Biology Seminar

Seminar

Biology Seminar

Bayesian nonparametric estimation of Random Dynamical Systems

October 21 at 14:00 - 15:00, 2020

Dr. Christos Merkatas (Postdoctoral Researcher, Aalto University, Finland)

In this talk, a Bayesian nonparametric framework for the estimation and prediction, from observed time series data, of discretized random dynamical systems is presented [1]. The size of the observed t...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

A PDE model for the localization and spread of flu in the human respiratory tract

October 14 at 10:00 - 11:00, 2020

Mr. Christian Quirouette (PhD student, Department of Medical Physics, Ryerson University, Canada)

Within the human respiratory tract (HRT), virus diffuses through the periciliary fluid (PCF) bathing the epithelium. But it also undergoes advection: as the mucus layer sitting atop the PCF is pushed ...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Phase Transitions in Biological Systems

September 23 at 10:00 - 11:00, 2020

Dr. Kyosuke Adachi (Special Postdoctoral Researcher, iTHEMS)

Biological systems are built hierarchically by DNA, proteins, cells, tissues, organs, individuals, etc. Recent experiments have clarified the existence of interesting mesoscale phenomena inside cells,...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Eco-evolutionary dynamics with novel mutations

September 16 at 10:00 - 11:00, 2020

Dr. Hye Jin Park (Junior Research Group Leader, Statistical physics of ecology and evolution group, Asia Pacific Center for Theoretical Physics, Korea (the Democratic People's Republic of))

Evolution is driven by individual birth and death that are determined by interactions between individuals. Hence studying interactions is crucial to understand the population evolution. However, tradi...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Singular point implies coexistence in adaptive dynamics

September 9 at 10:00 - 11:00, 2020

Dr. Masashi Tachikawa (Visiting Scientist (Academia), iTHEMS)

Adaptive dynamics is a relatively new mathematical framework for studying evolution(~1990s). Under the influence of the mathematical ecology and the game theory, adaptive dynamics considers the effect...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

The hitch-hiker’s guide to 
the concept of 
adaptive dynamics

September 2 at 10:00 - 10:30, 2020

Dr. Ryosuke Iritani (Research Scientist, iTHEMS)

Adaptation is of multi-causality, composed of mutation and selection processes. I will talk about how we model adaptation on the basis of the adaptive dynamics framework. This is a very quick, concept...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Modeling biological timing

August 26 at 10:00 - 11:00, 2020

Dr. Gen Kurosawa (Senior Research Scientist, iTHEMS)

Under stay-at-home situation, some of you may suffer from sleep disorder. Efficacy of a drug often depends on the timing of its prescription. We know this fact about our "timing", but we don't know wh...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Heavy tails in the brain

August 5 at 10:00 - 11:00, 2020

Dr. Lukasz Kusmierz (research scientist, RIKEN Center for Brain Science)

In my talk I will discuss the relation between two seemingly unrelated measures in the brain that exhibit heavy tails: neuronal avalanches, i.e. bursts of activity with power-law distributions of size...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Time-dependent bias emerges in population models with broad offspring number distributions

July 29 at 10:00 - 11:00, 2020

Dr. Takashi Okada (Senior Research Scientist, iTHEMS)

It has been increasingly recognized that natural populations exhibit broad offspring number distributions, either because offspring numbers are strongly variable (e.g. marine organisms) or because ran...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Human Time vs. Mouse Time in Embryonic Development

July 17 at 16:00 - 17:00, 2020

Dr. Miki Ebisuya (Group Leader, European Molecular Biology Laboratory, Barcelona, Spain)

Different species have different tempos of development: larger animals tend to grow more slowly than smaller animals. My group has been trying to understand the molecular basis of this interspecies di...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Application of geometry to protein structure analysis

July 15 at 14:00 - 15:00, 2020

Ms. Haru Negami-Oono (PhD Student, Institute for Biology and Mathematics of Dynamic Cellular Processes, The University of Tokyo)

Geometry is applied in various fields as a method for revealing the structure of data. In this seminar, I will introduce the topological method, fatgraph model, to classify protein structures. I will ...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Constrained evolution of animal embryogenesis

July 8 at 10:00 - 11:00, 2020

Dr. Yui Uchida (RIKEN Special Postdoctoral Researcher, Laboratory for Multiscale Biosystem Dynamics, RIKEN BDR)

Animals have developed a great variety of morphologies during the course of evolution. Despite this, phylogeny-specific features have sometimes been maintained for hundreds of millions of years, sugge...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Waveform Analysis of Biological Rhythms

July 1 at 10:00 - 11:00, 2020

Dr. Shingo Gibo (Postdoctoral Researcher, iTHEMS)

Nonlinear oscillatory phenomena often emerge in various systems, for example circadian rhythms in biological systems and acoustic vibrations in engineering. Analysis and control of these oscillatory p...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Turing Patterns in Biology and Beyond

June 10 at 10:00 - 10:45, 2020

Dr. Martin Skrodzki (Visiting Researcher, iTHEMS)

In his 1952 paper "The chemical basis of morphogenesis", Alan M. Turing presented a model for the formation of skin patterns. While it took several decades, the model has been validated, e.g. in the s...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Quantification model of energy of loop structure on biopolymer

June 3 at 10:00 - 10:45, 2020

Dr. Hiroshi Yokota (Postdoctoral Researcher, iTHEMS)

During cell division, the chromatin fiber condenses into a rod-like shape, which is the so-called chromosome. The chromosome is constructed by consecutive chromatin loop structures whose excluded volu...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Forgetting in Reinforcement Learning Links Sustained Dopamine Signals to Motivation

May 27 at 10:00 - 10:45, 2020

Ms. Ayaka Kato (RIKEN-CBS / Ph.D. student, The University of Tokyo)

Dopamine (DA) has been suggested to have two reward-related roles: (1) representing reward-prediction-error (RPE), and (2) providing motivational drive. Role(1) is based on the physiological results t...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Models to describe how virus spreads in vitro

May 13 at 10:00 - 10:45, 2020

Prof. Catherine Beauchemin (Senior Visiting Scientist, iTHEMS)

This is meant as an introductory talk about my research field, virophysics, in which I apply the rigour and methods of physics to study virology. My focus is primarily in vitro (how virus spreads cell...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Slip or (k)not: Geometry and mechanical performance of physical knots

May 7 at 17:00 - 17:45, 2020

Dr. Tomohiko Sano (PD, École polytechnique fédérale de Lausanne, Switzerland)

Knots can impart unique mechanical function to filamentary structures, with examples ranging across length scales, including DNA, polymer-chains, shoelaces, climbing ropes, tennis racket, and surgical...more

Venue: via Zoom

Event Official Language: English

Seminar

Biology Seminar

Analyses of large-scale sequence data from “PROTIST” can reveal the eukaryotic phylogeny and evolution

April 30 at 10:00 - 10:45, 2020

Dr. Yuki Yazaki (Postdoctoral Researcher, iTHEMS)

Most of the phylogenetic diversity of eukaryotes is made up of unicellular eukaryotic microorganisms called protists, some of which have not known phylogenetic home (called Orphans). Orphans are likel...more

Venue: via zoom

Event Official Language: English

Seminar

Biology Seminar

Social evolution in viruses

April 22 at 10:00 - 10:45, 2020

Mr. Asher Leeks (International Program Associate, iTHEMS)

Viruses are normally thought of as solitary organisms. However, in reality viruses often interact with one another, and these interactions can have important consequences for how viruses evolve and ca...more

Venue: via Zoom

Event Official Language: English