Volume 80
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Introduction of Hallatschek group and daily activities: Berkeley Report from Dr. T. Okada
2019-11-25
Hi, everyone! In this short article, I will write self-introductiton, also about the laboratory I am belonging to at UC Berkeley and also write my daily activities there.
My research interest is theoretical biology, including biochemical reactions, biological networks, evolutionary dynamics etc.
I am currently working at Hallatschek laboratory as a long-term visitor, and mainly researching on theoretical aspects of evolutionary dynamics there. As a theorist, one of ultimate goals is to predict outcomes of evolution. Since evolutionary processes are very complicated even under well-controlled conditions, this project is very difficult, but, at the same time, very attracting theoretically.
Hallatschek lab studies evolutionary biology both experimentally and theoretically. There are approximately 10 members (students and postdocs) in total, and a half of us do evolutionary experiments using microorganisms, such as yeast and E. coli, and a half of us (including me) study theoretical stuff. For now, I have three meetings in the group every week. The attached photo is one of the weekly meeting which I am doing with Jonas (postdoc, left) and Stephan (graduate student, right). I am very satisfied with the scientific atmosphere here, and I really appreciate the support by iTHEMS. Also, I think that in evolutionary biology, there are many topics that are interesting for many mathematicians and physicist, and I am looking forward to interacting iTHEMS members when I come back to Japan.
Upcoming Events
Seminar
iTHEMS Math Seminar
Noncommutative crepant resolutions and some higher dimensional flops
December 4 (Wed) at 16:00 - 18:10, 2019
Wahei Hara (JSPS Research Fellow, School of Science and Engineering, Waseda University)
Plan of the seminar: we separate each talk into two. In the first 60 minutes the speaker gives an introductory talk for non-mathematicians. After a short break, the second 60 minutes is spent for a bit more detailed talk for mathematicians (working in other areas). We welcome you joining both parts of the seminar or only the first/second half.
Abstract: We will talk about the theory noncommutative resolution of singularities. Noncommutative resolution is a noncommutative analog of usual (geometric) resolution of singularities, and allows us to generalise the idea of McKay correspondence to a large class of singularities.
In the first part of the talk, we discuss the classical McKay correspondence, the definition of noncommutative crepant resolution, and some known results in lower dimensions. In the second half, we will discuss some concrete examples of noncommutative crepant resolutions in higher dimensions.
Venue: Seminar Room #160, 1F Main Research Building, RIKEN
Event Official Language: English
Workshop
Supported by iTHEMS
Young Researcher Association for Biological Rhythms 2019
December 7 (Sat) - 8 (Sun), 2019
Lecturers:
Hiroshi Ito (Kyushu University)
Shigehiro Ohdo (Kyushu University)
Hiroyuki Kubota (Kyushu University)
Gen Kurosawa (RIKEN)
Shin G. Goto (Osaka City University)
Fustin Jean-Michel (Kyoto University)
Organizers:
Minako Isoda (Kyoto University)
Kyohei Uemoto (Kyoto University / Nara Institute of Science and Technology)
Shingo Gibo (RIKEN)
Motohide Seki (Kyushu University)
Yusuke Nakane (Nagoya University)
Arisa Hirano (University of Tsukuba)
This workshop is supported by RIKEN iTHEMS (RIKEN Interdisciplinary Theoretical and Mathematical Sciences Program).
Venue: School of Agriculture, Ito Campus, Kyushu Univiesiry
Event Official Language: Japanese
Seminar
iTHEMS Math Seminar
Multiple Zeta Values: Interrelation of Series and Integrals
December 17 (Tue) at 16:00 - 18:10, 2019
Syuji Yamamoto (Associate Professor, Keio University)
Plan of the seminar: we separate each talk into two. In the first 60 minutes the speaker gives an introductory talk for non-mathematicians. After a short break, the second 60 minutes is spent for a bit more detailed talk for mathematicians (working in other areas). We welcome you joining both parts of the seminar or only the first/second half.
Abstract: This is an introduction to multiple zeta values (MZVs). Although the study of MZVs is related to various areas of mathematics, we will concentrate on the algebraic structures of MZVs themselves. The key point is that MZVs have two kinds of representations: nested series and iterated integrals. We present how these two representations yield rich algebraic relations among MZVs.
Venue: Seminar Room #160, 1F Main Research Building, RIKEN
Event Official Language: English
Conference
2019 RIKEN Symposium: Understand to Predict the properties of Things and Matters through Computational Calculations ~ Data Science, Natural Intelligence and Category Theory~
December 23 (Mon) at 9:50 - 18:10, 2019
This workshop is supported by RIKEN iTHEMS (RIKEN Interdisciplinary Theoretical and Mathematical Sciences Program).
Venue: Okochi Hall, 1F Laser Science Laboratory, RIKEN
Event Official Language: Japanese
Workshop
RIKEN-Kyushu workshop on particle, nuclear and astrophysics
December 23 (Mon) - 24 (Tue), 2019
Organizers
Emiko Hiyama (Kyushu U./RIKEN)
Hiroshi Suzuki (Kyushu U.)
Tetsuo Hatsuda (RIKEN)
Venue: Faculty of Science, Ito Campus, Kyushu University
Event Official Language: Japanese
Colloquium
iTHEMS Colloquium
Exploring the learning principle in the brain
January 16 (Thu) at 15:30 - 17:00, 2020
Taro Toyoizumi (Team Leader, RIKEN Center for Brain Science (CBS))
Animals adapt to the environment for survival. Synaptic plasticity is considered a major mechanism underlying this process. However, the best-known form of synaptic plasticity, i.e., Hebbian plasticity that depends on pre- and post-synaptic activity, can surge coincident activity in model neurons beyond a physiological range. Our lab has explored how neural circuits learn about the environment by synaptic plasticity. The instability of Hebbian plasticity could be mitigated by a global factor that modulates its outcome. For example, TNF-alpha that mediates homeostatic synaptic scaling is released by glia, reflecting the activity level of surrounding neurons. I show that a specific interaction of Hebbian plasticity with this global factor accounts for the time course of adaptation to the altered environment (Toyoizumi et al. 2015). At a more theoretical level, I ask what is the optimal synaptic plasticity rule for achieving an efficient representation of the environment. A solution is the error-gated Hebbian rule, whose update is proportional to the product of Hebbian change and a specific global factor. I show that this rule, suitable also in neuromorphic devices, robustly extracts hidden independent sources in the environment (Isomura and Toyoizumi 2016, 2018, 2019). Finally, I introduce that synapses change by intrinsic spine dynamics, even in the absence of synaptic plasticity. I show that physiological spine-volume distribution and stable cell assemblies are both achieved when intrinsic spine dynamics are augmented in a model (Humble et al.2019).
Venue: Large Meeting Room, 2F Welfare and Conference Building (Cafeteria), RIKEN
Broadcast: R311, Computational Science Research Building, R-CCS, Kobe Campus, RIKEN / SUURI-COOL (Kyoto), #204-205, 2F Maskawa Building for Education and Research, North Campus, Kyoto University / SUURI-COOL (Sendai), #303, 3F AIMR Main Building, Advanced Institute for Materials Research (AIMR), Tohoku University
Event Official Language: English
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