Integrated Systems Biology
Analytical Methods for Epidemiological Studies of Complex Traits - May 30, 2014
Advances in genomic technology and significant decrease in the associated costs are driving progress in genetic studies for disease gene identification. Studies of whole exome and genome sequences of complex traits in large samples will become increasingly common. Other sources of high-dimensional information, including expression, epigenetic, metabolic and microbiomic data, are also being commonly collected in disease and control samples. To fully understand the complex bases of human disease, all of these factors should be properly considered in a unified analytical framework, together with epidemiological data on environmental exposures and other risk factors. To discuss how to address the analytical challenges presented by these sources of data, the Center for Genetics and Complex Traits of the Perelman School of Medicine at the University of Pennsylvania organized the 2014 Mid-Atlantic Genetic Epidemiology and Statistics (MAGES) conference: Integrated systems biology analytical methods for epidemiological studies of complex traits.
10:00-10:20 Arrival and light breakfast
10:20-10:30 Harold Feldman (CCEB Director, University of Pennsylvania): Welcome and opening remarks
Session 1: Analysis of complex datasets
10:30-11:00 Dana Crawford (Vanderbilt University): Leveraging epidemiologic and clinical collections for genomic studies of complex traits
11:00-11:30 Dan Nicolae (University of Chicago): Methodological challenges in the transition from GWAS to sequencing
11:30-12:00 John Storey (Princeton University): Genetic and epigenomic determinants of environment-specific gene expression differences
Session 2: Statistical models for integrated analytical methods
1:30-2:00 Sandrine Dudoit (University of California, Berkeley): Normalization and Differential Expression in RNA-Seq
2:00-2:30 Jun Zhu (Mount Sinai Medical School): Dynamic causal models for studying complex traits
2:30-3:00 Joel Bader (Johns Hopkins University): Gene-based and pathway-based tests of association
3:00-3:30 Coffee break
Session 3: Future developments in high-dimensional data analysis
3:30-4:00 Hongzhe Li (University of Pennsylvania): Integrative approaches to genomic studies of complex diseases
4:00-4:30 Marylyn Ritchie (Pennsylvania State University): Data fusion in the omic universe
4:30-5:30 Roundtable and Conclusions (Moderator: Andreas Scherer, Golden Helix)
Methods and Applications in the Next Generation Sequencing Age - May 17, 2013
The Center for Genetics and Complex Traits (CGACT) of the University of Pennsylvania hosted a one-day conference on Genetic Epidemiology and Statistics: Methods and Applications in the NGS Age, on May 17, 2013 at the Sheraton Philadelphia University City Hotel near the campus of the University of Pennsylvania in Philadelphia, PA.
The conference intended to bring together an interdisciplinary group of scientists working in the fields of statistical genetics and genetic epidemiology. The forum provided an opportunity for faculty, postdoctoral fellows, and graduate students working in these fields to convene and review new developments in these areas of research. The program featured three sessions with three invited speakers each and allowed for formal as well as informal discussion. The conference aimed to facilitate exchange of ideas and promote interactions and collaborations among participants.
The 2013 MAGES Conference was sponsored by the Center for Clinical Epidemiology and Biostatistics (CCEB) of the University of Pennsylvania.
10:15-10:30 Timothy Rebbeck & Harold Feldman (Penn): Welcome and opening remarks
Session 1: GWAS developments and applications (Moderator: Danish Saleheen, Penn)
10:30-11:00 Tara Matise (Rutgers): The Next PAGE: Examples from the Population Architecture using Genomics and Epidemiology Study
11:00-11:30 Hongyu Zhao (Yale): Incorporating prior information in GWAS: how far can we go?
11:30-12:00 Nilanjan Chatterjee (NCI): Risk prediction based on hidden heritability in genome-wide association studies
Session 2: New methods in statistical genetics (Moderator: Jinbo Chen, Penn)
1:30-2:00 Ingo Ruczinski (Johns Hopkins): Methods for genetic studies with case-parent trios
2:00-2:30 Jaya Satagopan (MSKCC): Evaluation of statistical interactions for binary traits
2:30-3:00 Kathryn Roeder (Carnegie Mellon): Estimating genetically inferred relationships using Treelets
3:00-3:30 Coffee break
Session 3: Analysis of NGS data (Moderator: Mingyao Li, Penn)
3:30-4:00 Iuliana Ionita-Laza (Columbia): Sequence-based association tests and applications
4:00-4:30 Joan Bailey-Wilson (NHGRI): Family-based strategies for analyses of next generation sequence data
4:30-5:00 Adam Naj (Penn): Filter Feeding: Principled exploratory filtering approaches for sequence data to identify variants, genes, and regions for genetic follow-up studies
5:00-5:30 Hongzhe Li (Penn): Conclusions