Omer Weissbrod

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MOTIVATION The use of dense single nucleotide polymorphism (SNP) data in genetic linkage analysis of large pedigrees is impeded by significant technical, methodological and computational challenges. Here we describe Superlink-Online SNP, a new powerful online system that streamlines the linkage analysis of SNP data. It features a fully integrated flexible(More)
We examine improvements to the linear mixed model (LMM) that better correct for population structure and family relatedness in genome-wide association studies (GWAS). LMMs rely on the estimation of a genetic similarity matrix (GSM), which encodes the pairwise similarity between every two individuals in a cohort. These similarities are estimated from single(More)
Linear mixed models (LMMs) have emerged as the method of choice for confounded genome-wide association studies. However, the performance of LMMs in nonrandomly ascertained case-control studies deteriorates with increasing sample size. We propose a framework called LEAP (liability estimator as a phenotype; https://github.com/omerwe/LEAP) that tests for(More)
Germline mosaicism is a genetic condition in which some germ cells of an individual contain a mutation. This condition violates the assumptions underlying classic genetic analysis and may lead to failure of such analysis. In this work we extend the statistical model used for genetic linkage analysis in order to incorporate germline mosaicism. We develop a(More)
Mycobacterium tuberculosis (M. tuberculosis) is considered innately resistant to β-lactam antibiotics. However, there is evidence that susceptibility to β-lactam antibiotics in combination with β-lactamase inhibitors is variable among clinical isolates, and these may present therapeutic options for drug-resistant cases. Here we report our investigation of(More)
The goal of hierarchical clustering is to construct a cluster tree, which can be viewed as the modal structure of a density. For this purpose, we use a convex optimization program that can efficiently estimate a family of hierarchical dense sets in high-dimensional distributions. We further extend existing graph-based methods to approximate the cluster tree(More)
Learning the association between observed variables and future trajectories of continuous-time stochastic processes is a fundamental task in dynamic modeling. Often the dynamics are non-homogeneous and involve a large number of interacting components. We introduce a conditional probabilistic model that captures such dynamics, while maintaining scalability(More)
Cervical cancer is one of the highest occurring cancers for women in East Africa. Many studies have shown that disease occurrences and particularly the number of deaths due to the disease can be reduced significantly by screening and vaccination. East Africa and Kenya in particular are undergoing change and taking actions to reduce disease levels. However,(More)
Motivation: The use of dense single nucleotide polymorphism (SNP) data in genetic linkage analysis of large pedigrees is impeded by significant technical, methodological and computational challenges. Here we describe Superlink-Online SNP, a new powerful online system which streamlines the linkage analysis of SNP data. It features a fully integrated flexible(More)
Mere gratitude is not enough to express my appreciation for my supervisor, Prof. Dan Geiger, whom has also been a mentor and a friend. Thanks to his constant guidance and profound insight, I can safely say that no student can hope for a more rapid and rewarding entrance into the world of academy. I would also like to thank my friends in the Technion for(More)
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