Equipment & Capabilities
Analysis Instruments
Illumina Beadstation 500
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Illumina's BeadArray technology provides superb sensitivity and specificity due to a high redundancy and robust QC across every feature.
The BeadArray Reader with resolution of less than 1 micron can scan high density beadchips for applications in genotyping, mRNA & profiling, methylation characterization.
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Beckman Coulter SNPStream
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The Beckman Coulter SNPstream can genotype from 4,000 to 3 million genotypes per day.
This system can process up to 48 SNPs per well of a 384-well plate, operating at a consistent cost per genotype/sample, regardless of run throughput, allowing users to cost-effectively pinpoint targets with both low and high-throughput studies.
The SNPStream features a single-based primer extension technology and operates at over 99% accuracy.
The system's high sensitivity delivers accurate results using as little as 2 ng of genomic DNA.
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ABI TaqMan 7900
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The ABI 7900 fast real-time PCR System is a real-time quantitative PCR system that combines 96- and 384-well plate compatibility with fully automated robotic loading. Key applications include gene expression quantitation and the detection of single nucleotide polymorphisms (SNPs) using the fluorogenic 5' nuclease assay.
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ABI 3100 capillary systems
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The ABI 3100 is a multi-color fluorescence-based DNA analysis system using the technology of capillary electrophoresis with 16 capillaries operating in parallel. This fully automated system separates amplified fragments of varying sizes for analysis of short tandem repeats (STRs) among individuals and extended pedigrees. Raw DNA sequence is retrieved from the 3100 and imported into Applied Biosystems SEQSCAPE, v.2.0, a sequence comparison tool designed to determine the quality of the DNA nucleotide calls and to identify nucleotide and amino acid variants.
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Affymetrix GeneChip System
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This system includes the GeneChip Scanner 3000, Fluidic Stations, hybridization Oven and a powerful computer workstation loaded with GeneChip Operating Software (GCOS) and GeneChip Genotyping Analysis Software (GTYPE). Affymetrix arrays are a de facto standard for a variety of whole genome expression profiling applications. In addition, the platform can be used for comparative genomic hybridization, resequencing, ChIP-chip, and SNP genotyping studies.
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Extraction & Liquid Handling
KingFisher Flex Magnetic Particle Processor
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KingFisher Flex offers increased flexibility and throughput with the incorporation of magnetic heads for both 96 and 24 well plates.
The 24 magnet head enables the high speed processing of samples from 200 - 5000 µL in 24 well deep-well plates or 20-1000 µL in 96 well plates.
The KingFisher Flex offers automated magnetic particle processing for DNA/RNA, protein or cell purification from virtually any source.
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Qiagen BioRobot M48 System
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Automated DNA extraction from buccal brushes, small volumes of blood, blood spots, and various tissues (such as cell cultures and mouse tails), located in a separate pre-PCR room. The Qiagen BioRobot M48 system performs 48 individual extractions in 2-6 hours using a magnetic bead separation process.
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Tecan Freedom Evo
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The Tecan Freedom EVO 150 is a versatile liquid handling platform and flexible robotic workstation with two pipetting heads and one robotic arm serving a full range of life science applications. The Freedom EVO platform is used to perform routine liquid transfers, such as the transfer of DNA from individual vials into the 96-well storage and amplification plates required by downstream applications.
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Eppendorf epMotion 5075
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The Eppendorf epMotion 5075 instrument is used to perform routine liquid transfers, such as the transfer of nucleic acids from individual vials into the 96-well storage and amplification plates required by downstream applications. The robot is utilized to prepare plates to determine the concentration of the extracted DNA and then using the concentrations obtained to create normalized plates of nucleic acid samples to be used for amplification, sequencing and set up of TaqMan assays.
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Beckman Biomek NX
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By incorporating a wide range of next-generation features into a small-footprint design, the Biomek NX sets a new standard for flexible laboratory solutions. It puts every aspect of liquid handling - including pipetting, dilution, dispensing, and integrations - into a single, automated system. It is used for Post-PCR liquid handling needs.
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Biobanking
The EBSC makes use of several types of fridges and freezers including:
- 4°C fridges
- -20°C freezers
- -80°C freezers
All -80°C freezers are on emergency generator backup power and are monitored 24 hours per day, 7 days a week to ensure temperatures do not fluctuate.
Sample Management & Data Analysis
Samples are tracked and barcoded using a ThermoFisher Nautilus Laboratory Information Management System (LIMS).
Data analysis tools include:
- R / Bioconductor
- GenePattern 3.0 Server
- Gene Set Enrichment Analysis
- Ingenuity Pathway Analysis
- Spotfire
- Significance Analysis of Microarrays
- Gene Cluster 3.0
- Java Treeview
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