2018 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:00 p.m.
- 9:00-9:30
Continental Breakfast - 9:30-9:45
Welcome remarks, David C. Schwartz, Ph.D.Director, Genomic Sciences Training Program (Professor, Depts. of Genetics and Chemistry, UW-Madison) - 9:45-10:30
Keynote Speaker
Title TBA - 10:30-11:15
Poster session - 11:15-11:45
GSTP Faculty Speaker
Title TBA - 11:45-1:00
Lunch - 1:00-1:45
Invited Speaker
Title TBA - 1:45-2:15
GSTP Faculty Speaker
Title TBA - 2:15-2:30
Break - 2:30-3:00
Invited Speaker
Title TBA - 3:00-4:30
Poster session
2015 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:00 p.m.
- 9:30-10:00
Continental breakfast, Room 313 - 10:00-10:15
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 10:15-11:15
Keynote Speaker – Michael C. Jewitt (Chemical and Biological Engineering, Northwestern University)
Engineering Synthetic Ribosomes - 11:15-12:00
Poster session (Refreshments served), Room 309 - 12:00-1:00
Lunch, Pyle Center, Alumni Lounge - 1:00-1:30
Katherine McMahon (Professor, Depts. of Baceriology and Civil and Environmental Engineering, UW-Madison)
Observing Genome-wide Selective Sweeps and Gene-Specific Sweeps in Natural Bacterial Populatins Using Time-Seies Metagonmics - 1:30-2:00
Anthony Gitter, PhD (Department of Biostatistics and Medical Infomatics, UW-Madison; Morgridge Institute for Research)
Deciphering the Cancer Mutational Landsdape with Pathway Analysis - 2:00-2:10
Break (Refreshments served) - 2:10-2:40
Peter Lewis (Department of Biomolecular Chemistry; Wisconsin Institute for Discovery, UW-Madison)
Investigating How Histone H3 Mutations Drive Childhoood Cancers - 2:40-3:40
Poster session, Room 309
2014 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:00 p.m.
- 9:00-9:30
Continental breakfast, Room 313 - 9:35-9:45
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 9:45-10:45
Keynote Speaker – John Stamatoyannopoulis, MD, PhD, Associate Professor Genome Sciences and Medicine, University of Washington School of Medicine
Decoding the Human Genome - 10:45-11:30
Poster session (Refreshments served), Room 309 - 11:30-12:00
Len Jenkin, PhD, Professor of Dramatic Writing, Tisch School of the Arts, New York University
Some Brief Remarks on Science, Magic and Creativity - 12:00-1:00
Lunch, Pyle Center, Alumni Lounge - 1:00-1:50
Christina Kendziorski, PhD, Professor, Department of Biostatistics and Medical Informatics, UW-Madison
Statistical Methods for Genomic Based Studies of Disease - 1:55-2:10
Break (Refreshments served) - 2:10-2:35
Kris Saha, PhD, Assistant Professor, Deparment of Biomedical Engineering, Wisconsin Institute for Discovery, UW-Madison
Towards Integration of Synthetic Biology into Human Stem Cells - 2:35-3:00
Aaron Hoskins, Assistant Professor, Department of Biochemistry, UW-Madison
From a Pig’s Breakfast to Fine Dining: Using Single Molecules to Simplify the Spliceosome - 3:00-4:00
Poster session, Room 309
2013 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:45 p.m.
- 9:30-10:00
Continental breakfast, Room 313 - 10:00-10:10
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 10:10-11:10
Keynote Speaker – Kevin White (James and Karen Frank Family Professor of Human Genetics; Professor of Ecology & Evolution; Director, Institute for Genomics & Systems Biology, U. of Chicago)
Integrating Genomic Networks to Identify Biomarkers and Drug Targets - 11:15-12:00
Poster session (Refreshments served), Room 309 - 12:00-1:00
Lunch, Pyle Center, Alumni Lounge - 1:00-1:30
Emery Bresnick (Professor, Cell & Regenerative Biology, Director, UW-Madison Blood Research Program, UW-Madison)
Genomic Analysis of Normal and Malignant Hematopoiesis - 1:35-2:05
Rupa Sridharan (Assistant Professor, Department of Cell and Regenerative Biology; Epigenetics Theme, Wisconsin Institute of Discovery, UW-Madison)
Mechanism of Somatic Cell Reprogramming - 2:05-2:35
John Pool (Assistant Professor, Laboratory of Genetics, UW-Madison)
Genomic Approaches to Studying Adaptive Evolution and its Genetic Basis - 2:35-3:20
Poster session, Room 309
2012 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:45 p.m.
- 9:00-9:30
Continental breakfast, Room 313 - 9:30-9:40
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 9:40-10:40
Keynote Speaker – David Krakauer, PhD (Director, Wisconsin Institute for Discovery; Academic Program Director, Graduate School, University of Wisconsin-Madison)
The Evolutionary Nature of Biological Information Processing - 10:40-11:40
Poster session (Refreshments served), Room 309 - 11:40-12:10
Chris Hittinger, PhD (Assistant Professor, Laboratory of Genetics, UW-Madison)
The Diversity of Patagonian Saccharomyces and the Origin and Evolution of Lager-brewing Yeast - 12:10-1:15
Lunch, Pyle Center - 1:15-2:15
Rick DeRose, PhD (Lead, Technology Strategy and Integration, Syngenta)
Bringing Plant Potential to Life: beyond one gene, one product, one lab - 2:15-2:45
Sushmita Roy, PhD (Assistant Professor, Department of Biostatistics and Medical Informatics; Wisconsin Institute for Discovery, UW-Madison)
Reconstructing the Evolution of Transcriptional Regulatory Programs in Yeasts - 2:45-4:45
Reception with Wisconsin beverages and treats, Room 309
Poster session, Room 309
Sponsored by Syngenta
2011 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:15 p.m.
- 9:00-9:30
Continental breakfast, Room 313 - 9:30-9:40
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Vilas Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 9:45-10:40 Keynote Speaker – John Wiley, PhD (Director, Wisconsin Institute for Discovery; Professor, Education, University of Wisconsin-Madison), Keynote Presentation
- 10:45-11:30
Poster session (Refreshments served), Room 309 - 11:30-11:55
Michael Coen, PhD (Assistant Professor, Departments of Biostatistics and Medical Informatics; Computer Sciences, UW-Madison)
Spatial Computing - 12:00-1:00
Lunch, Pyle Center - 1:00-1:30
Fotios Asimakopoulos, MD, PhD (Assistant Professor, Departments of Hematology; Oncology, UW School of Medicine and Public Health)
Genomic Approaches to Characterize Multiple Myeloma - 1:35-2:05
Jian Ma, PhD (Assistant Professor, Department of Bioengineering, University of Illinois at Urbana-Champaign)
Comparative Genomics Yields Insights into the Human Genome - 2:10-2:25
Break - 2:25-2:55
Laurence Loewe, PhD (Assistant Professor, Department of Genetics, UW-Madison; Theme member, Systems Biology, Wisconsin Institute for Discovery)
Evolutionary Systems Biology and the Adaptive Landscape - 3:00-4:15
Poster session, Room 309
2010 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:30 p.m.
- 9:00-9:30
Continental breakfast, Room 313 - 9:30-9:40
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Vilas Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 9:45-10:40
Keynote Speaker – Sangtae Kim, PhD (Executive Director, Morgridge Institute for Research)
Discovery to Delivery: the Morgridge Institute for Research - 10:45-11:30
Poster session (Refreshments served), Room 309 - 11:30-11:55
Mark Burkard, MD, PhD (Assistant Professor, Medicine, UW School of Medicine and Public Health)
Exploring the Kinome for Cancer Targets - 12:00-1:00
Lunch, Pyle Center - 1:00-1:30
Paul Ahlquist, PhD (Professor of Molecular Virology and Oncology, UW-Madison and Howard Hughes Medical Institute)
Genome-wide Analyses of Virus Replication and Tumor Progression - 1:35-2:05
Miron Livny, PhD (Professor, Computer Sciences, UW-Madison)
How High Throughput Techniques Can Help Your Computational Tasks - 2:10-2:25
Break - 2:25-2:55
John Denu, PhD (Professor, Biomolecular Chemistry, UW School of Medicine and Public Health; Epigenetics Theme Director, Wisconsin Institute for Discovery)
Writers and Readers of the ‘Histone-Code’ - 3:00-4:15
Poster session, Room 309
2009 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:30 p.m.
- 9:00-9:30
Continental breakfast, Room 313 - 9:30-9:40
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Vilas Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 9:45-10:40
Keynote Speaker – Kevin White, Ph.D. (Professor, Human Genetics; Ecology & Evolution; Director, Institute for Genomics and Systems Biology, Univ. Chicago)
Scaling up Genome Analyses to Drill Down to Function - 10:45-11:30
Poster session (Refreshments served), Room 309 - 11:30-11:55
Pamela Kreeger, Ph.D. (Assistant Professor, Biomedical Engineering, UW-Madison)
Experimental and Computational Analysis of Cancer Signaling Networks - 12:00-1:00
Lunch, Pyle Center - 1:00-1:25
Jignesh Patel, Ph.D. (Associate Professor, Computer Sciences, UW-Madison)
Indexing for Success: Effective and EfficientAnalysis of Biological Data - 1:30-1:55
Douglas Weibel, Ph.D. (Assistant professor, Biochemistry, UW-Madison)
Mechanisms Bacteria Use to Sense Physical Boundaries - 2:00-2:15
Break - 2:15-2:55
Michael Hoffman, Ph.D. (Professor and Chair, Oncology, UW-Madison)
Chemical and RNAi Genomics at UW-Madison: How to Access the Available Infrastructure and an Example of Applying it to TGF-beta Signal Transduction - 3:00-3:25
Vikas Singh, Ph.D. (Assistant Professor, Biostatistics & Medical Informatics, UW-Madison)
Single and Multi-modal Image Analysis for Alzheimer’s Disease Diagnosis Applications - 3:30-4:15
Poster session, Room 309
2008 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:30 p.m.
- 9:00-9:30
Continental breakfast, Room 313 - 9:30-9:35
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 9:35-10:20
Keynote Speaker – Timothy J. Donohue, Ph.D. (Professor, Department of Bacteriology, University of Wisconsin-Madison)
Plugging Plant and Microbial Genomes into the Energy Grid - 10:25-10:40
Thomas F. Pyle, Jr., MBA (Chairman, The Pyle Group) - 10:40-11:35
Poster session (Refreshments served), Room 309 - 11:35-11:55
Jennifer L. Reed, Ph.D. (Assistant Professor, Department of Chemical and Biological Engineering, UW-Madison)
Getting from Genotypes to Phenotypes through Network Reconstruction & Modeling - 12:00-1:00
Lunch, Pyle Center - 1:00-1:20
Jon A. Wolff, Ph.D. (Professor, Departments of Pediatrics, Medical Genetics, UW-Madison)
Dynamic PolyConjugates: A Modular, Synthetic System for in Vivo Delivery of siRNA - 1:25-1:45
David A. Mead, Ph.D. (Lucigen Corp., Middleton WI)
Mining Thermophilic Metagenomes for Polymerases and Cellulases - 1:50-2:10
Karl W. Broman, PhD (Associate Professor, Departments of Biostatistics and Medicial Informatics, and Genetics, UW-Madison)
Mapping Multiple QTL in Experimental Crosses - 2:15-2:30
Break - 2:30-2:50
Mahesh K. Mahanthappa, Ph.D. (Assistant Professor,Department of Chemistry, UW-Madison)
Polydispersity in Self-Assembling Polymeric Systems - 2:55-3:15
Ryan J. Kershner, Ph.D. (Assistant Professor, Department of Mechanical Engineering, UW-Madison)
Top Down Meets Bottom Up: Controlled Placement of DNA Nanostructures - 3:20-4:30
Poster session, Room 309
2007 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:30 p.m.
- 9:00-9:30
Continental breakfast - 9:30-9:40
Welcome remarks – David Schwartz, Ph.D., Director, GSTP (Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison) - 9:45-10:40
Keynote Speaker – T. Conrad Gilliam, Ph.D. (Marjorie I. and Bernard A. Mitchell Professor and Chair, Department of HumanGenetics, University of Chicago)
Genetic-linkage Mapping of Complex Hereditary Disorders to a Whole-genome Molecular-interaction Network - 10:45-11:30
Poster session - 11:30-11:55
Ahna Skop, Ph.D. (Assistant Professor, Laboratory of Genetics, UW-Madison)
Using Proteomics and Comparative Genomics to Understand Cytokinesis - 11:55-1:00
Lunch, Pyle Center - 1:00-1:25
Franco Cerrina, Ph.D. (Professor, Department of Electrical and Computer Engineering, UW-Madison)
Synthesis of Long DNA from Microarray Oligomers - 1:30-1:55
John Markley, Ph.D. (Professor, Department of Biochemistry, UW-Madison), Metabolomics at Madison - 2:00-2:15
Break - 2:15-2:40
George Craciun, Ph.D. ( Assistant Professor, Department of Mathematics, UW-Madison)
Mathematical and Computational Methods for Understanding Dynamical Properties of Biochemical Interaction Networks - 2:45-3:10
Colin Dewey, Ph.D. (Assistant Professor, Departments of Biostatistics and Medical Informatics; Computer Sciences, UW-Madison)
Correlation of Evolutionary Constraint and Biological Function in the Human Genome: A Report from the ENCODE Project - 3:15-3:40
Adel Talaat, Ph.D. (Assistant Professor, Dept. of Pathobiological Sciences, UW-Madison)
A Decade of Genomic Research on Mycobacterium tuberculosis: What Have We Learned So Far? - 3:45-4:30
Poster session
2006 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:30 p.m.
- 9:00-9:30
Continental breakfast, Room 313 - 9:30-9:40
Welcome remarks – David Schwartz, PhD, Director, GSTP (Professor, Departments of Chemistry and Genetics, Biotechnology Center, UW-Madison), Room 313 - 9:40-10:30
Maynard Olson, PhD, Keynote Speaker (Professor of Genome Sciences and of Medicine, University of Washington)
What Is a Wild-type Human? - 10:35-11:25
Poster session I and coffee break, Room 309 - 11:30-11:50
Christina Kendziorski, PhD (Assistant Professor, Department of Biostatistics and Medical Informatics, UW-Madison)
Model Selection to Improve QTL Localization - 12:00
Lunch, The Pyle Center - 1:00-1:40
Bento Soares, PhD (Professor of Pediatrics, Northwestern University Feinberg School of Medicine)
Multi-functional Metastasis Signature in Dedifferentiated Chondrosarcoma - 1:45-2:05
Sean Palecek, PhD (Assistant Professor, Department of Chemical and Biological Engineering, UW-Madison)
Analysis of Bcr-Abl Kinase Activity in Cell Lysates Using Arrays of Proteins Covalently Immobilized in Hydrogels - 2:10-2:25
Break - 2:25-2:45
Aseem Z. Ansari, PhD (Assistant Professor, Department of Biochemistry; Genome Center, UW-Madison)
Defining DNA Binding Profiles of Natural and Artificial Transcription Factors with CSI Arrays - 2:50-3:30
Jonathan Pritchard, PhD (Assistant Professor, Department of Human Genetics, University of Chicago)
Widespread Signals of Very Recent Natural Selection in the Human Genome - 3:30-4:30
Poster session II, Room 309
2005 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 5:00 p.m.
- 9:00-9:30
Continental Breakfast, Room 313 - 9:30-9:45
Welcome remarks – David C. Schwartz, Ph.D. Director, Genomic Sciences Training Program (Professor, Depts. of Genetics and Chemistry, UW-Madison) - 9:45-10:30
Geoff Dyyk, M.D., Ph.D. (TPG Ventures; Chair, External Advisory Board, The Molecular Sciences Inst.)
Translating Translational Research - 10:30-11:15
Poster session - 11:15-11:50
Cameron Currie , Ph.D. (Assistant Professor, Dept. of Bacteriology, UW-Madison)
Symbiosis, Coevolution, and Genomics: Ancient Agriculture in Ants - 11:50-1:00
Lunch - 1:00-1:25
Julie Mitchell., Ph.D. (Assistant Professor, Depts. of Mathematics and Biochemistry, UW-Madison)
Mathematical Approaches to Molecular Biology - 1:25-1:50
Eric Shusta, Ph.D. (Assistant Professor, Dept. of Chemical and Biological Engineering, UW-Madison)
Genomic Comparison of in Vivo and in Vitro Blood-Brain Barrier Models - 1:50-2:10
Audrey Gasch, Ph.D. (Assistant Professor, Dept. of Genetics; Genome Center of Wisconsin, UW-Madison)
Regulation of stress-dependent Genomic Expression Programs in Yeast - 2:10-2:25
Break - 2:25-2:50
Josh Coon, Ph.D. (Assistant Professor, Dept. of Chemistry, UW-Madison)
Protein Sequence Analysis with Mass Spectrometry: New Technology, the Histone Code, and Comparative Analysis of Phosphorylation - 2:50-3:10
Sridhara Dasu (Assistant Professor, Dept. of Physics, UW-Madison)
Computing in High Energy Physics and Its Relevance for Other Sciences - 3:10-4:30
Poster session
2004 Genomic Sciences Program Annual Retreat
The Pyle Center
702 Langdon Street
9:00 a.m. – 4:00 p.m.
- 9:00-9:30
Continental Breakfast - 9:30-9:45
Welcome remarks, David C. Schwartz, Ph.D.Director, Genomic Sciences Training Program (Professor, Depts. of Genetics and Chemistry, UW-Madison) - 9:45-10:30
Roger Brent, Ph.D. President, The Molecular Sciences Institute, Berkeley, CA
The Alpha Project and the Dream of a Predictive Biology - 10:30-11:15
Poster session - 11:15-11:45
Mark Craven, Ph.D. (Assistant Professor, Depts. of Biostatistics and Medical Informatics, Computer Sciences, UW-Madison)
Machine Learning Applied to Uncovering Bacterial Gene Regulation - 11:45-1:00
Lunch - 1:00-1:45
George N. Phillips, Jr., Ph.D. (Professor, Depts. of Biochemistry and Computer Sciences, UW-Madison)
Structural Genomics at UW-Madison and Beyond - 1:45-2:15
Nicole Perna, Ph.D. (Assistant Professor, Dept. of Animal Health and Biomedical Sciences; Genome Center of Wisconsin)
What Can Comparative Genomics Tell Us about Soft-rot, Diarrhea and the Plague? - 2:15-2:30
Break - 2:30-3:00
C. David Page, Jr., Ph.D. (Associate Professor, Departments of Biostatistics and Medical Informatics, and Computer Sciences, UW-Madison)
Using Data Mining to Gain Clues into Multiple Myeloma - 3:00-4:30
Poster session