Dr. Niko Beerenwinkel
Meet the speaker
Cancer progression is an evolutionary process characterized by the accumulation of genetic alterations and responsible for tumor growth, clinical progression, and drug resistance development. We discuss how to reconstruct the evolutionary history of a tumor from single-cell sequencing data. The tumor phylogeny problem is challenging because of sequencing errors and the high rate of allelic drop-out in single-cell DNA sequencing experiments. We present probabilistic models and efficient inference algorithms for mutation calling and learning tumor phylogenies from mutation and copy number data.
Niko Beerenwinkel is full professor of computational biology at the Department of Biosystems Science and Engineering of ETH Zurich in Basel. His research is at the interface of mathematics, statistics, and computer science with biology and medicine. It includes the development of statistical models for high-throughput molecular profiling data, network-based analysis of genome-wide perturbation screens, evolutionary modeling, and clinical applications in oncology and infectious diseases. He has developed a computational pipeline for the molecular tumor board Zurich, including methods for the analysis of single-cell sequencing data, and algorithms and tools for mining viral genomes and improving clinical diagnostics of viruses.
Salim Ghannoum, Faculty of Medicine, UiO, will present his work on "DIscBIO:a user-friendly pipeline for biomarker discovery in single-cell transcriptomics."