Vermont Cancer Center
Advanced Genome Technologies Core: Facility Arms
- DNA Analysis Facility - The Vermont Cancer Center DNA Analysis Facility provides an array of fast, affordable, user-friendly DNA/RNA analysis services to the members of the Vermont Cancer Center, the University of Vermont research community and outside Institutions. Primary services offered for a fee include DNA Sanger sequencing, real-time quantitative PCR, DNA fragment analysis, SNP detection, nucleic acid extraction, image analysis, analytical flow cytometry, and support for absorbance, chemiluminescence, and fluorescence assays.
- Vermont Genetics Network Microarray Facility - The Vermont Genetics Network Microarray Facility utilizes the Affymetrix GeneChip system to support global gene expression profiling using the standard 3’ arrays, miRNA, gene and exon arrays. The facility also provides supports for DNA idenfitification, quantification, and profiling for DNA studies using the DNA mapping (SNP), Promoter, Phylochip, and custom arrays.
- Massively Parallel Sequencing Facility - The Vermont Cancer Center/ College of Medicine Massively Parallel Sequencing Facility provides genome-scale next generation DNA sequencing. This facility employs the use of the massively paralleled sequencing (MPS) technology on the Illumina HiSeq 1000 system which is a sequencing by synthesis approach (SBS). Next generation sequencing (also known as deep sequencing or high throughput sequencing) enables researchers to sequence as much as an entire human or mouse genome with greater than 50 fold coverage. A single run on the Illumina HiSeq 1000 can generate over 350 billion bases of DNA/RNA.
Advanced Genome Technologies Core Facilities
The Advanced Genome Technologies Core is an overarching umbrella encompassing three distinct shared resource facility arms: The Vermont Cancer Center DNA Analysis, the Vermont Genetic Network Microarray, and the Vermont Cancer Center-College of Medicine Massively Parallel Sequencing Facilities. The mission of the core is to comprehensively support research for investigators both by providing services to individual research laboratories as well as by playing a central role in bringing emerging technologies or approaches that are important for research investigators. The facilities offer a wide breadth of services to facilitate research involving identification, quantification, and profiling of nucleic acids.
Added Value Benefits to Core Users at No Additional Costs
The facility provides a variety of other important benefits free of charge to our users. These include access to two NanoDrop Spectrophotometers, Qubit Fluorometer, Bead Beater homogneizer and two MJ Research gradient thermal cyclers. The facility sponsors seminars on new technologies, holds tutorials on software and instrumentation use, and obtains discounted pricing on common reagents. Data analysis, troubleshooting and consultation in experimental design are provided free of charge to all users of the facility. Our annual Open House is a popular day-long event highlighting all of our services. The facility presents a monthly AGTC User Educational Core Seminar Series with the goal to educate and promote services currently being provided in the facility. A computer workstation area is adjacent to the main lab and has freeware and purchased programs available for data analysis and review with full support from nearby facility staff.
How to Access Services
The Advanced Genome Technologies Core is now using iLab Solutions for all service requests and distribution of data.
To get started, you must register for an account:
- Navigate to the core page: https://my.ilabsolutions.com/service_center/show_external/3129.
- In the upper-right-hand corner of the screen, select sign up.
- Complete the registration form on the sign-up page: https://my.ilabsolutions.com/account/signup/322?sc_id=3129.
- Receive a “welcome” email from iLab (typically within one business day) with login credentials
and basic instructions.
We have developed a number of “How to” Manuals to help with some basic functions:
- Internal UVM- How to register and set up your iLab account
- External to UVM- How to register and set up your iLab account
- How to Reserve Time on an Instrument
- How to Request a Service
- How to Generate a Project Request-Quote
- How to log use when using the BioRad Imagers
- Reporting Function in iLab
Common Equipment Room: 307 HSRF
The common Equipment room was configured to allow access 24/7 to a variety of user driven equipment for trained investigators. Equipment that can be accessed here include:
- Imaging equipment including: Bio-Rad Pharos FX PLUS and Versa Doc 4000 MP
- Beckman Coulter Analytical Flow Cytometer
- 7500 FAST Real Time qPCR
- BioTek Synergy H4 Multi-plate reader
- NanoDrop Spectrophotometer
Experimental Design Consultations are Mandatory for all Microarray and Massively Parallel Sequencing Projects
Design teams for both Microarray and Massively Parallel Sequencing have been assembled that include staff from the respective facilities plus bioinformaticians from the Molecular Bioinformatics Shared Resource and the Vermont Genetics Network Bioinformatics Core. All design team members maintain dedicated time weekly to provide this support.
Tim Hunter, Director, AGTC, email@example.com, 656-2559
Scott Tighe, MPS, firstname.lastname@example.org, 656-AGTC
Mary Lou Shane, DNA, email@example.com, 656-2557
Jessica Hoffman, DNA, Jessica.firstname.lastname@example.org, 656-2557
Meghann Palermo, Microarray, email@example.com, 656-3936
Last modified May 07 2013 11:06 AM