Statistics and Genomics Seminar

Recent & Upcoming Statistics and Genomics Seminars

Dissecting Gene Regulation with Machine Learning: Discoveries and Challenges
Professor Katie Pollard, Department of Epidemiology and Biostatistics, UC San Francisco, Gladstone Institute, and Chan-Zuckerberg Biohub (Speaker)
Jan 31, 2019 4:00pm
1011 Evans Hall
Abstract:
Machine learning is a popular statistical approach in many fields, including genomics. We and others have used a variety of supervised machine-learning techniques to predict genes, regulatory elements, 3D interactions between regulatory elements and their target genes, and the effects of mutations on regulatory element function. I will highlight a few of these studies, emphasizing the strengths...
Inverse RNA folding and Computational Riboswitch Detection
Professor Danny Barash, Department of Computer Science, Ben-Gurion University (Speaker)
Feb 7, 2019 4:00pm
1011 Evans Hall
Abstract:
The inverse RNA folding problem for designing sequences that fold into a given RNA secondary structure was introduced in the early 1990's in Vienna. Using a coarse-grain tree graph representation of the RNA secondary structure, we extended the inverse RNA folding problem to include constraints such as thermodynamic stability and mutational robustness, developing a program called RNAexinv. In the...
Integrated Analysis of Cancer Data: Multi-omic Clustering and Personalized Ranking of Driver Genes
Professor Ron Shamir, The Blavatnik School of Computer Science, Tel Aviv University (Speaker)
Feb 14, 2019 4:00pm
125 Li Ka Shing Center
Abstract:
Large biological datasets are currently available, and their analysis has applications to basic science and medicine. While inquiry of each dataset separately often provides insights, integrative analysis may reveal more holistic, systems-level findings. We demonstrate the power of integrated analysis in cancer on two levels: (1) in analysis of one omic in many cancer types together, and (2) in...
Multiple Forces Shape Microbial Community Structure in the Phyllosphere
Norma Morella, Department of Plant and Microbial Biology, UC Berkeley
Feb 28, 2019 4:00pm
1011 Evans Hall
Abstract:
As our knowledge of host-associated microbial communities (microbiomes) continues to deepen, there remain key unresolved questions across multiple systems. Among these is an understanding of the forces underlying the assembly of, selection within, and co-evolution among microbiota, all of which depend in part on microbiome transmission mode. My PhD thesis research has focused on characterizing...
Close-Kin Genetic Methods to Infer Demography and Dispersal Patterns of Mosquitoes
Professor John Marshall, Division of Epidemiology and Biostatistics, UC Berkeley
Mar 7, 2019 4:00pm
1011 Evans Hall
Abstract:
Malaria, dengue, Zika and other mosquito-borne diseases continue to pose a major global health burden through much of the world, despite the widespread distribution of insecticide-based tools and antimalarial drugs. Consequently, there is interest in novel strategies to control these diseases, including the release of mosquitoes transfected with Wolbachia and engineered with CRISPR-based gene...
Statistical and Computational Challenges in Conformational Biology
Professor Mark Segal, Department of Epidemiology and Biostatistics, UC San Francisco
Apr 4, 2019 4:00pm
1011 Evans Hall
Abstract:
Chromatin architecture is critical to numerous cellular processes including gene regulation, while conformational disruption can be oncogenic. Accordingly, discerning chromatin configuration is of basic importance, however, this task is complicated by a number of factors including scale, compaction, dynamics, and inter-cellular variation. The recent emergence of a suite of proximity...
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