Bioinformatics Facility

Overview

The Bioinformatics Shared Resource continuously develops new and efficient approaches to data analysis as a response to emerging research needs. Facility functions include: statistical analyses and computational modeling for all types of high-throughput data; advanced bioinformatics tools for integrative cancer biology; and data management. Routine data analyses include large scale information datasets (omics data) generated by high-throughput technologies, which address the following areas:

• Gene expression (RNA-seq, smRNA-seq, microarrays)
• Gene regulation (ChIP-seq, ATAC-seq, epigenetic profiling, promoter methylation arrays)
• Genome and transcriptome sequencing (alternate splicing, RNA editing, mutation detection, CNV)
• Biomarkers (discovering markers in mRNA ,miRNA and protein expression data)
• Proteomic analyses (mass spectrometry-based spectra, LCMS, DIGE, etc.)
• Polymorphism genotyping (e.g. Single Nucleotide [SNP] and Copy Number variations [CGH], LOH)
• Pathway and network analysis
• Integration of multi-platform data
• Other customized data analysis projects

Services

• High-throughput data analysis:
  • Next generation sequencing data analysis
  • All microarray platforms
  • Low-density PCR arrays (mi-RNA, pathways, custom)
  • Proteomics data
  • Enrichment Analysis (Ingenuity, DAVID)
• Comprehensive analysis of complex projects that require multi-platform data integration
• Consultation and support of experimental design and customized bioinformatics services
• Statistical consultation and predictive model building
• Computational support for data management, high performance computing, and custom programming
• Centralized computation resources, including data management and collaboration tools, sequence databases, homology algorithms, and other sequence manipulation tools
• Web-based application/database development and management
• Training: Genome Browser, Ingenuity, DAVID
• Grant and publication support: results, methods, figures
• Advanced biological models and illustrations

Pricing

For pricing information, visit iLab or contact the managing director.

This facility is supported in part by a Cancer Center Support Grant (CCSG) awarded by the National Cancer Institute (NCI) to The Wistar Institute Cancer Center.

Contact Us

Louise C. Showe, Ph.D.
Scientific Director

Andrew Kossenkov, Ph.D.
Managing Director

Priyankara Wickramasinghe, Ph.D.
Wistar Scientist

Rehman A Qureshi, Ph.D.
Associate Wistar Scientist

Wen-Hwai Horng, M.S., M.S., M.S.
System Developer & Administrator

Internal Advisors

Qin Liu, M.D., Ph.D., Professor
David Speicher, Ph.D., Professor