Bernhard Palsson

Bernhard Palsson
Systems Biology Research Group
University of California
San Diego

Website: http://systemsbiology.ucsd.edu/

Progress with knowledge enriched data analytics

The need to integrate knowledge-types into big data analytics, generally referred to as explanatory-AI, is growing.  This talk will describe progress with three approaches to such knowledge enrichment: 1) the use of ICA to define independently modulated sets of genes in bacterial transcriptomes, 2) the use of pangenome analysis for the thousands of bacterial genome sequences being generated, and 3) the use of machine learning methods for the analysis of antimicrobial resistance.  The first case illustrates the principle of ‘getting answers to questions not asked,’ the second case illuminates ‘what is learned with scale,’ and the third case shows how mechanisms are built into GWAS using FBA. 

Short bio

Bernhard Palsson is the Distinguished Galletti Professor of Bioengineering, the Principal Investigator of the Systems Biology Research Group in the Department of Bioengineering, and Professor of Pediatrics at the University of California, San Diego. He is also the CEO of the Novo Nordisk Center for Biosustainability in Denmark, working in this capacity since 2011. Dr. Palsson has co-authored more than 530 peer reviewed research articles and has authored four textbooks. His research includes the development of methods to analyze metabolic dynamics (flux-balance analysis, and modal analysis), and the formulation of complete models of selected cells (the red blood cell, E. coli, CHO cells, and several human pathogens). He sits on the editorial broad of several leading peer-reviewed microbiology, bioengineering, and biotechnology journals. He previously held a faculty position at the University of Michigan for 11 years and was named the G.G. Brown Associate Professor at Michigan in 1989, a Fulbright fellow in 1995, and an Ib Henriksen Fellow in 1996. He is the author of over 40 U.S. patents, the co-founder of several biotechnology companies, and holds several major biotechnology awards. He received his PhD in Chemical Engineering from the University of Wisconsin, Madison. Dr. Palsson is a member of the National Academy of Engineering and is a Fellow of the AIMBE, AAAS, and the AAM.