A cell atlas foundation model for scalable search of similar human cells – Kevin Spinicci

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

In this talk, we discuss the paper "A cell atlas foundation model for scalable search of similar human cells" by Graham Heimberg et.al., Nature, 2024 at the Journal Club. Abstract Single-cell RNA sequencing has profiled hundreds of millions of human cells across organs, diseases, development and perturbations to date. Mining these growing atlases could reveal

Method for cycle detection in sparse, irregularly sampled, long-term neuro-behavioral timeseries – Brenda Gavina

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

In this talk, we discuss the paper "Method for cycle detection in sparse, irregularly sampled, long-term neuro-behavioral timeseries: Basis pursuit denoising with polynomial detrending of long-term, inter-ictal epileptiform activity" by Irena Balzekas et.al., Plos Com., 2024. Abstract Numerous physiological processes are cyclical, but sampling these processes densely enough to perform frequency decomposition and subsequent analyses

Constraining nonlinear time series modeling with the metabolic theory of ecology – Olive Cawiding

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

In this talk, we discuss the paper "Constraining nonlinear time series modeling with the metabolic theory of ecology" by S.B. Munch et.al., PNAS, 2023. Abstract Forecasting the response of ecological systems to environmental change is a critical challenge for sustainable management. The metabolic theory of ecology (MTE) posits scaling of biological rates with temperature, but

Quantifying information accumulation encoded in the dynamics of biochemical signaling – Kang Min Lee

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

In this talk, we discuss the paper "Quantifying information accumulation encoded in the dynamics of biochemical signaling" by Y. Tang, et.al, Nature Communications, 2021. Abstract Cellular responses to environmental changes are encoded in the complex temporal patterns of signaling proteins. However, quantifying the accumulation of information over time to direct cellular decision-making remains an unsolved

The Large Language Models on Biomedical Data Analysis: A Survey – Myna Lim

In this talk, we discuss the paper "The Large Language Models on Biomedical Data Analysis: A Survey" by Wei Lan et.al, IEEE J. Biomedical and Health Informatics, 2025, at the Journal Club. Abstract  With the rapid development of Large Language Model (LLM) technology, it has become an indispensable force in biomedical data analysis research. However,

COVID-19 and Challenges to the Classical Theory of Epidemics – Simon Levin

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

Abstract The standard theory of infectious diseases, tracing back to the work of Kermack and McKendrick nearly a century ago, has been a triumph of mathematical biology, a rare marriage of theory and application. Yet the limitations of its most simple representations, which has always been known, have been laid bare in dealing with COVID-19,

A biological model of nonlinear dimensionality reduction – Shingo Gibo

In this talk, we discuss the paper "A biological model of nonlinear dimensionality reduction" by K. Yoshida and T. Toyoizumi, Science Advances, 2025, at the Journal Club. Abstract Obtaining appropriate low-dimensional representations from high-dimensional sensory inputs in an unsupervised manner is essential for straightforward downstream processing. Although nonlinear dimensionality reduction methods such as t-distributed stochastic neighbor

Disrupting Heathcare Using Deep Data and Remote Monitoring – Michael Snyder

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

Abstract Our present healthcare system focuses on treating people when they are ill rather than keeping them healthy. We have been using big data and remote monitoring approaches to monitor people while they are healthy to keep them that way and detect disease at its earliest moment presymptomatically. We use advanced multiomics technologies (genomics, immunomics,

Designing microplastic-binding peptides with a variational quantum circuit–based hybrid quantum-classical approach – Gyuyoung Hwang

In this talk, we discuss the paper "Designing microplastic-binding peptides with a variational quantum circuit–based hybrid quantum-classical approach" by R.C. Vendrell et.al., Sci. Adv. 2024 at the Journal Club. Abstract De novo peptide design exhibits great potential in materials engineering, particularly for the use of plastic-binding peptides to help remediate microplastic pollution. There are no

Dynamics and Decision Making in Single Cells – Galit Lahav

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

Abstract Individual human cancer cells often show different responses to the same treatment. In this talk I will share the quantitative experimental approaches my lab has developed for studying the fate and behavior of human cells at the single-cell level. I will focus on the tumor suppressor protein p53, a transcription factor controlling genomic integrity

Frequency-Dependent Covariance Reveals Critical Spatiotemporal Patterns of Synchronized Activity in the Human Brain – Hyun Kim

In this talk, we discuss the paper "Frequency-Dependent Covariance Reveals Critical Spatiotemporal Patterns of Synchronized Activity in the Human Brain" by Rubén Calvo et al., Physical Review Letters 2024, at the Journal Club. Abstract Recent analyses, leveraging advanced theoretical techniques and high-quality data from thousands of simultaneously recorded neurons across regions in the brain, compellingly

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IBS Biomedical Mathematics Group (BIMAG)
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