Vermont Integrative Genomics Resource - VIGR

7/29/20 Update: Core Access

Please follow this link to the form you will need to get Staff/Faculty/Grad/Temp/Vendor card swipe access to the HSRF building and HSRF 303.

*Note* You will need to put the date of your VOSHA CoVid19 training on this form in the table and you will need your PeopleSoft (not Net) ID, and the signature of your department chair or college dean.

If you only need access to HSRF 303, digitally fill out the form and email to Julie.Dragon@med.uvm.edu

 

If you are requesting access to HSRF as well as access to HSRF 303, follow these steps:

1) Digitally complete the form

2) Obtain appropriate signatures from your department

3) Once signed off by your department, email the form to Julie Dragon (Julie.Dragon@med.uvm.edu), NOT directly to CatCard or the Lock Shop

 

 
 

Please send this form to Julie Dragon (julie.dragon@med.uvm.edu), NOT directly to CatCard or the Lock Shop.

https://www.uvm.edu/sites/default/files/Physical-Plant-Department/Request_For_Keys_Revised2018.pdf

 

To get Undergraduates card swipe access, follow the same procedure but use this form 

https://www.uvm.edu/sites/default/files/UVM-CATcard-Service-Center/Undergraduate_Access_Request_Form.pdf

 

5/29/20 Update and Webinar series recordings:

 
Hi folks! VIGR will open June 1. Please honor the new protocols posted on the services page, and on the lab doors.
 
We are continuing the mini-webinars which you can view here:
 
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&%#
 
 
3/27/2020 Update:
 
Vermont Governor Phil Scott issued a “Stay Home, Stay Safe” Executive Order and directed the closure of in-person operations for all non-essential businesses.
The order is scheduled to extend until April 15, 2020. 
 
At this time, Vermont Integrative Genomics Resource staff is available by email or teleconference. We will update our clients on when we will reopen as more information becomes available. For those of you with samples in our lab, rest assured they are stored appropriately and we will get back to them as soon as we re-open.  Contact emails are found at the bottom of this page, please email the Genomics staff with any questions.
 
 

Virtual Experimental Consultations are available Monday-Friday from 11-11:30 am and 11:30-Noon. Please sign into iLab and go to the consult calendar to sign up

Overview of Services

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The Vermont Integrative Genomics Resource (VIGR) provides servies in four branches of genomics:

  • General Genomic Services: an array of fast, affordable, user-friendly DNA/RNA analysis services to the members of the University of 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, and support for absorbance, chemiluminescence, and fluorescence assays.
  • Microarray: Affymetrix GeneChip system supports 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: genome-scale next generation DNA sequencing.  This facility employs the use of the massively paralleled sequencing (MPS) technology on the Illumina HiSeq 1500 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 1500 can generate over 350 billion bases of DNA/RNA.
  • Bioinformatics: offers services related to genomic sequencing, epigenetic modification, or expression, from initial experiment design to publication ready figures and text. 

Please use the following link to view our website:  https://www.med.uvm.edu/uvmcancercenter/core-facilities/genome-technologies

 

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

 

 

  

Location and hours of operation

 Hours

Location

7:30am - 5 pm Mon-Fri.

303 HSRF 

 

Core Contacts:

Dr. Julie Dragon
Director
Director / Bioinformatics 
802-656-7777 
julie.dragon@uvm.edu 

Scott Tighe
Massively Parallel Sequencing Facility
scott.tighe@uvm.edu
303 HSRF

Jessica Hoffman
802-656-2557
jessica.hoffman@uvm.edu
303 HSRF

Pheobe Laaguiby
802-656-2557
pheobe.kehoe@uvm.edu
303 HSRF

Korin Eckstrom
802-656-2461
korin.eckstom@med.uvm.edu
Given Courtyard S365 (physical)

Dr. John Hanley
john.hanley@med.uvm.edu
Given Courtyard S356 (physical)

Dr. Ramiro Barrantes
Statistics / Computational Biology
ramiro.barrantes@uvm.edu
Given Courtyard S356

Dr. Marni Slavik
Biology / Systems Biology 
marni.slavik@uvm.edu
303 HSRF



Contacts

Name Role Phone Email Location
149 Beaumont ave HSRF 303

 
802-656-2557
 

 
Burlington Vermont 05405
 

Sample Submission and Laboratory Services


Search available services: View: by category alphabetically
Bioinformatics Shared Resource (19)
Droplet Digital PCR or RTqPCR (2)
General Genomic Services (15)
Microarray (12)
Nanopore Sequencing (1)
Next Gen Sequencing (13)
Sanger Sequencing (2)