Dr Okada-Hatakeyama will be available for one-to-one meetings after her seminar on the 18th May and also on the 19th May in the morning. If you are interested in meeting with the speaker, please contact Dr Reiko Tanaka at r.tanaka@imperial.ac.uk
Abstract
Cells respond to external stimuli and eventually make the decision for survival, growth and differentiation. In this process, outcomes of the activities of signal transduction pathways and transcription factors often show dynamically rich, nonlinear behaviors. To understand the relationship between those molecular dynamics and downstream target gene expression for cell commitment, we analyze the Omics data using kinetic models. Our analysis indicates that the high-order molecular complex formation, suggesting positive cooperativity, in signaling pathway and epigenetic regulation may function for all-or-none activation of gene expression machinery, and this mechanism acts as threshold setting for cell decision. I will introduce our modeling approach for NF-kB signaling pathway, integrated analysis of single cell transcriptome and ATAC-seq, ChIP-seq (super-enhancer analysis) and live cell imaging analysis of fluorescent labeled NF-kB and the target mRNA in immune B cells.
References
Inoue et al. (2016) npj Syst. Biol. Appl. 2, 16024.
Shinohara et al. (2014) Science. 344(6185):760-764.
Nakakuki et al. (2010) Cell. 141(5):884-896.
Biography
Mariko Okada (Hatakeyama) is team leader of the RIKEN Center for Integrative Medical Sciences (IMS), Japan. She received her Ph.D. from Tokyo University of Agriculture and Technology. After her graduation, she joined a Japanese subsidiary of Novo Nordisk, DK, and spent eight years for discovery and identification of novel microorganism, microbial enzymes and antimicrobial compounds isolated from Japanese eco-systems and proceed with them for industrial applications. Then she moved her research topics to cell biology and signal transduction studies when she became a visiting scientist at University of California, Davis in 1996. When she joined the RIKEN Genome Sciences Center in 2000, she started her project on quantitative analysis of signal transduction network, now it is recognized as one of major research fields of systems biology, to understand cell fate decision process on the basis of molecular kinetics. Her expertise is integration of signaling and transcriptional networks using Omics and modeling approaches. She is particularly interested in multi-scale cooperativity arising from biological networks. Her research interests include signal-transcription network of cancer, inflammation and immune signaling, Omics data integration, integration of modeling and personal genome. For details, please go to the laboratory website http://csb.rcai.riken.jp/