Seminar

We will discuss about "Hard limits and performance tradeoffs in a class of antithetic integral feedback networks." Cell systems 9.1 (2019): 49-63. Abstract Feedback regulation is pervasive in biology at both the organismal and cellular level. In this article, we explore the properties of a particular biomolecular feedback mechanism called antithetic integral feedback, which can …

We will discuss about “Time delays modulate the stability of complex ecosystems” Nature Ecology & Evolution 7.10 (2023): 1610-1619. Abstract What drives the stability, or instability, of complex ecosystems? This question sits at the heart of community ecology and has motivated a large body of theoretical work exploring how community properties shape ecosystem dynamics. However, the …

We will discuss about “Pulsed stimuli entrain p53 to synchronize single cells and modulate cell-fate determination” bioRxiv (2023): 2023-10. Abstract Entrainment to an external stimulus enables a synchronized oscillatory response across a population of cells, increasing coherent responses by reducing cell-to-cell heterogeneity. It is unclear whether the property of entrainability extends to systems where responses are …

We will discuss about “MultiVI: deep generative model for the integration of multimodal data” Nature Methods 20.8 (2023): 1222-1231. Abstract Jointly profiling the transcriptome, chromatin accessibility and other molecular properties of single cells offers a powerful way to study cellular diversity. Here we present MultiVI, a probabilistic model to analyze such multiomic data and leverage …

We will discuss about “Integration of Neural Network-Based Symbolic Regression in Deep Learning for Scientific Discovery” IEEE Transactions on neural networks and learning systems 32.9 (2020): 4166-4177. Abstract Symbolic regression is a powerful technique to discover analytic equations that describe data, which can lead to explainable models and the ability to predict unseen data. In …

We will discuss about "AI Feynman: A physics-inspired method for symbolic regression",Science Advances 6.16 (2020): eaay2631. Abstract A core challenge for both physics and artificial intelligence (AI) is symbolic regression: finding a symbolic expression that matches data from an unknown function. Although this problem is likely to be NP-hard in principle, functions of practical interest …

We will discuss about "The timing of cellular events: a stochastic vs deterministic perspective", bioRxiv (2023): 2023-07.   Abstract Changes in cell state are driven by key molecular events whose timing can often be measured experimentally. Of particular interest is the time taken for the levels of RNA or protein molecules to reach a critical threshold …

We will discuss about "Linear mapping approximation of gene regulatory networks with stochastic dynamics", Nature communications 9.1 (2018): 3305.   Abstract The presence of protein–DNA binding reactions often leads to analytically intractable models of stochastic gene expression. Here we present the linear-mapping approximation that maps systems with protein–promoter interactions onto approximately equivalent systems with no binding …

We will discuss about “A trade-off in controlling upstream and downstream noise in signaling networks”, bioRxiv (2023): 2023-08.   Abstract Signal transduction, underpinning the function of a variety of biological systems, is inevitably affected by fluctuations. It remains intriguing how the timescale of a signaling network relates to its capability of noise control, specifically, whether long …