Genomics Shared Resource
Scientific Director
Stephen P. Ethier, PhD
Professor, Pathology & Laboratory Medicine Contact Information Robert C. Wilson, PhD
Operations Director
Research Associate Professor, Pathology & Laboratory Medicine
Phone: 843-876-2217
E-Mail: wilsorc@musc.edu Jennifer Schulte
Phone: 843-876-2243
E-Mail: schultej@musc.edu
Location: 433 Bioengineering Building
Description The Hollings Cancer Center Genomics Core Facility at MUSC offers state of the art next generation sequencing (NGS) including DNA-Seq, RNA-Seq, ChIP-Seq, Methyl-Seq, Targeted sequencing utilizing Illumina HiScanSQ and Ion Torrent instrumentation. See below for other types of applications. In addition to NGS, Bead-Array analyses for GWAS, RNA expression and other analyses are available.
Illumina HiScanSQ
| Applications | Sequencing Applications | Bead Array Applications | | Whole-Genome Analysis | Whole-Genome Discovery | Whole-Genome Genotyping, FFPE Sample Analysis | | Copy Number Variation (CNV) | CNV Analysis | CNV Discovery | | Targeted Genome Analysis | Exome Sequencing, Targeted Resequencing (Custom Panels) | Custom and Focused Genotyping | | Gene Regulation and Epigenetic Analysis | ChIP-Seq, Small RNA Analysis, Methylation (Methyl-Seq) Discover and Analysis | Whole-Genome DNA Methylation Profiling | | Gene Expression | Transcriptome (RNA-Seq) Discovery, Profiling | Whole-Genome Expression Profiling, FFPE Sample
Analysis | | Cytogenetics | Digital Karyotyping | Cytogenetic Analysis |
Ion Torrent
| Applications | DNA Sequencing | RNA Sequencing | | Agricultural Research | Small Genome Sequencing | Gene Expression by Sequencing | | Cancer Research | Gene Sequencing (Cancer Panels) | Small-RNA Sequencing | | Forensic Science | Exome Sequencing | Whole-Transcriptome Sequencing for Low Complexity Genomes | | Stem Cell Research | Mitochondrial Sequencing | | | Epigenomics | HLA Sequencing | | | Metagenomics | SNP Confirmation | | | Ancient DNA Genomics | Library Assessment | | | 16S Metagenomic Sequencing | | | ChIP Sequencing | | | Methylation Analysis | | | De novo Sequencing | |
Equipment - Illumina HiScanSQ micro-array scanner and HiSeq sequencerIllumina cBot Cluster Generation System
- Ion Torrent PGM sequencer
- Ion One Touch System
- Agilent ® 2200 TapeStation
- Sage Science Pippin Prep
- Diagenode Bioruptor UCD-600 TS
- QuBit Fluorometer
- IBM compute analysis, storage cluster
DATA Analysis - Using CASAVA the sequencing data will be generated in either the SAM format or FASTq format for the downstream analysis.
- Bead array image files will be analyzed by Illumina Genome Studio. Files will be available for 3rd party software analysis.
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86 Jonathan Lucas Street 
