Vermont Integrative Genomics Resource - VIGR

 

Overview of Services

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Important Note on Trizol: As of Spring of 2020, the core will no longer process Trizol or Tri-Reagent extract RNA for down stream analysis such as NGS library synthesis, RTqPCR, cDNA reactions, and microarray target synthesis. There will be no exceptions.   At this time however, we will be happy to provide QC and/or final SBS sequening on user geneated  libraries.  Since Phenol can not be cleaned from a Trizol prep, we strongly suggest an alternative RNA extraction.

Shipping

Vermont Integrative Genomics Lab 
University of Vermont Cancer Center
Firestone Medical Research Building room 150B
149 Beaumont Ave
Burlington Vermont 05405
[T] 001-802-656-2482

The Vermont Integrative Genomics Resource (VIGR) runs the following instrumentation:

Core Instrumentation:

Singular G4 [NEXTGEN SEQUENCER]

Illumina MiSeq [NEXTGEN SEQUENCER]

Illumina MiniSeq [NEXTGEN SEQUENCER]

(3) Oxford Nanopore MinION [NEXTGEN LONG READ SEQUENCER]

(1) Oxford Nanopore GridION [NEXTGEN  LONG READ SEQUENCER]

(1) Oxford Nanopore MK1C [NEXTGEN SEQUENCER]

Oxford Nanopore PromethION P2 Solo

10X Chromium Single cell controller [Single Cell GENOMICS]

BioRad QX200 ddPCR [DIGITAL DROPLET PCR]

ABI SeqStudio [SANGER SEQUENCER]

ABI QuantStudio 6 Flex [RTqPCR]

ABI 7500 Fast [RTqPCR]

ThermoFisher SeqStudio [SANGER SEQUENCER]

Agilent Bioanalyzer 2100 [FRAGMENT SIZE ANALYZER]

Innovaprep CP liquid concentrator systems

Qubit 4 Flourometer [DNA QUANTIFICATION]

Nanodrop ND1000 [DNA QUANTIFICATION/QC]

Biorad ChemiDoc XRS+ [GEL DOC/CHEM DOC]

Omni-Prep High Output Bead Mill Homogenizer

Please use the following link to view our website:  https://www.med.uvm.edu/vigr/home

Please note any required administrative paperwork by external facility users must be presented and handled prior to sample submission. Please contact Nicole.DeLance@med.uvm.edu to start your paperwork.  Post analysis paperwork will not be processed. This allows the core to deny services if paperwork requires added staff time outside of normal activities. Additional administrative processing or paperwork beyond iLabs automatic invoicing will be billed at the standard labor fee set in the "request for services" tab in iLabs as Applied support and automatically added to the ilabs invoice. So please be prepared. The core is very busy.

Please note the core and its staff reserve the right to deny services for any reason as approved by the director(s).

Getting Started

  • Login to your iLab account with your approved iLab credentials in the top right corner.
  • Don't have an iLab account? Sign up for one here!

 

Operational Policies

  1. Sample Submission, Storage and Retrieval Policy
  2. Procedure for Qualifying a Grant for the UVMCC subsidy in the DNA Analysis Facility
  3. Policies for accessing Bioinformatics Services

 

 

2/8/23 Card Access:

Please contact Amy.Gilman@med.uvm.edu or Nicole.DeLance@med.uvm.edu for card access to FMRB 185A for sample submission and use of VIGR.

 
 

 

Webinar series recordings:

 
Webinar 6 Digital Droplet PCR: advantages and applications
Webinar 5 Oxford Nanopore Technologies with the GridION MK5: Long Read Sequencing Analysis
Webinar 4 Oxford Nanopore Technologies with the GridION MK5: Long Read Sequencing Applications
Password: 2y+SsI4.
 
Webinar 3 Analysis of Single Cell Data: Assays, Methods, and Requirements with VIGR: https://uvmcom.zoom.us/rec/share/5tN2ArzXzFJJUtb99xqAYq4cOobPT6a80yQfqfZYyx49wE9irZdzpcw_HQyc0DMw
Password: 3K&8*kt&
 
Webinar 2 10x Genomics Chromium Single Cell Sequencing with VIGR: 
[zoom link is coming soon]
 
 
Webinar 1 Nextgen Sequencing with VIGR: Nextgen Sequencing with VIGR
Password: w5=%9&%#
 

Location and hours of operation

 Hours

Location

8:30am - 5 pm Mon-Fri.

150B FMRB

Contacts

Name Role Phone Email Location
Dr. Julie Dragon
Director
 
802-656-7777
 
julie.dragon@uvm.edu
 
149 Beaumont Ave, FMRB 160, Burlington Vermont 05405
 
Scott Tighe
Technical Director
 
802-656-2482
 
scott.tighe@uvm.edu
 
FMRB 156
 
Kristiaan Finstad
Senior Technician
 
802-656-2557
 
kristiaan.finstad@med.uvm.edu
 
FMRB 150B
 
Dr. Kirsten Tracy
Senior Scientist
 
802-656-2557
 
kirsten.tracy@med.uvm.edu
 
FMRB 150B
 
Dr. Ramiro Barrantes
Statistics/ Computational Biology
 

 
ramiro.barrantes@uvm.edu
 
FMRB 150B
 
Stacia Richard
Lab Research Technician
 
802-656-2557
 
stacia.richard@uvm.edu
 
FMRB 150B
 

Sample Submission and Laboratory Services


Search available services: View: by category alphabetically
Bioinformatics Shared Resource (17)
Droplet Digital PCR or RTqPCR (1)
General Genomic Services (15)
Nanopore Sequencing (1)
Next Gen Sequencing (21)
Sanger Sequencing (2)