University of Vermont

College of Medicine

Vermont Cancer Center

VCC DNA Analysis Facility

DNA Analysis Facility

About Us

building of COM


Tim Hunter
Senior Research Technician:
Mary Lou Shane
Lab Research Technician:
Jessica Hoffman


Placing an Order

  • Please see the AGTC homepage for information on accessing services in the DNA Analysis Facility


Contact Us

Health Science Research Facility
149 Beaumont Avenue
Burlington, VT 05405
Phone: (802) 656-2557
(802) 656-2140

The DNA Analysis Facility at the Vermont Cancer Center provides a wide array of efficient, user friendly, and affordable DNA analysis services to members of the Vermont Cancer Center, the University of Vermont research community, and outside institutions. Services provided for a fee include DNA Sequencing, RTqPCR, DNA fragment Analysis, nucleic acid extraction, image analysis, SNP detection, human cell line authentication and projects on demand.

The facility provides a variety of important benefits free of charge to our users including experimental design consultation, data analysis and trouble shooting. Our annual Open House is a popular day long event highlighting our services and new technologies. The facility hosts a monthly User Education Seminar series, presents software and instrumentation tutorials with the goal to educate and support our users, and showcase new services. A computer workstation area is adjacent to the main lab and has freeware and purchased programs available for user driven data analysis with full support from nearby facility staff.


  • Automated DNA Sequencing
    Cycle sequence reactions
    Sequence runs
  • Fragment Analysis.
    Genotyping, haplotyping, microsatellite markers
  • Human Cell Line Authentication
    Includes DNA extraction and microsatellite analysis
  • Realtime qPCR
    Quantitative PCR (absolute or relative)
    Allelic Discrimination Assays
    SNP Detection (low or high-throughput)
  • RNA and DNA extractions
  • Nucleic Acid and Protein Quantification
  • Molecular Imaging
  • Consultation and Troubleshooting
  • Computer workstation with DNA analysis software


  • ABI Prism 3100-Avant Genetic Analyzer (4 capillary)
  • ABI Prism 3130xl Genetic Analyzer (16 capillary)
  • ABI Prism 7900HT Sequence Detection System (Real-time qPCR)
  • AB 7500 Fast Real-time PCR System
  • BioRad Personal Molecular Imager FX
  • BioRad PharosFX Molecular Imager FX (with external Laser)
  • BioRad Versa Doc 4000 MP
  • BioTek Synergy H4 Hybrid Reader
  • DNA Engine 96-well gradient Thermal Cycler (2)
  • NanoDrop (2)

Computer Annex

The software accessible to users includes: GeneMapper, Autoassembler, Sequence Navigator, DNASTAR, Sequencher, Chromas, Edit View, BioEdit, Quantity One, Primer Express, Primer Select, and Dissociation Curve software.

Criteria and Process for VCC Member Subsidized Rates:

Guidelines updated 5/8/2014

Cancer Research Projects conducted by approved VCC Members that meet specific criteria are eligible to receive a 50% subsidy for all services in the DNA Analysis Facility arm of the Advanced Genome Technologies Core. For information regarding VCC Membership or to confirm the status of your membership please visit the VCC website – For VCC Members.

A list of Cancer Qualified Research criteria is given below. If your project meets the criteria for Cancer Qualifying Research, you can contact Tim Hunter, Director of AGTC directly to set-up services.

If a project falls outside of the criteria listed below, prior approval is required by the VCC Executive Leadership (Gary Stein, Claire Verschraegen, and Kimberly Luebbers).

Projects are NOT automatically cancer qualified by the nature of their funding agency. All projects require that the PI make a request by email to either Tim Hunter or VCC Leadership for “cancer qualifying” determination. All projects require review and approval PRIOR to submitting work to the DNA Analysis Facility.

Cancer Qualified Research includes:

  • All Research Supported by the NCI with the following prefixes: R00, R01, R03, R15, R18, R21,R24, R25, R33, R37, R41, R42, R43, R44, R55,R56, P01, P50 sub-projects, P20, SC1, SC2, U01, U10, U19, U54, U56 and N01 research contracts and peer-reviewed, funded subcontracts of Center Members participating in collaborative research. (Note: Shared resources of multi-component grants are not eligible for inclusion)
  • Cancer-related Research Supported by Other NIH Institutes (same prefixes as above) and Funding Organizations (i.e. ACS (Nat’l), NSF, EPA, VA (Central Office), AICR, NIOSH, FDA, AHRQ, AACR, amFR, CIRM, CPRIT, CDC, FAMRI, FBRP, MRA, MMRF, NYSTEM, CBCRP, TRDRP, DOD Breast, Ovarian, Prostrate Cancer Program, Susan G. Komen, Leukemia and Lymphoma Society, Breast Cancer Research Foundation (BCRF), Cancer Research Foundation of America, & Howard Hughes Medical Foundation).
  • Unfunded Clinical Research Studies approved by the NCI’s Cancer Therapeutics Evaluation Program (CTEP) or the VCC Protocol Review Committee.
  • VCC or VCC/LCCRO approved Awards (e.g. VCC/LCCRO Pilot Project Awards, Program Awards, etc.)

Any cancer-related projects that fall outside the above criteria will require review by the VCC Executive Leadership team. Proposals that do not meet the Cancer Qualified Research criteria listed above should be submitted to the Executive Leadership of the VCC (Gary Stein, Claire Verschraegen, and Kimberly Luebbers).

Receiving the Cancer-Subsidy when placing a request in iLab:

Once your Grant has been approved to receive the subsidy, the staff at the DNA Analysis Facility will be notified. When you first place a service request in iLab to the DNA Analysis Facility, you will see the full cost of the request displayed. The staff will review the request and confirm that it should receive the subsidy. At that time, the cost will be lowered by 50% and you will see the actual cost to your grant for the work to be done. If you use a grant prior to getting it approved you will be charged the full amount and changes to the billing will NOT be retroactive, so be sure to have your grant reviewed prior to sample submission.

Citing the Facility

Please remember to cite the VCC DNA Analysis Facility in your abstracts and publications. These citations demonstrate to the NCI and other funding organizations (as well as the UVM administration) the importance of this facility to UVM researchers and thereby encourage their continued support. We try to keep a current list of all publications that cite the facility, so please let us know as when your papers are published.

For Cancer Qualifying projects that were completed prior to Nov. 30, 2008:

  • "The automated DNA sequencing (or other molecular analyses, i.e. rtQPCR, MSI, etc.) was performed in the VT Cancer Center DNA Analysis Facility and was supported in part by grant P30CA22435 from the NCI. The views expressed are those of the author and do not represent the views of the NCI."

For Cancer Qualifying projects that were completed after Nov. 30, 2008:

  • "The automated DNA sequencing (or other molecular analyses, i.e. rtQPCR, MSI, etc.) was performed in the VT Cancer Center DNA Analysis Facility and was supported by Vermont Cancer Center, Lake Champlain Cancer Research Organization, and the UVM College of Medicine."

For other users, state that DNA sequencing (or other molecular analysis) was performed in the VT Cancer Center DNA Analysis Facility.

Links of Interest

Last modified May 09 2014 04:13 PM