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METHOD:PUBLISH
X-WR-CALNAME:Biomedical Mathematics Group
X-ORIGINAL-URL:https://www.ibs.re.kr/bimag
X-WR-CALDESC:Events for Biomedical Mathematics Group
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BEGIN:VTIMEZONE
TZID:Asia/Seoul
BEGIN:STANDARD
TZOFFSETFROM:+0900
TZOFFSETTO:+0900
TZNAME:KST
DTSTART:20210101T000000
END:STANDARD
END:VTIMEZONE
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20230510T160000
DTEND;TZID=Asia/Seoul:20230510T170000
DTSTAMP:20260409T182516
CREATED:20230213T110735Z
LAST-MODIFIED:20230308T101512Z
UID:7339-1683734400-1683738000@www.ibs.re.kr
SUMMARY:Mogens Jensen\, Droplet formation\, DNA repair and chaos in CellsBD
DESCRIPTION:Abstract: TBD
URL:https://www.ibs.re.kr/bimag/event/tbd/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2023/02/Mogens_Hogh_Jensen.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20230428T110000
DTEND;TZID=Asia/Seoul:20230428T120000
DTSTAMP:20260409T182516
CREATED:20230213T110626Z
LAST-MODIFIED:20230308T101702Z
UID:7336-1682679600-1682683200@www.ibs.re.kr
SUMMARY:Hans P.A. Van Dongen\, Modeling the temporal dynamics of neurobehavioral performance impairment due to sleep loss and circadian misalignment
DESCRIPTION:Abstract: The well-known two-process model of sleep regulation makes accurate predictions of sleep timing and duration\, as well as neurobehavioral performance\, for a variety of acute sleep deprivation and nap sleep scenarios\, but it fails to predict the effects of chronic sleep restriction on neurobehavioral performance. The two-process model belongs to a broader class of coupled\, non-homogeneous\, first-order\, ordinary differential equations (ODEs)\, which can capture the effects of chronic sleep restriction. These equations exhibit a bifurcation\, which appears to be an essential feature of performance impairment due to sleep loss. The equations implicate a biological system analogous to two connected compartments containing interacting compounds with time-varying concentrations\, such as the adenosinergic neuromodulator/receptor system\, as a key mechanism for the regulation of neurobehavioral functioning under conditions of sleep loss. The equations account for dynamic interaction with circadian rhythmicity\, and also provide a new approach to dynamically tracking the magnitude of sleep inertia upon awakening from restricted sleep. This presentation will describe the development of the ODE system and its experimental calibration and validation\, and will discuss some novel predictions.
URL:https://www.ibs.re.kr/bimag/event/modeling-the-temporal-dynamics-of-neurobehavioral-performance-impairment-due-to-sleep-loss-and-circadian-misalignment/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2023/02/HANS-VAN-DONGEN-396x293-1.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20230407T110000
DTEND;TZID=Asia/Seoul:20230407T120000
DTSTAMP:20260409T182516
CREATED:20230213T110215Z
LAST-MODIFIED:20230308T100617Z
UID:7328-1680865200-1680868800@www.ibs.re.kr
SUMMARY:George Karniadakis\, BINNS: Biophysics-Informed Neural Networks
DESCRIPTION:Abstract: We will present a new approach to develop a data-driven\, learning-based framework for predicting outcomes of biophysical systems and for discovering hidden mechanisms and pathways from noisy data. We will introduce a deep learning approach based on neural networks (NNs) and on generative adversarial networks (GANs). Unlike other approaches that rely on big data\, here we “learn” from small data by exploiting the information provided by the mathematical physics\, e.g..\, conservation laws\, reaction kinetics\, etc\,. which are used to obtain informative priors or regularize the neural networks. We will demonstrate how we can train BINNs from multifidelity/multimodality data\, and we will present several examples of inverse problems\, e.g.\, in systems biology for diabetes and in biomechanics for non-invasive inference of thrombus material properties. We will also discuss how operator regression in the form of DeepOnet can be used to accelerate inference based on historical data and only a few new data\, as well its generalization and transfer learning capacity.
URL:https://www.ibs.re.kr/bimag/event/binns-biophysics-informed-neural-networks/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2023/02/GeorgeKarniadakis.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20230324T160000
DTEND;TZID=Asia/Seoul:20230324T170000
DTSTAMP:20260409T182516
CREATED:20230213T105312Z
LAST-MODIFIED:20230320T010451Z
UID:7318-1679673600-1679677200@www.ibs.re.kr
SUMMARY:(Rescheduled: 3/22 -> 3/24) Stefan Bauer\, Neural Causal Models for Experimental Design
DESCRIPTION:Abstract: Many questions in everyday life as well as in research are causal in nature: How would the climate change if we lower train prices or will my headache go away if I take an aspirin? Inherently\, such questions need to specify the causal variables relevant to the question and their interactions. However\, existing algorithms for learning causal graphs from data are often not scaling well both with the number of variables or the number of observations. This talk will provide a brief introduction to causal structure learning\, recent efforts in using continuous optimization to learn causal graphs at scale and systematic approaches for causal experimental design at scale.
URL:https://www.ibs.re.kr/bimag/event/neural-causal-models-for-experimental-design/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2023/02/jItlmUQr_400x400.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20230315T160000
DTEND;TZID=Asia/Seoul:20230315T170000
DTSTAMP:20260409T182516
CREATED:20230213T105947Z
LAST-MODIFIED:20230312T051759Z
UID:7324-1678896000-1678899600@www.ibs.re.kr
SUMMARY:Julio Saez-Rodriguez\, Dynamic logic models complement machine learning for personalized medicine
DESCRIPTION:Abstract: \nMulti-omics technologies\, and in particular those with single-cell and spatial resolution\, provide unique opportunities to study the deregulation of intra- and inter-cellular signaling processes in disease. I will present recent methods and applications from our group toward this aim\, focusing on computational approaches that combine data with biological knowledge within statistical and machine learning methods. This combination allows us to increase both the statistical power of our analyses and the mechanistic interpretability of the results. These approaches allow us to identify key processes\, that can be in turn studied in detailed with dynamic mechanistic models. I will then present how cell-specific logic models\, trained with measurements upon perturbations\, can provides new biomarkers and treatment opportunities. Finally\, I will show how\, using novel microfluidics-based technologies\, this approach can also be applied directly to biopsies\, allowing to build mechanistic models for individual cancer patients\, and use these models to prose new therapies.
URL:https://www.ibs.re.kr/bimag/event/dynamic-logic-models-complement-machine-learning-for-personalized-medicine/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2023/02/SAEZ_Rodriguez_Julio_March_2014-copy-e1508925747488.jpeg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20230310T100000
DTEND;TZID=Asia/Seoul:20230310T110000
DTSTAMP:20260409T182516
CREATED:20230213T105750Z
LAST-MODIFIED:20230306T000259Z
UID:7321-1678442400-1678446000@www.ibs.re.kr
SUMMARY:Martin Nowak\, Evolution of cooperation
DESCRIPTION:Abstract: Cooperation means that one individual pays a cost for another to receive a benefit. Cooperation can be at variance with natural selection. Why should you help competitors? Yet cooperation is abundant in nature and is important component of evolutionary innovation. Cooperation can be seen as the master architect of evolution and as the third fundamental principle of evolution beside mutation and selection. I will present five mechanisms for the evolution of cooperation: direct reciprocity\, indirect reciprocity\, spatial selection\, group selection and kin selection. Global cooperation and the cooperation with future generations is necessary to ensure the survival of our species. \nFurther reading:\nNowak MA (2006). Evolutionary Dynamics. Harvard University Press\nNowak MA & Highfield R (2011) SuperCooperators. Simon & Schuster.\nHauser OP\, Rand DG\, Peysakhovich A & Nowak MA (2014). Cooperating with the future. Nature 511: 220-223\nHilbe C\, Šimsa Š\, Chatterjee K & Nowak MA (2018). Evolution of cooperation in stochastic games. Nature 559: 246-249\nHauser OP\, Hilbe C\, Chatterjee K & Nowak MA (2019). Social dilemmas among unequals. Nature 572: 524-527
URL:https://www.ibs.re.kr/bimag/event/evolution-of-cooperation/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2023/02/MartinNowak_250.jpeg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20230303T110000
DTEND;TZID=Asia/Seoul:20230303T120000
DTSTAMP:20260409T182516
CREATED:20230213T110430Z
LAST-MODIFIED:20230227T013418Z
UID:7331-1677841200-1677844800@www.ibs.re.kr
SUMMARY:Shinya Kuroda\, Systems Biology of Insulin Action
DESCRIPTION:Abstract: \n1. The “temporal information code” of insulin action: a bottom-up approach One of the essential elements of signaling networks is to encode information from a wide variety of inputs into a limited set of molecules. We have proposed a “temporal information code” that regulates a variety of physiological functions by encoding input information in temporal patterns of molecular activity\, and based on this concept\, we are analyzing biological homeostasis by insulin signaling. Taking blood insulin as an example\, we will explain how the temporal information of blood insulin is selectively decoded by downstream networks. \n2. Transomics of insulin action: a top-down approach In order to obtain a complete picture of insulin action\, we performed transomics measurements integrating metabolomics and transcriptomics\, and found that metabolism is regulated by allosteric regulation in the liver of normal mice and by compensatory gene expression in the liver of obese mice. (Top-down approach). I will talk about approach the principle of homeostasis of living organisms by temporal patterns\, using the analysis of systems biology of insulin action using two different approaches.
URL:https://www.ibs.re.kr/bimag/event/systems-biology-of-insulin-action/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221209T110000
DTEND;TZID=Asia/Seoul:20221209T120000
DTSTAMP:20260409T182516
CREATED:20220825T013528Z
LAST-MODIFIED:20221207T064542Z
UID:6504-1670583600-1670587200@www.ibs.re.kr
SUMMARY:Taming Complexity in Data-Limited Nonlinear Nonequilibrium Settings
DESCRIPTION:Abstract: \nSince before the time of Aristotle and the natural philosophers\, reductionism has played a foundational role in western scientific thought. The premise of reductionism is that systems can be broken down into constituent pieces and studied independently\, then reassembled to understand the behavior of the system as a whole. It embodies the classical linear perspective. This approach has been successful in developing basic physical laws and especially in engineering where linear analysis dominates and systems are purposefully designed that way. However\, reductionism is not universally applicable for natural complex systems where behavior is driven\, not by a few factors acting independently\, but by complex interactions between many components acting together and changing in time. \nNonlinearity in living systems means that its parts are interdependent – variables do not act in a mutually independent manner; rather they interact\, and as a consequence associations (correlations) between them will change as the overall system context (state) changes.  This problem is highlighted when extrapolating the results of single-factor experiments to nature\, and surely contributes to the frustrating disconnect between experimental findings and clinical outcomes in drug trials. Indeed\, while everyone knows Berkeley’s 1710 dictum “correlation does not imply causation” few realize that for nonlinear systems the converse “causation does not imply correlation” is also true. This conundrum runs counter to deeply ingrained heuristic thinking that is at the basis of modern science. Biological systems (esp. ecosystems) are particularly perverse on this issue by exhibiting mirage correlations that can continually cause us to rethink relationships we thought we understood. \nHere we examine a minimalist paradigm\, empirical dynamics (EDM)\, for studying non-linear systems and a method (CCM) that can detect causality when there is no correlation among variables. It is a data-driven approach that uses time series to study a system holistically by reconstructing its attractor – a geometric object that embodies the rules of a full set of equations for the system.  The ideas are intuitive and will be illustrated with examples from genetics\, ecology and epidemiology. \nA python version of EDM tools can be found at https://pepy.tech/project/pyEDM
URL:https://www.ibs.re.kr/bimag/event/2022-12-09-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/Sugihara_George_250x250.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221202T110000
DTEND;TZID=Asia/Seoul:20221202T120000
DTSTAMP:20260409T182516
CREATED:20220825T011607Z
LAST-MODIFIED:20220828T060439Z
UID:6474-1669978800-1669982400@www.ibs.re.kr
SUMMARY:Mammalian synthetic biology by controller design
DESCRIPTION:Abstract: The ability to reliably engineer the mammalian cell will impact a variety of applications in a disruptive way\, including cell fate control and reprogramming\, targeted drug delivery\, and regenerative medicine. However\, our current ability to engineer mammalian genetic circuits that behave as predicted remains limited. These circuits depend on the intra and extra cellular environment in ways that are difficult to anticipate\, and this fact often hampers genetic circuit performance. This lack of robustness to poorly known and often variable cellular environment is the subject of this talk. Specifically\, I will describe control engineering approaches that make the performance of genetic devices robust to context. I will show a feedforward controller that makes gene expression robust to variability in cellular resources and\, more generally\, to changes in intra-cellular context linked to differences in cell type. I will then show a feedback controller that uses bacterial two component signaling systems to create a quasi-integral controller that makes the input/output response of a genetic device robust to a variety of perturbations that affect gene expression. These solutions support rational and modular design of sophisticated genetic circuits and can serve for engineering biological circuits that are more robust and predictable across changing contexts.
URL:https://www.ibs.re.kr/bimag/event/2022-12-02-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/Domitilla-Del-Vecchio-250x250-1.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221130T160000
DTEND;TZID=Asia/Seoul:20221130T170000
DTSTAMP:20260409T182516
CREATED:20220825T013203Z
LAST-MODIFIED:20221124T211611Z
UID:6498-1669824000-1669827600@www.ibs.re.kr
SUMMARY:Brain dynamics during shiftwork: from maths and codes to real-world applications
DESCRIPTION:Abstract: \nCircadian clocks control the timing and 24-hour periodicity of virtually all physiological rhythms including sleep\, cognition\, and metabolism. There are optimal times for most behaviours; e.g.\, the best sleep is achieved during low circadian activity (night)\, while meals and physical exercise are best placed during high circadian activity (day) when metabolic rates\, stress hormone levels\, and blood pressure are higher. However\, the demands of our 24/7 society often result in misalignment of these environmental\, behavioural and physiological rhythms with the typical examples being shiftwork\, jetlag\, and circadian disorders. This circadian misalignment results in inadequate sleep\, fatigue\, increased risk of accidents\, and in the long-term\, development of disease including cancer and diabetes. Mathematical modelling of circadian misalignment is used to better understand the circadian and sleep regulation and make predictions to reduce risk of fatigue-related accidents. In this talk I will present an overview of our studies of shiftwork modelling and our journey from fundamental modelling research of sleep and circadian rhythms to development of software tools and real-world applications.
URL:https://www.ibs.re.kr/bimag/event/2022-11-30-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/SvetlanaPostnova-250x250-1.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221123T160000
DTEND;TZID=Asia/Seoul:20221123T170000
DTSTAMP:20260409T182516
CREATED:20220825T012839Z
LAST-MODIFIED:20221119T072455Z
UID:6494-1669219200-1669222800@www.ibs.re.kr
SUMMARY:Assessing the limits of control of Covid-19 outbreaks using agent-based modeling
DESCRIPTION:Transmission of SARS-CoV-2 relies on interactions between humans. Heterogeneity and stochasticity both in human-human interactions and in the transmission of the virus give rise to non-linear infection networks that gain complexity with time. \nWe assessed the limits of control and the effect of pharmaceutical and non-pharmaceutical measures against COVID‐19 outbreaks with a detailed community‐specific agent-based model (GERDA). The demographic and geographic structure of the concrete communities influence the pattern of infection spreading. Stochastic community dynamics and limited vaccination can lead to bimodal outcomes\, rendering predictions about infection spreading and effects of nonpharmaceutical interventions uncertain. \n  \nBy comparing different vaccination strategies\, we found that the herd immunity threshold depends strongly on the applied vaccination strategy.  When vaccine supply is limited\, different vaccination strategies are optimal for the intended goal e.g.\, reducing fatalities or confining an outbreak. Prioritizing highly interactive people diminishes the risk for an infection wave\, while prioritizing the elderly minimizes fatalities. \nThe inherent stochasticity can lead to bimodality in predicting an outbreak in different low-incidence scenarios and\, thereby\, render the effect of limited NPI uncertain.  Further\, we found that for the low-incidence scenarios the reproduction number R0 is not a suitable predictor for the system behavior or the infectiousness of the virus. \nThe developed simulation platform can process and analyze dynamic COVID‐19 epidemiological situations in diverse communities worldwide to predict pathways to population immunity even with limited vaccination.
URL:https://www.ibs.re.kr/bimag/event/2022-11-23-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/klipp2-250x250-1.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221118T110000
DTEND;TZID=Asia/Seoul:20221118T120000
DTSTAMP:20260409T182516
CREATED:20220825T012410Z
LAST-MODIFIED:20221114T224951Z
UID:6490-1668769200-1668772800@www.ibs.re.kr
SUMMARY:Quantifying dynamical changes in sparse\, noisy\, high-dimensional data
DESCRIPTION:The circadian clock orchestrates a vast array of behavioral and physiological processes with a 24-hour cycle\, enabling nearly all organisms — from bread mold to fruit-flies to humans — to anticipate and adapt to the Earth’s day. Entrainable by environmental cue\, the rhythm itself is generated by a self-sustained molecular oscillator present in nearly every cell. This in turn governs the expression of thousands of genes\, precisely coordinating biomolecular functions at the microscopic scale. While experimental evidence suggests that the clock is crucial for mediating the response to changes in an organism’s environment (such as temperature and food availability)\, the precise mechanisms underlying circadian regulation remain unclear. Today\, high-throughput omics assays enable us to probe these processes in molecular detail\, with the goal of making inferences about which genes are under circadian control and how their dynamics change under different environmental conditions. Analyzing this transcriptomic time-series data raises new challenges: that of characterizing dynamics when the data are noisy\, sparsely sampled in time\, and may not be strictly periodic. In this talk\, I will discuss our recent work on nonparametric methods to analyze circadian transcriptomic data by exploiting results from dynamical systems theory\, nonlinear dimension reduction\, and topological data analysis.
URL:https://www.ibs.re.kr/bimag/event/2022-11-18-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/braun_rosemary.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221109T160000
DTEND;TZID=Asia/Seoul:20221109T170000
DTSTAMP:20260409T182516
CREATED:20220825T012221Z
LAST-MODIFIED:20220902T003131Z
UID:6486-1668009600-1668013200@www.ibs.re.kr
SUMMARY:Modeling cell-to-cell heterogeneity from a signaling network
DESCRIPTION:Cells make individual fate decisions through linear and nonlinear regulation of gene network\, generating diverse dynamics from a single reaction pathway. In this colloquium\, I will present two topics of our recent work on signaling dynamics at cellular and patient levels. The first example is about the initial value of the model\, as a mechanism to generate different dynamics from a single pathway in cancer and the use of the dynamics for stratification of the patients [1-3]. Models of ErbB receptor signaling have been widely used in prediction of drug sensitivity for many types of cancers. We trained the ErbB model with the data obtained from cancer cell lines and predicted the common parameters of the model. By simulation of the ErbB model with those parameters and individual patient transcriptome data as initial values\, we were able to classify the prognosis of breast cancer patients and drug sensitivity based on their in silico signaling dynamics. This result raises the question whether gene expression levels\, rather than genetic mutations\, might be better suited to classify the disease. Another example is about the regulation of transcription factors\, the recipients of signal dynamics\, for target gene expression [4-6]. By focusing on the NFkB transcription factor\, we found that the opening and closing of chromatin at the DNA regions of the putative transcription factor binding sites and the cooperativity in their interaction significantly influenced the cell-to cell heterogeneity in gene expression levels. This study indicates that the noise in gene expression is rather strongly regulated by the DNA side\, even though the signals are similarly regulated in a cell population. Overall these mechanisms are important in our understanding the cell as a system for encoding and decoding signals for fate decisions and its application to human diseases. \n[References] \n[1] Nakakuki et al. Cell 2010\,\n[2] Imoto et al. iScience 2022\,\n[3] Imoto et al. STAR Protocols 2022\,\n[4] Shinohara et al. Science 2014\,\n[5] Michida et al. Cell Reports 2020\,\n[6] Wibisana et al. PLoS Genetics 2022
URL:https://www.ibs.re.kr/bimag/event/2022-11-09-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/okada-250x250-1.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221026T160000
DTEND;TZID=Asia/Seoul:20221026T170000
DTSTAMP:20260409T182516
CREATED:20220825T012029Z
LAST-MODIFIED:20220925T142427Z
UID:6482-1666800000-1666803600@www.ibs.re.kr
SUMMARY:Mathematical modelling of the sleep-wake cycle: light\, clocks and social rhythms
DESCRIPTION:Abstract: \nWe’re all familiar with sleep\, but how can we mathematically model it? And what determines how long and when we sleep? In this talk I’ll introduce the nonsmooth coupled oscillator systems that form the basis of current models of sleep-wake regulation and discuss their dynamical behaviour. I will describe how we are using models to unravel environmental\, societal and physiological factors that determine sleep timing and outline how we are using models to inform the quantitative design of light interventions for mental health disorders and address contentious societal questions such as whether to move school start time for adolescents.
URL:https://www.ibs.re.kr/bimag/event/2022-10-26-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/anne-skeldon.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221021T110000
DTEND;TZID=Asia/Seoul:20221021T120000
DTSTAMP:20260409T182516
CREATED:20220825T011824Z
LAST-MODIFIED:20220916T014258Z
UID:6478-1666350000-1666353600@www.ibs.re.kr
SUMMARY:Stationary distributions and positive recurrence of chemical reaction networks
DESCRIPTION:Abstract: \nCellular\, chemical\, and population processes are all often represented via networks that describe the interactions between the different population types (typically called the “species”). If the counts of the species are low\, then these systems are often modeled as continuous-time Markov chains on the d-dimensional integer lattice (with d being the number of species)\, with transition rates determined by stochastic mass-action kinetics. A natural (broad) mathematical question is: how do the qualitative properties of the dynamical system relate to the graph properties of the network? For example\, it is of particular interest to know which graph properties imply that the stochastically modeled reaction network is positive recurrent\, and therefore admits a stationary distribution. After a general introduction to the models of interest\, I will discuss this problem\, giving some of the known results. I will also discuss recent progress on the Chemical Recurrence Conjecture\, which has been open for decades\, which is the following: if each connected component of the network is strongly connected\, then the associated stochastic model is positive recurrent.
URL:https://www.ibs.re.kr/bimag/event/2022-10-21-colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/DAnderson2018-250x250-1.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221021T103000
DTEND;TZID=Asia/Seoul:20221021T110000
DTSTAMP:20260409T182516
CREATED:20220916T014503Z
LAST-MODIFIED:20220916T014503Z
UID:6575-1666348200-1666350000@www.ibs.re.kr
SUMMARY:A Brief Introduction to Stochastic Reaction Networks
DESCRIPTION:Abstract: TBA
URL:https://www.ibs.re.kr/bimag/event/2022-10-21-colloquium-2/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/DAnderson2018-250x250-1.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221007T110000
DTEND;TZID=Asia/Seoul:20221007T120000
DTSTAMP:20260409T182516
CREATED:20220825T011205Z
LAST-MODIFIED:20220901T005901Z
UID:6471-1665140400-1665144000@www.ibs.re.kr
SUMMARY:Time-keeping and Decision-making in the Cell Cycle
DESCRIPTION:Abstract: Cell growth\, DNA replication\, mitosis and division are the fundamental processes by which life is passed on from one generation of eukaryotic cells to the next. The eukaryotic cell cycle is intrinsically a periodic process but not so much a ‘clock’ as a ‘copy machine’\, making new daughter cells as warranted. Cells growing under ideal conditions divide with clock-like regularity; however\, if they are challenged with DNA-damaging agents or mitotic spindle disruptors\, they will not progress to the next stage of the cycle until the damage is repaired. These ‘decisions’ (to exit and re-enter the cell cycle) are essential to maintain the integrity of the genome from generation to generation. A crucial challenge for molecular cell biologists in the 1990s was to unravel the genetic and biochemical mechanisms of cell cycle control in eukaryotes. Central to this effort were biochemical studies of the clock-like regulation of ‘mitosis promoting factor’ during synchronous mitotic cycles of fertilized frog eggs and genetic studies of the switch-like regulation of ‘cyclin-dependent kinases’ in yeast cells. The complexity of these control systems demands a dynamical approach\, as described in the first lecture. Using mathematical models of the control systems\, I will uncover some of the secrets of cell cycle ‘clocks’ and ‘switches’.
URL:https://www.ibs.re.kr/bimag/event/2022-10-07-colloquium2/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/Tyson_profile-250x250-1.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20221007T103000
DTEND;TZID=Asia/Seoul:20221007T110000
DTSTAMP:20260409T182516
CREATED:20220825T011010Z
LAST-MODIFIED:20220901T010141Z
UID:6468-1665138600-1665140400@www.ibs.re.kr
SUMMARY:A Dynamic Paradigm for Molecular Cell Biology
DESCRIPTION:Abstract: The driving passion of molecular cell biologists is to understand the molecular mechanisms that control important aspects of cell physiology\, but this ambition is – paradoxically – limited by the very wealth of molecular details currently known about these mechanisms. Their complexity overwhelms our intuitive notions of how molecular regulatory networks might respond under normal and stressful conditions. To make progress we need a new paradigm for connecting molecular biology to cell physiology. I will outline an approach that uses precise mathematical methods to associate the qualitative features of dynamical systems\, as conveyed by ‘bifurcation diagrams’\, with ‘signal–response’ curves measured by cell biologists.
URL:https://www.ibs.re.kr/bimag/event/2022-10-01-colloquium1/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/Tyson_profile-250x250-1.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220902T110000
DTEND;TZID=Asia/Seoul:20220902T120000
DTSTAMP:20260409T182516
CREATED:20220825T010806Z
LAST-MODIFIED:20220829T000006Z
UID:6463-1662116400-1662120000@www.ibs.re.kr
SUMMARY:Cell signaling in 2D vs. 3D
DESCRIPTION:Abstract: \nThe activation of Ras depends upon the translocation of its guanine nucleotide exchange factor\, Sos\, to the plasma membrane. Moreover\, artificially inducing Sos to translocate to the plasma membrane is sufficient to bring about Ras activation and activation of Ras’s targets. There are many other examples of signaling proteins that must translocate to the membrane in order to relay a signal. \nOne attractive idea is that translocation promotes signaling by bringing a protein closer to its target. However\, proteins that are anchored to the membrane diffuse more slowly than cytosolic proteins do\, and it is not clear whether the concentration effect or the diffusion effect would be expected to dominate. Here we have used a reconstituted\, controllable system to measure the association rate for the same binding reaction in 3D vs. 2D to see whether association is promoted\, and\, if so\, how.
URL:https://www.ibs.re.kr/bimag/event/20220902_colloquium/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/jpeg:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/08/Ferrell_profile-250x250-1.jpg
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220601T170000
DTEND;TZID=Asia/Seoul:20220601T180000
DTSTAMP:20260409T182516
CREATED:20220531T223000Z
LAST-MODIFIED:20220317T001720Z
UID:5601-1654102800-1654106400@www.ibs.re.kr
SUMMARY:From live cell imaging to moment-based variational inference
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: Quantitative characterization of biomolecular networks is important for the analysis and design of network functionality. Reliable models of such networks need to account for intrinsic and extrinsic noise present in the cellular environment. Stochastic kinetic models provide a principled framework for developing quantitatively predictive tools in this scenario. Calibration of such models requires an experimental setup capable of monitoring a large number of individual cells over time\, automatic extraction of fluorescence levels for each cell and a scalable inference approach. In the first part of the talk we will cover our microfluidic setup and a deep-learning based approach to cell segmentation and data extraction. The second part will introduce moment-based variational inference as a scalable framework for approximate inference of kinetic models based on single cell data.
URL:https://www.ibs.re.kr/bimag/event/2022-06-01/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/HK_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220525T170000
DTEND;TZID=Asia/Seoul:20220525T180000
DTSTAMP:20260409T182516
CREATED:20220524T230000Z
LAST-MODIFIED:20220224T003504Z
UID:5609-1653498000-1653501600@www.ibs.re.kr
SUMMARY:Multi-resolution methods for modelling intracellular processes
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: I will discuss the development\, analysis and applications of multi-resolution methods for spatio-temporal modelling of intracellular processes\, which use (detailed) Brownian dynamics or molecular dynamics simulations in localized regions of particular interest (in which accuracy and microscopic details are important) and a (less-detailed) coarser model in other regions in which accuracy may be traded for simulation efficiency. I will discuss the error analysis and convergence properties of the developed multi-resolution methods\, their software implementation and applications of these multiscale methodologies to modelling of intracellular calcium dynamics\, actin dynamics and DNA dynamics. I will also discuss the development of multiscale methods which couple molecular dynamics and coarser stochastic models in the same dynamic simulation.
URL:https://www.ibs.re.kr/bimag/event/2022-05-25-2/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/RE_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220525T163000
DTEND;TZID=Asia/Seoul:20220525T170000
DTSTAMP:20260409T182516
CREATED:20220524T223000Z
LAST-MODIFIED:20220224T003158Z
UID:5606-1653496200-1653498000@www.ibs.re.kr
SUMMARY:Stochastic modelling of reaction-diffusion processes
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: I will introduce mathematical and computational methods for spatio-temporal modelling in molecular and cell biology\, including all-atom and coarse-grained molecular dynamics (MD)\, Brownian dynamics (BD)\, stochastic reaction-diffusion models and macroscopic mean-field equations. Microscopic (BD\, MD) models are based on the simulation of trajectories of individual molecules and their localized interactions (for example\, reactions). Mesoscopic (lattice-based) stochastic reaction-diffusion approaches divide the computational domain into a finite number of compartments and simulate the time evolution of the numbers of molecules in each compartment\, while macroscopic models are often written in terms of mean-field reaction-diffusion partial differential equations for spatially varying concentrations.
URL:https://www.ibs.re.kr/bimag/event/2022-05-25-1/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/RE_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220512T110000
DTEND;TZID=Asia/Seoul:20220512T120000
DTSTAMP:20260409T182516
CREATED:20220511T170000Z
LAST-MODIFIED:20220224T002809Z
UID:5599-1652353200-1652356800@www.ibs.re.kr
SUMMARY:Plasticity and balance in neuronal networks
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: I will first describe how to extend the theory of balanced networks to account for synaptic plasticity. This theory can be used to show when a plastic network will maintain balance\, and when it will be driven into an unbalanced state. I will next discuss how this approach provides evidence for a novel form of rapid compensatory inhibitory plasticity. Experimental evidence for such plasticity comes from optogenetic activation of excitatory neurons in primate visual cortex (area V1) which induces a population-wide dynamic reduction in the strength of neuronal interactions over the timescale of minutes during the awake state\, but not during rest. I will shift gears in the final part of the talk\, and discuss how community detection algorithms can help uncover the large scale organization of neuronal networks from connectome data.
URL:https://www.ibs.re.kr/bimag/event/2022-05-12-2/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/03/KJ_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220512T103000
DTEND;TZID=Asia/Seoul:20220512T110000
DTSTAMP:20260409T182516
CREATED:20220511T163000Z
LAST-MODIFIED:20220224T002732Z
UID:5596-1652351400-1652353200@www.ibs.re.kr
SUMMARY:Introduction to balanced networks
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: The idea of balance between excitation and inhibition is central in the theory of biological neural networks.  I will give a brief introduction to the concept of such balance\, and an overview of the mathematical ideas that can be used to study it.
URL:https://www.ibs.re.kr/bimag/event/2022-05-12-1/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/03/KJ_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220428T110000
DTEND;TZID=Asia/Seoul:20220428T120000
DTSTAMP:20260409T182516
CREATED:20220427T170000Z
LAST-MODIFIED:20220224T002639Z
UID:5593-1651143600-1651147200@www.ibs.re.kr
SUMMARY:Scaling behaviors in physiological fluctuations: relevance to circadian regulation and insights into the development of Alzheimer’s disease
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: Outputs from health biological systems display complex fluctuations that are not random but display robust and often self-similar (fractal) temporal correlations at different time scales— scaling behaviors. The scaling behaviors in the fluctuations of biological outputs such as neural activities\, cardiac dynamics\, motor activity are believed to be originated from feedbacks within the complex biological networks\, reflecting the system adaptability to internal and external inputs. Supporting this concept\, our studies have demonstrated a mechanistic link between the scaling regulation of physiological fluctuations and the circadian control system— a result of evolutionary adaptation to daily environmental light-dark cycles on the earth. In this talk\, I will discuss certain evidence for this ‘scaling-circadian’ link and its related implications. Moreover\, I will review some recent studies\, in which we examined how the scaling patterns of human motor activity fluctuations change with aging and in Alzheimer’s disease. Our results showed that (1) alterations in scaling activity patterns occur before the clinical manifestation of Alzheimer’s disease (i.e.\, cognitive impairment) and predict cognitive decline and the risk for Alzheimer’s dementia; and (2) the progression of Alzheimer’s disease accelerates the aging effect on the scaling activity patterns. Our work provides strong evidence that altered scaling activity patterns may also be a risk factor for neurodegeneration\, playing a role in the development and progression of Alzheimer’s disease.
URL:https://www.ibs.re.kr/bimag/event/2022-04-28/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/KH_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220414T110000
DTEND;TZID=Asia/Seoul:20220414T120000
DTSTAMP:20260409T182516
CREATED:20220413T170000Z
LAST-MODIFIED:20220224T002525Z
UID:5591-1649934000-1649937600@www.ibs.re.kr
SUMMARY:A systems biology approach using multi-scale modeling to understand the immune response to tuberculosis infection and treatment
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: Tuberculosis (TB) is one of the world’s deadliest infectious diseases. Caused by the pathogen Mycobacterium tuberculosis (Mtb)\, the standard regimen for treating TB consists of treatment with multiple antibiotics for at least six months. There are a number of complicating factors that contribute to the need for this long treatment duration and increase the risk of treatment failure. The structure of granulomas\, lesions forming in lungs in response to Mtb infection\, create heterogeneous antibiotic distributions that limit antibiotic exposure to Mtb.   We can use a systems biology approach pairing experimental data from non-human primates with computational modeling to represent and predict how factors impact antibiotic regimen efficacy and granuloma bacterial sterilization. We utilize an agent-based\, computational model that simulates granuloma formation\, function and treatment\, called GranSim.  A goal in improving antibiotic treatment for TB is to find regimens that can shorten the time it takes to sterilize granulomas while minimizing the amount of antibiotic required. We also created a whole host model\, called HOSTSIM\, to study Mtb dynamics within a human host.  Overall\, we use these models to help better understand TB treatment and strengthen our ability to predict regimens that can improve clinical treatment of TB.
URL:https://www.ibs.re.kr/bimag/event/2022-04-14-2/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/DK_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220414T103000
DTEND;TZID=Asia/Seoul:20220414T110000
DTSTAMP:20260409T182516
CREATED:20220413T163000Z
LAST-MODIFIED:20220130T045637Z
UID:5588-1649932200-1649934000@www.ibs.re.kr
SUMMARY:An overview of methods used for multi-scale modeling and analysis
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: TBA
URL:https://www.ibs.re.kr/bimag/event/2022-04-14-1/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/DK_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220407T110000
DTEND;TZID=Asia/Seoul:20220407T120000
DTSTAMP:20260409T182516
CREATED:20220406T170000Z
LAST-MODIFIED:20220224T002321Z
UID:5585-1649329200-1649332800@www.ibs.re.kr
SUMMARY:Universal biology in adaptation and evolution: dimensional reduction\, and fluctuation-response relationship
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: A macroscopic theory for cellular states with steady-growth is presented\, based on consistency between cellular growth and molecular replication\, together with robustness of phenotypes against perturbations. Adaptive changes in high-dimensional phenotypes are shown to be restricted within a low-dimensional slow manifold\, from which a macroscopic law for cellular states is derived\, as is confirmed by adaptation experiments of bacteria under stress. The theory is extended to phenotypic evolution\, leading to proportionality between phenotypic responses against genetic evolution and by environmental adaptation\, which explains the evolutionary fluctuation-response relationship previously uncovered.   \nReferences \n\n Kaneko K.\, Life: An Introduction to Complex Systems Biology\, Springer (2006)\n K. Kaneko\, C.Furusawa\, T. Yomo\, “Macroscopic phenomenology for cells in steady-growth state”\, Phys.Rev.X(2015) 011014\n C. Furusawa\, K. Kaneko “Global Relationships in Fluctuation and Response in Adaptive Evolution”\, J of Royal Society Interface 12(2015)\, 20150482.\n C. Furusawa\, K. Kaneko ” Formation of Dominant Mode by Evolution in Biological Systems” Phys. Rev. E 97(2018)042410\n K. Kaneko\, C. Furusawa “Macroscopic Theory for Evolving Biological Systems Akin to Thermodynamics”\, Annual Rev. Biophys. (2018) 47\, 273-290\n A. Sakata and K. Kaneko\, “Dimensional Reduction in Evolving Spin-Glass Model: Correlation of Phenotypic Responses to Environmental and Mutational Changes”\, Phys. Rev. Lett. (2020) 124\, 218101\n Q-Y. Tang and K. Kaneko\, “ Dynamics-evolution correspondence in protein structures”\,  Phys. Rev. Lett. (2021) 127\, 098103
URL:https://www.ibs.re.kr/bimag/event/2022-04-07/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/Kunihiko-Kaneko.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220331T110000
DTEND;TZID=Asia/Seoul:20220331T120000
DTSTAMP:20260409T182516
CREATED:20220330T170000Z
LAST-MODIFIED:20220317T000754Z
UID:5582-1648724400-1648728000@www.ibs.re.kr
SUMMARY:Design principles of physiological circuits
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: We will discuss hormone circuits and their dynamics using new models that take into account timescales of weeks due to growth of the hormone glands. This explains some mysteries in diabetes and autoimmune disease.
URL:https://www.ibs.re.kr/bimag/event/2022-03-31/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/UA_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Asia/Seoul:20220324T110000
DTEND;TZID=Asia/Seoul:20220324T120000
DTSTAMP:20260409T182516
CREATED:20220323T170000Z
LAST-MODIFIED:20220224T002127Z
UID:5579-1648119600-1648123200@www.ibs.re.kr
SUMMARY:Topological data analysis of spatial systems
DESCRIPTION:This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) \nAbstract: From the venation patterns of leaves to spider webs\, roads in cities\, social networks\, and the spread of COVID-19 infections and vaccinations\, the structure of many systems is influenced significantly by space. In this talk\, I will discuss the application of topological data analysis (specifically\, persistent homology) to spatial systems. I will present a few examples\, such as voting in presidential elections\, city street networks\, spatiotemporal dynamics of COVID-19 infections and vaccinations\, and webs that were spun by spiders under the influence of various drugs.
URL:https://www.ibs.re.kr/bimag/event/2022-03-24-2/
LOCATION:ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium)\, (pw: 1234)
CATEGORIES:Biomedical Mathematics Online Colloquium
ATTACH;FMTTYPE=image/png:https://www.ibs.re.kr/bimag/cms/wp-content/uploads/2022/01/MP_250x250.png
ORGANIZER;CN="Jae Kyoung Kim":MAILTO:jaekkim@kaist.ac.kr
END:VEVENT
END:VCALENDAR