
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, single cell RNA-see, smRNA-seq, Nanostring)
- Gene regulation (ChIP-seq, Cut & Run, ATAC-seq, epigenetic profiling, Hi-ChIP, HiC)
- Genome and transcriptome sequencing (alternate splicing, RNA editing, gene fusion, SNP and INDEL mutation detection, CNV)
- Biomarkers (discovering markers in mRNA ,miRNA and protein expression data)
- Proteomic analyses (mass spectrometry-based spectra, LCMS, DIGE, RPPA, etc.)
- Pathway and network analysis
- Integration of multi-platform data
- Other customized data analysis projects
Services
- High-throughput data analysis:
- Next generation sequencing data analysis
- Single cell RNA-seq
- Hybridization platforms (Nanostring, microarrays)
- Low-density PCR arrays (mi-RNA, pathways, custom)
- Proteomics and metabolomics 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 Ellen and Ronald Caplan Cancer Center.
Contact Us
The Wistar Institute |
Facility Hours: |
Andrew Kossenkov, Ph.D.
Scientific Director
Priyankara Wickramasinghe, Ph.D.
Wistar Scientist
Toshitha Kannan, M.S.
Bioinformatics Technician
Internal Advisors
Qin Liu, M.D., Ph.D., Professor
David Speicher, Ph.D., Professor