Seminar - Combining Functional Genomics With Machine Learning In Biomedicine
Date: December 2, 2005
Time: 4:00 PM
Location: Matheson Hall, Room: 208
Louise Showe, Ph.D.
Associate Professor and Scientific Director of the Genomics Core at the Wistar Institute and Wistar Associate Professor of Dermatology at the University of Pennsylvania
Our laboratory is a fusion of biologists and computational scientists applying Genomics approaches to understanding disease processes with an emphasis on Cancer genomics. The common thread running through all the projects is the use of high-dimensional analyses to understand the underlying biology. Our research includes both exploration of specific diseases, and development of new computational techniques to use as tools which may be appropriate to each biological project. Currently we use mainly expression microarrays, which we fabricate ourselves as a source of data.
The projects range from the identification of small numbers of genes that can be used to develop diagnostic platforms for early detection, prognosis and response and resistance to therapies. In pursuing these goals we have focused on gene expression arrays as an initial step. We have primarily used machine learning algorithms including Discriminant Analysis and Support Vector Machines to carry out these studies. Laboratory projects that will be discussed include:
1. Development of diagnostic and prognostic markers for cutaneous T-cell lymphoma, a rare but deadly cancer if not diagnosed early.
2. Combining large datasets from multiple institutions to develop more accurate diagnostics for squamous cell carcinomas of the head and neck (HNSCC) and lung LSCC.
3. Combining multi-species genomic data for miRNA discovery using Bayesian analysis.
4. Development of early diagnostics for populations at risk for the development of adenocarcinoma of the lung.
Dr. Louise Showe received a Ph.D. in Biology from the University of Pennsylvania and did her post-doctoral studies at the Biozentrum der Universitat, Basel, Switzerland. She is presently an Associate Professor and Scientific Director of the Genomics core at the Wistar Institute in Philadelphia and Wistar Associate Professor of Dermatology at the University of Pennsylvania. Her present research interests have focused on using functional Genomics approaches to understanding disease processes with an emphasis on Cancer.
Dr. Showe was awarded one of the first 10 NCI Directors Challenge grants to develop new molecular criteria for the classification of cancers. She is a member of the Executive Committee for the Greater Philadelphia Bioinformatics Alliance, the Pennsylvania Cancer Alliance Bioinformatics Consortium and Research Committee co-chair for the Pennsylvania Cancer Control Consortium.
Matheson Hall is located at 32nd and Market Streets.