2018 Genomic Sciences Program Annual Retreat

Friday, June 8, 2018
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

Friday, May 29th, 2015
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

Friday, May 30th, 2014
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

Friday, June 14th, 2013
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

Friday, June 8th, 2012
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

Friday, June 3rd, 2011
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

Friday, June 11th, 2010
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

Monday, June 8th, 2009
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

Monday, June 9th, 2008
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

Friday, June 8th, 2007
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

Monday, May 22nd, 2006
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

Wed., June 15th, 2005
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

Monday, June 21, 2004
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