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Phase Estimation of Nonlinear State-space Model of the Circadian Pacemaker Using Level Set Kalman Filter and Raw Wearable Data

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

Abstract: Circadian rhythm is a robust internal 24 hours timekeeping mechanism maintained by the master circadian pacemaker Suprachiasmatic Nuclei (SCN). Numerous mathematical models have been proposed to capture SCN’s timekeeping mechanism and predict the circadian phase. There has been an increased demand for applying these models to the various unexplored data sets. One potential application …

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Dynamical System Perspective for Machine Learning

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

Abstract: The connection between deep neural networks and ordinary differential equations (ODEs) is an active field of research in machine learning. In this talk, we view the hidden states of a neural network as a continuous object governed by a dynamical system. The underlying vector field is written using a dictionary representation motivated by the …

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Optimized persistent random walk in zebrafish airineme search process

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

In addition to diffusive signals, cells in tissue also communicate via long, thin cellular protrusions, such as airinemes in zebrafish. Before establishing communication, cellular protrusions must find their target cell. In this talk, we demonstrate that the shapes of airinemes in zebrafish are consistent with a persistent random walk model. The probability of contacting the …

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Identifying the critical states of complex diseases by the dynamic change of multivariate distribution

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

We will discuss about "Identifying the critical states of complex diseases by the dynamic change of multivariate distribution", Peng, Hao, et al., Briefings in Bioinformatics, 2022. Abstract: The dynamics of complex diseases are not always smooth; they are occasionally abrupt, i.e. there is a critical state transition or tipping point at which the disease undergoes …

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Deep Learning-based Uncertainty Quantification for Mathematical Models

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

Over the recent years, various methods based on deep neural networks have been developed and utilized in a wide range of scientific fields. Deep neural networks are highly suitable for analyzing time series or spatial data with complicated dependence structures, making them particularly useful for environmental sciences and biosciences where such type of simulation model …

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Understanding How Dimension Reduction Tools Work: An Empirical Approach to Deciphering t-SNE, UMAP, TriMAP, and PaCMAP for Data Visualization

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

We will discuss about "Understanding How Dimension Reduction Tools Work: An Empirical Approach to Deciphering t-SNE, UMAP, TriMAP, and PaCMAP for Data Visualization", Wang, Yingfan, et al., J. Mach. Learn. Res., 2021. Abstract: Dimension reduction (DR) techniques such as t-SNE, UMAP, and TriMAP have demonstrated impressive visualization performance on many real world datasets. One tension …

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Korea Biological Rhythms Society (KBRS) Symposium

IBS 55 Expo-ro Yuseong-gu, Daejeon, Daejeon, Korea, Republic of

Korea Biological Rhythms Society (KBRS) Symposium (한국분자·세포생물학회 생체리듬준분과 심포지엄) Official Website Date 30 June 2022 (Thursday) - 1 July 2022 (Friday) Venue IBS Science Culture Center Program The detailed information will be updated.  

AI Pontryagin or how artificial neural networks learn to control dynamical systems

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

We will discuss about "AI Pontryagin or how artificial neural networks learn to control dynamical systems", Böttcher, L., Antulov-Fantulin, N. & Asikis, T., Nat Commun 13, 333 (2022). Abstract: The efficient control of complex dynamical systems has many applications in the natural and applied sciences. In most real-world control problems, both control energy and cost …

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TENET+: a tool for reconstructing gene networks by integrating single cell expression and chromatin accessibility data

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

Reconstruction of gene regulatory networks (GRNs) is a powerful approach to capture a prioritized gene set controlling cellular processes. In our previous study, we developed TENET a GRN reconstructor from single cell RNA sequencing (scRNAseq). TENET has a superior capability to identify key regulators compared with other algorithms. However, accurate inference of gene regulation is …

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Chemical Organisation Theory

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

We will discuss about "Chemical Organisation Theory ", Dittrich, Peter, and Pietro Speroni Di Fenizio, Bulletin of mathematical biology 69.4 (2007): 1199-1231. Abstract: Complex dynamical reaction networks consisting of many components that interact and produce each other are difficult to understand, especially, when new component types may appear and present component types may vanish completely. …

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Accuracy and limitations of extrinsic noise models to describe gene expression in growing cells

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

We will discuss about "Accuracy and limitations of extrinsic noise models to describe gene expression in growing cells", Jia, Chen, and Ramon Grima, bioRxiv (2022). Abstract: The standard model describing the fluctuations of mRNA numbers in single cells is the telegraph model which includes synthesis and degradation of mRNA, and switching of the gene between …

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Learning stable and predictive structures in kinetic systems

B378 Seminar room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Korea, Republic of

We will discuss about "Learning stable and predictive structures in kinetic systems", Niklas Pfister , Stefan Bauer, and Jonas Peters. PNAS, 2019 Abstract: Learning kinetic systems from data is one of the core challenges in many fields. Identifying stable models is essential for the generalization capabilities of data-driven inference. We introduce a computationally efficient framework, …

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IBS 의생명수학그룹 Biomedical Mathematics Group
기초과학연구원 수리및계산과학연구단 의생명수학그룹
대전 유성구 엑스포로 55 (우) 34126
IBS Biomedical Mathematics Group (BIMAG)
Institute for Basic Science (IBS)
55 Expo-ro Yuseong-gu Daejeon 34126 South Korea
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