AACR Integrative Molecular Epidemiology Workshop July 10-14, 2017 (*arrival July 9) Westin Copley Place Hotel Boston, Massachusetts Director: Co-Directors: Faculty: 1. Jiyoung Ahn, New York University School of Medicine, New York, New York 2. 3. 4. 5. Maria Teresa Landi, National Cancer Institute, Bethesda, Maryland 6. 7. Bogdan Pasaniuc, University of California, Los Angeles, California 8. Timothy R. Rebbeck, Dana-Farber Cancer Institute, Boston, Massachusetts 9. 10. Shelley S. Tworoger, Moffitt Cancer Center and Research Institute, Tampa, Florida Lecturers: 1. Andrew H. Beck, PathAI, Cambridge, Massachusetts 2. Judy E. Garber, Dana-Farber Cancer Institute, Boston, Massachusetts 3. Eliezer M. Van Allen, Dana-Farber Cancer Institute, Boston, Massachusetts 4. Brian M. Wolpin, Dana-Farber Cancer Institute, Boston, Massachusetts Junior Faculty: 1. DAY 0 SUNDAY, JULY 9: ARRIVALS Faculty and Attendees arrive throughout the day DAY 1 MONDAY, JULY 10: INTRODUCTION, FUNDAMENTALS, AND GERMLINE VARIATION 7:00 AM AACR Registration Desk Open 9:00 AM Welcome, Introductions, and Course Overview
10:00 AM Overview and Dimensions 10:30 AM Break 10:45 AM Biomarkers Shelley S. Tworoger, Moffitt Cancer Center and Research Institute, Tampa, Florida 12:15 PM Lunch with Networking Roundtables 1:15 PM Evaluating and Validating Biomarker Assays Shelley S. Tworoger, Moffitt Cancer Center and Research Institute, Tampa, Florida 2:15 PM What Is Known about the Genetic Epidemiology of Cancer (and What Is Not) and Genome-Wide Association Studies and Imputation-Based Association Mapping 3:15 PM Break 3:30 PM Exome and Targeted Next-Generation Sequencing 4:15 PM Discussion of Ioannidis and Rothman Articles 5:15 PM Exome and Targeted Next-Generation Sequencing: Designing your population sciences gene-mapping study on a budget! 6:00 PM Opening Reception and Group Buffet Dinner 7:30 PM End of Day DAY 2 TUESDAY, JULY 11: INTEGRATION OF DATA ON GERMLINE VARIATION (PART 2)/INTEGRATION OF DATA ON BIOLOGICAL FUNCTION (PART 1) 9:00 AM Publicly Available Online Genomics and Omics Resources (Part 1)
10:30 AM Break 10:45 AM Publicly Available Online Genomics and Omics Resources (Part 2) 12:15 PM Group Photo Followed by Lunch with Networking Roundtables 1:15 PM Integrative Data Analysis Methods Bogdan Pasaniuc, University of California, Los Angeles, California 2:15 PM Microbiome Jiyoung Ahn, New York University School of Medicine, New York, New York 3:30 PM Break 4:00 PM Mendelian Randomization 5:00 PM Applied Research Seminar - Multilevel Approaches to Address Cancer Disparities: From Nucleotide to Neighborhood Timothy R. Rebbeck, Dana-Farber Cancer Institute, Boston, Massachusetts 6:00 PM Group Buffet Dinner with Discussion on Survival Skills and Ethics Facilitator: Timothy R. Rebbeck, Dana-Farber Cancer Institute, Boston, Massachusetts 8:00 PM End of Day DAY 3 WEDNESDAY, JULY 12: INTEGRATION OF DATA ON BIOLOGICAL FUNCTION (PART 2) 9:00 AM Establishing the Functional Chain of Causation 9:45 AM Research Vignettes: Identifying Allele-Specific Binding Proteins for Potential Gene- Regulatory Variants from GWAS 10:15 AM Break 10:30 AM Overview of Epigenetics and Practical Issues in Transcriptomics
11:30 AM ENCODE and the Epigenome Roadmap in a Nutshell 12:00 PM Lunch with Networking Roundtables 1:00 PM eqtl and mqtl Bogdan Pasaniuc, University of California, Los Angeles, California 2:00 PM Overview of Functional Genomic Characterization of GWAS Loci 3:00 PM Bioinformatics Toolkit for Functional Analysis 3:30 PM Break 3:45 PM Functional Analysis Lab 6:00 PM End of Sessions 6:30 PM Group Dinner and Social Event DAY 4 THURSDAY, JULY 13: BIOMARKERS AND TUMOR PROFILING 7:45 AM Continental Breakfast 8:45 AM Overview of Tumor Profiling, Tools, and Their Limitations 10:15 AM Applied Research Seminar Next-Generation Computational Pathology Andrew H. Beck, PathAI, Cambridge, Massachusetts 11:30 AM Lunch with Networking Roundtables 12:30 PM Practical Study Design
2:30 PM Offsite Laboratory Visits Tour A: DF/HCC Tissue Microarray and Imaging Core Sabina Signoretti/ Scott J. Rodig/Teri Bowman/Ashley Pelton Tour B: BWH/Harvard Cohorts Biorepository Shelley S.Tworoger/Sherilyn Sawyer Tour C: Broad Institute Metabolomics Platform Clary B. Clish Tour D: DFCI Center for Functional Cancer Epigenetics Myles Brown/Shirley Liu/Henry Long Tour E: Laboratory for Molecular Medicine Clinical Genetics Heidi L. Rehm 6:00 PM Back from Lab Visits/Evening Off DAY 5 FRIDAY, JULY 14: PUTTING IT ALL TOGETHER 9:00 AM Precision Medicine: Predictive Modeling from High-Throughput Results: Available Tools and Issues to Consider 10:00 AM Precision Medicine: From Technology to Decision: What Does It Take? Judy E. Garber, Dana-Farber Cancer Institute, Boston, Massachusetts Eliezer M. Van Allen, Dana-Farber Cancer Institute, Boston, Massachusetts 11:00 AM Break 11:30 AM Genome-Wide Association Study and Risk-Prediction Models for Melanoma Maria Teresa Landi, National Cancer Institute, Bethesda, Maryland 12:30 PM Lunch with Networking Roundtables 1:30 PM Applied Research Seminar Metabolomics and Cancer Brian M. Wolpin, Dana-Farber Cancer Institute, Boston, Massachusetts 2:30 PM Applied Research Seminar Integrative Analyses of Exposures, Genetic Susceptibility, and Somatic Changes in Lung Cancer Maria Teresa Landi, National Cancer Institute, Bethesda, Maryland 3:30 PM Closing Summary and Observations 3:35 PM Post-test 4:05 PM End of Workshop