1. Bioinformatics Shared Resource
Gerard (Gary) T Hardiman, PhD
Professor, Departmens of Medicine & Public Health Sciences
Bioinformatics Director, Center for Genomic Medicine
Bioinformatics Shared Resource
SCTR Scientific Retreat on The Human Microbiome
SCTR Scientific Retreat on The Human Microbiome
South Carolina Clinical & Translational Research (SCTR) Institute and the MUSC Center for Genomic Medicine

2. BioInformatics is a Big Data Problem
Davis-Turak J, Courtney SM, Hazard ES, Glen WB Jr, da Silveira WA, Wesselman T, Harbin LP, Wolf BJ, Chung D, Hardiman G.
Expert Rev Mol Diagn Mar;17(3): doi: /

3. BioInformatics is a Big Data Problem
Genomics pipelines and data integration: challenges and opportunities in the research setting.
Davis-Turak J, Courtney SM, Hazard ES, Glen WB Jr, da Silveira WA, Wesselman T, Harbin LP, Wolf BJ, Chung D, Hardiman G.
Expert Rev Mol Diagn Mar;17(3): doi: /
Davis-Turak J, Courtney SM, Hazard ES, Glen WB Jr, da Silveira WA, Wesselman T, Harbin LP, Wolf BJ, Chung D, Hardiman G.
Expert Rev Mol Diagn Mar;17(3): doi: /

4. HTS (including metagenomics) in 2013

5. MUSC Capabilities 2017 Automated Workflows Downstream Analyses
Data Management
Data Cleaning, Trimming & Auto QC
BioValidation of all Workflows
HOMER Suite
RNA Sequencing
mRNA, microRNA & Fusion
RNA Variant
De Novo Transcriptome Assembly
DNA Sequencing
Exome
Whole Genome
Advanced Variant Annotation & Filtering
Metagenomics Sequencing
16S
Shotgun
ChIP Sequencing
Methylation Sequencing
Custom Workflows
Automated Data Tracking
Complete Audit Trail
By Workflow & Application
By Input and Output Files
By Project & User
Automated Storage Management
Automated Data Protection
Efficient compression
Smart File Archival
Customizable policies
Integrated BioLibrary
Reference Genomes
Reference Databases
Public Consortium Data
Onramp GRP

6. OnRamp Bioinformatics
Empowering Metagenomics Research
PIPELINES & FEATURES
Streamlined software and data management
Full data auditing for reproducibility
16S, 18S, and shotgun metagenomics
Customizable pipelines
TOOLS & INSIGHTS
Integrated Super Focus and QIIME
Interactive Krona visualizations
Virus and bacterial diversity, abundance, and functional classification
Functional pathway identification

7. MUSC BIOINFORMATICS SHARED RESOURCE
Scientific Director: Gerard (Gary) T Hardiman, PhD
Associate Director: E. Starr Hazard, Ph.D.
Staff Scientist/Programmer
William B. Glenn, PhD
Postdoctoral Scientist:
Willian da Silveira, Ph.D. 7

8. Marine metagenomics (of endocrine disruption) in hornyhead turbot at wastewater outfalls
Molecular analysis of endocrine disruption in hornyhead turbot at wastewater outfalls

9. Metagenomics of endocrine disruption in hornyhead turbot at wastewater outfalls
Molecular analysis of endocrine disruption in hornyhead turbot at wastewater outfalls

10. The Impact of Climate Change on the Oceans and Communities Of The US Sea Islands Mark Hamann, Gary Hardiman, Erik Svendsen
.      As per our retreat objectives, please use the last 1-2 slides to show your research related needs, what kind of collaborations that you are looking to develop, what kind of expertise is needed etc. to continue your research. This will help the other attendees to make the connections with you to develop collaborations.