Introduction to High-Throughput Biology
CfIB Staff
Drexel University

New large scale biological tools have challenged biologists to take a global view of the gene and protein networks underlying cell communication. This course will focus on the fundamentals of molecular cell biology and will present a bioinformatics approach to investigating functions of genes and proteins and their regulation.

Introduction to Biostatistics
Michael Ochs, Ph.D.
Johns Hopkins University

This course will introduce biostatistics measures used in the analysis of high-throughput biological data. Topics include the central limit theorem, parametric tests, non-parametric tests, and the multiple testing problem.

Microarrays and Differential Gene Expression
Donald Baldwin, Ph.D.
Penn Microarray Facility, University of Pennsylvania

This course will present the fundamentals of microarray experiments for high throughput measurement of RNA abundance profiles, focusing on the labwork and data analysis required to determine the probability that the genes represented on a microarray show differential expression between two or more conditions. Wet laboratory sessions for this course will be conducted at the Penn Microarray Facility Wednesday July 11th 1-5PM.         

Proteomics
Andrew Quong, Ph.D.
Kimmel Cancer Center, Thomas Jefferson University

Proteomics is the systematic analysis of proteins in cellular machines, entire cells, tissues or entire organisms. Proteomics provides an exciting new way to pursue biological and biomedical science in taking a comprehensive, systematic approach to understanding biology. The course will focus on the computational challenges associated with analysis and interpretation of diverse types of proteomic data including the mass spectrometry data.

Bioinformatics Databases and Biomolecular Networks
Greg Gonye, Ph.D.
Thomas Jefferson University

This course will focus on computational data resources and approaches which allow expanding from single gene analyses to system-level analyses, including Gene Ontology and KEGG cellular pathway diagrams. Software tools to predict regulatory, functional and/or “knowledge” network interactions will be introduced.

Gene Expression Profiling I
Michael Ochs, Ph.D.
Johns Hopkins University

Microarray preprocessing and clustering. Participants will be exposed to hands-on data analysis using TMEV open source tool from The Institute for Genomics Research (TIGR).

Gene Expression Profiling II
Michael Ochs, Ph.D.
Johns Hopkins University

Advanced analysis methods will be covered: Significance Analysis of Microarrays, Gene set Enrichment Analysis, Cancer Outlier Profile Analysis, and pattern recognition methods.

caBIG™ Databases
J. Robert Beck, M.D.
Fox Chase Cancer Center

The National Cancer Institute’s Center for Bioinformatics has taken the lead to develop a comprehensive cancer database project to facilitate and expedite cancer research by integrating many imaging and genetic databases into a unified web based service made available for use by researchers. This project is entitled the cancer Biomedical Informatics Grid™, or caBIG™. This course will present an overview of the caBIG™ project and its practical uses.

Computational Modeling of Molecular Interaction Networks
CfIB Staff
Drexel University

This course will focus on the modeling of molecular signaling pathways within the cell. Topics covered include ordinary differential equations and numerical solution methods as applied to cellular processes such as cell cycle and the MAPK signaling pathway. Concepts adapted from network theory, such as centrality and network motifs, will also be introduced.

Pharmacogenomics
CfIB Staff
Drexel University

Pharmacogenomics is an emerging discipline focusing on the use of genome information for informed decision making along the pharmaceutical pipeline. This course reviews the bioinformatics and high-throughput methods for identification of targets, candidate drugs and their potential adverse effects. There will be a keynote seminar Tuesday at 4PM by Dr. Michael Christman, President and CEO of Coriell Institute for Medical Research, on the “Delaware Valley Personalized Project”.