Genomics/DNA Microarray Core

In the age of genomics, inspired by completion of the human genome sequencing project, researchers can now utilize genomic technologies to decipher host-pathogen interactions. Transcription profiles of all genes in a network can be analyzed together rather than the cumbersome gene-by-gene approach. The CMTV Genomics/DNA Array Core provides access to state of the art instrumentation for genomic research and has contributed to the success of CMTV research by allowing the discovery of cellular pathways mediating viral pathogenesis and/or control of infection. In concert with the CMTV Bioinformatics Core, the Genomics/DNA Array Core supports analysis of a wide array of genomics experiments.  Recently, we have added next generation sequencing to expand the genomics applications available to our researchers.  The goal of the Genomics/DNA Array Core is to provide access, technical support, and training involving microarray, next-generation sequencing and real-time PCR technologies. The Genomics/DNA Array Core also extends its services throughout the state of Louisiana.  

The CMTV Genomics/DNA Array Core is equipped with the following technologies:  

Illumina MiSeq Sequencer:  The MiSeq sequencer uses “sequencing by synthesis chemistry which generates sequence information for up to 15 million clusters producing 8 gigabases of DNA sequence”. The MiSeq is a fully integrated system that incorporates cluster generation, sequencing, paired end fluidics, and complete data analysis simplifying the use of this system.  DNA libraries can be prepared from RNA or DNA allowing sequencing of customized multiplexed amplicons, enriched fractions, small genome de novo sequencing and resequencing, small RNA sequencing, and 16S metagenomics studies. 

Affymetrix GeneChip Instrument System: This system is suitable for genome-wide analysis of RNA or DNA using Affymetrix GeneChip arrays.  RNA analysis supported by this technology include: global transcriptional profiling of mRNA, microRNAs, and whole transcripts (exon or gene arrays).  DNA analysis supported by this technology include:  analysis of DNA single nucleotide polymorphisms, DNA copy number, and protein-DNA interactions using chromatin immunoprecipitation (ChIP-on-Chip). 

Real-time PCR thermocyclers:  An Applied Biosystems 7900HT Fast Real-time PCR system, two BioRad CFX384 instruments, and two BioRad IQ thermocyclers are available through the Genomics/DNA Array Core.  These fully integrated real-time PCR instruments allow detection and quantitation of DNA sequences by either the fluorogenic 5’ nuclease assay or double-stranded DNA binding fluorescent dyes (SYBR Green I). 

Agilent 2100 Bioanalyzer: The Agilent Bioanalyzer is a microfluidics-based instrument that determines size and quantity of DNA, RNA, proteins and cells. 

Workstations and bioinformatics support:  The Genomics/DNA Array Core has two workstations available for analysis of microarray and real-time PCR experiments.  The CMTV Bioinformatics Core provides additional bioinformatics support.

Supported by a grant from the National Institute of General Medical Sciences (P30-GM110703 ).