A lognormal Poisson model for single cell transcriptomic normalization – Fred Wright

ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium) (pw: 1234)

Abstract The advent of single-cell transcriptomics has brought a greatly improved understanding of the heterogeneity of gene expression across cell types, with important applications in developmental biology and cancer research. Single-cell RNA sequencing datasets, which are based on tags called universal molecular identifiers, typically include a large number of zeroes. For such datasets, genes with

Accurate predictions on small data with a tabular foundation model – Dongju Lim

In this talk, we discuss the paper "Accurate predictions on small data with a tabular foundation model" by Noah Hollmann et al., Nature (2025). Abstract Tabular data, spreadsheets organized in rows and columns, are ubiquitous across scientific fields, from biomedicine to particle physics to economics and climate science1,2. The fundamental prediction task of filling in

Entrainment and multi-stability of the p53 oscillator in human cells – Eui Min Jeong

B232 Seminar Room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Daejeon, Korea, Republic of

In this talk, we discuss the paper, "Entrainment and multi-stability of the p53 oscillator in human cells" by Alba Jiménez et al., Cell Systems, 2024. Abstract  The tumor suppressor p53 responds to cellular stress and activates transcription programs critical for regulating cell fate. DNA damage triggers oscillations in p53 levels with a robust period. Guided by

Identifying key drivers in a stochastic dynamical system through estimation of transfer entropy between univariate and multivariate time series – Yun Min Song

B232 Seminar Room, IBS 55 Expo-ro Yuseong-gu, Daejeon, Daejeon, Korea, Republic of

In this talk, we discuss the paper "Identifying key drivers in a stochastic dynamical system through estimation of transfer entropy between univariate and multivariate time series" by Julian Lee, Physical Review E, 2025. Abstract  Transfer entropy (TE) is a widely used tool for quantifying causal relationships in stochastic dynamical systems. Traditionally, TE and its conditional

Boolean modelling as a logic-based dynamic approach in systems medicine – Kevin Spinicci

In this talk, we discuss the paper "Boolean modelling as a logic-based dynamic approach in systems medicine" by Ahmed Abdelmonem Hemedan et al., Computational and Structural biotechnology journal (2022). Abstract  Molecular mechanisms of health and disease are often represented as systems biology diagrams, and the coverage of such representation constantly increases. These static diagrams can

Simplified descriptions of stochastic oscillators – Benjamin Lindner

ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium) (pw: 1234)

Abstract Many natural systems exhibit oscillations that show sizeable fluctuations in frequency and amplitude. This variability can arise from a wide variety of physical mechanisms. Phase descriptions that work for deterministic oscillators have a limited applicability for stochastic oscillators. In my talk I review attempts to generalize the phase concept to stochastic oscillations, specifically, the

Koopman operator approach to complex rhythmic systems – Hiroya Nakao

ZOOM ID: 997 8258 4700 (Biomedical Mathematics Online Colloquium) (pw: 1234)

Abstract Spontaneous rhythmic oscillations are widely observed in real-world systems. Synchronized rhythmic oscillations often provide important functions for biological or engineered systems. One of the useful theoretical methods for analyzing rhythmic oscillations is the phase reduction theory for weakly perturbed limit-cycle oscillators, which systematically gives a low-dimensional description of the oscillatory dynamics using only the

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
Copyright © IBS 2021. All rights reserved.