Biomedical Mathematics Seminar

Abstract. Matrix/tensor factorization models such as principal component analysis , nonnegative matrix factorization, and CANDECOM/PARAFAC tensor decomposition provide powerful framework for dimension reduction and interpretable feature extraction, which are important in analyzing high-dimensional data that comes in large volume. Their diverse applications include image denoising and reconstruction, dictionary learning, topic modeling, and network data analysis. …

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 …

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 …

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 …

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 …

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 …

This talk will be given online (If you want to join, please send me an email to jaekkim@ibs.re.kr) Abstract Coupling Math with User-Centric Design Shift workers experience profound circadian disruption due to the nature of their work, which often has them on-the-clock at times when their internal clock is sending a strong, sleep-promoting signal. Mathematical …

This talk will be given online. Abstract: The establishment of UN Sustainable Development Goals (SDG) has led to widespread initiative in STEM learning and research in realising these goals. Here, we will look at some of the works that use control engineering approaches for smart farming (also known as Agriculture 4.0) applications that addresses UN …

This talk will be given online. Abstract: Synthetic biology and microbial biotechnology offer sustainable routes to the manufacture of commodity and high value chemicals from agricultural by-products instead of petrochemical feedstocks. However, engineered gene circuits and metabolic pathways both co-opt the cell’s gene expression machinery for protein/enzyme production and divert metabolic flux away from key …

Abstract: In real world, people are interested in causality rather than association. For example, pharmaceutical companies want to know effectiveness of their new drugs against diseases. South Korea Government officials are concerned about the effects of recent regulation with respect to an electric car subsidy from United States. Due to this reason, causal inference has …