybridization setup methods widely used in microarray analysis.

 
  • Prepares 8 to 96 DNA samples ready for hybridization
  • Requires less than an hour hands-on time
  • Features 3 plate heating/cooling positions with removable heated lids
  • Pipettes from 1 to 250µl
  • Performs single or eight channel dispensing (minimizes reagent use)
  • Integrated plate gripper automates plate movement
  • Compatible with the Mai Tai® Hybridization System
  • Fully optimized for easy setup using validated protocol
 
   

Array Set Up and Mixing

 
Mai Tai Hybridization System
 

The Mai Tai® Hybridization System consists of automation-compatible, multiple slide hybridization cassettes, specially designed rotator and a rotating oven. The system “bubble mixes” samples during hybridization to boost signals. Read more.
 
  • Hybridizes four slides in one cassette — holds eight cassettes or up to 32 slides
  • Two piece cassette design reduces handling errors.
  • Provides bubble mixing for higher signals.
  • Compatible with ArrayPrep® System for automated sample loading.
  • Solid door protects light sensitive dyes during hybridization.
  • Rotates from 2 to 80 RPM with a jog feature for easy loading.
  • Provides uniform temperature to ±0.1°C from set point.
  • Regulates temperature from ambient +5 to 99°C.
  • Easy temperature validation / calibration with digital thermometer.
  • CLIA compliant.
 


     

Array Washing and Drying

 
Little Dipper Processor
 

Customers
SciGene aCGH customers


The Little Dipper® Microarray Processor with NoZone Workspace washes and dries up to 24 slides following optimized protocols developed for popular platforms (Agilent, Roche NimbleGen, Illumina, etc.). Read more.
  • Ability to process up to 24 samples per batch.
  • Controls critical wash temperatures to ±0.5 degree.
  • Comes with pre-programmed validated protocols.
  • Holds slides after processing in a low light environment prior to scanning.
  • Operates in an ozone-safe environment to protect sensitive fluorescent samples from destruction that can distort results.
  • Compatible with all slide based methods including microarrays and cytogenetic applications (FISH, G-Banding/karyotyping).
  • Compatible with commercial microarray providers including Roche NimbleGen, Agilent, Illumina and BlueGnome, as well as self-spotted slides.
  • CLIA compliant.
 

Many members of International Standards for Cytogenomic Arrays Consortium (ISCA) use SciGene technology to improve their workflows. Ask us for references.

     

Literature

 

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