기초과학연구원 의생명수학그룹
We will discuss about "Fundamental limits on the suppression of molecular fluctuations", Lestas et al, Nature, 2010 Abstract: Negative feedback is common in biological processes and can increase a system’s stability to internal and external perturbations. But at the molecular level, control loops always involve signalling steps with finite rates for random births and deaths …
We will discuss about "Quasi-Entropy Closure: A Fast and Reliable Approach to Close the Moment Equations of the Chemical Master Equation", Wagner et al, bioRxiv, 2021 Motivation: The Chemical Master Equation is the most comprehensive stochastic approach to describe the evolution of a (bio-)chemical reaction system. Its solution is a time-dependent probability distribution on all …
본 발표에서는 다양한 기초 생명-의학 분야에서 생성되고 있는 오믹스 자료의 연구 개발 현황에 대해서 다룰 예정이다. 보다 큰 규모로, 보다 빠르게, 보다 정확하게, 보다 정밀하게 라는 궁극적인 목표하에 이뤄지고 있는 오믹스 자료의 진화에 발맞춰, 이를 분석하는 수리통계적 모형 역시 진화하고 있다. 그 중, 이번 발표에서는 미국의 초 대형 정밀의료 프로젝트인 TopMed에서 진행하고 있는 COPD에 관한 …
We will discuss about "Network design principle for robust oscillatory behaviors with respect to biological noise", Qiao et al, bioRxiv, 2021 Oscillatory behaviors, which are ubiquitous in transcriptional regulatory networks, are often subject to inevitable biological noise. Thus a natural question is how transcriptional regulatory networks can robustly achieve accurate oscillation in the presence of …
Abstract: Variable selection is an approach to identifying a set of covariates that are truly important to explain the feature of a response variable. It is closely connected or belongs to model selection approaches. This talk provides a gentle introduction to Bayesian variable selection methods. The basic notion of variable selection is introduced, followed by several Bayesian approaches with a simple application example.
We will discuss about "Mechanisms for the generation of robust circadian oscillations through ultrasensitivity and differential binding affinity", Behera, Junco, and Vaikuntanathan, The Journal of Physical Chemistry B, 2021 Biochemical circadian rhythm oscillations play an important role in many signaling mechanisms. In this work, we explore some of the biophysical mechanisms responsible for sustaining robust …
Abstract: TBA
Abstract: TBA
We will discuss about "Phiclust: a clusterability measure for single-cell transcriptomics reveals phenotypic subpopulations", Mircea et al., 2022, Genome Biology The ability to discover new cell phenotypes by unsupervised clustering of single-cell transcriptomes has revolutionized biology. Currently, there is no principled way to decide whether a cluster of cells contains meaningful subpopulations that should be …
We will discuss about "A Deficiency-Based Approach to Parametrizing Positive Equilibria of Biochemical Reaction Systems", Johnston, Müller, and Pantea, Bulletin of Mathematical Biology, 2019 We present conditions which guarantee a parametrization of the set of positive equilibria of a generalized mass-action system. Our main results state that (1) if the underlying generalized chemical reaction network …
This talk will be presented online. Zoom link: 997 8258 4700 (pw: 1234) Abstract: Cells make fate decisions in response to dynamic environments and multicellular structure emerges from interplays among cells in space and time. The recent single-cell genomics technology provides an unprecedented opportunity to profile cells. However, those measurements are taken as snapshots for …
We will discuss about "Modeling polypharmacy side effects with graph convolutional networks", Zitnik, Agrawal, and Leskovec, Bioinformatics, 2018 Motivation The use of drug combinations, termed polypharmacy, is common to treat patients with complex diseases or co-existing conditions. However, a major consequence of polypharmacy is a much higher risk of adverse side effects for the patient. …