Accomplishments and discoveries from VGN students and faculty

Bioinformatics Core Home

Overview of our Core

The Vermont Genetics Network Bioinformatics Core provides bioinformatics support to life science researchers in Vermont and Northeast Regional IDeA States. The Core provides a diversity of services to its users with expertise in biostatistics, microarray data analysis, proteome informatics, next generation sequencing data analysis, functional analysis, database development and information technology, including data storage infrastructure and high performance computing. Working closely with the VGN Proteomics Facility, we offer investigators experimental design consultations, comprehensive data analysis, data management and publishing, and manuscript and grant support. Core personnel also engage in teaching and training activities for data analysis and compute resources necessary for VGN network investigators. Our goal is to provide network researchers with the bioinformatics expertise needed to help advance their life science research and to obtain competitive grant funding and publications.

VGN Bioinformatics Core members also participate in regional and national projects to promote the sharing of research resources, including the VGN Searchable Core Facilities Database, a free global interface for sharing scientific resources developed and maintained by this Core.

Getting Started

  • Just starting? FIll out a bioinformatics service request in iLab and we'll contact you to schedule a consultation.
  • Login to your iLab account with your approved iLab credentials in the top right corner.
  • If you don't have an iLab account sign up for one here!

Links and Resources

VGN Bioinformatics on iLab

Core Facilities Database

Operational Policies

VGN Grant Acknowledgement Agreement

Operational policies document

Service Types

Gene Expression Analysis

  • Microarray differential expression analysis - primary analysis includes microarray data normalization, exploratory data analysis (e.g. PCA), and gene-level and/or isoform-level differential expression analysis (i.e. spreadsheets, plots, heatmaps, etc.).
  • RNA-Seq data analysis - reference-based alignment, de novo assembly, quantification, and differential expression.

Functional Analysis

  • Functional-group analysis of variance of microarray data - KEGG Pathway-ANOVA and GO-ANOVA analyses in Partek Genomics Suite.
  • KEGG Pathway analysis and Gene Ontology analysis 
  • Enrichment analysis - enrichment analysis of genes, motifs, structural domains and post-translational modifications. Software used includes DAVID, Partek Genomics Suite, Motif-x, Scansite, PhosphositePlus.

Database Development

  • Protein and pathway databases

Grant Proposal and Publication Support

  • Data publishing - data deposition into public repositories.
  • Grant proposal and manuscript support - bioinformatics methods text, figure, and table preparation.

Personnel

 

Dr. Fan Zhang

Core Director

(802) 656-9798

Fan.Zhang@uvm.edu

Heather Driscoll

Bioinformatics Analyst

(802) 485-2602

hdriscol@norwich.edu

 

Contact Information:

Vermont Genetics Network
University of Vermont
120A Marsh Life Science Building
Burlington, VT 05405-0086
(802) 656-9119
(802) 656-2914 - FAX
vgn@uvm.edu

Contact the Webmaster:
vgnwebstaff@list.uvm.edu

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