Journal Club

We will discuss about "Hidden Markov models for monitoring circadian rhythmicity in telemetric activity data", Huang, Qi, Journal of The Royal Society Interface 15.139 (2018): 20170885. Abstract: Wearable computing devices …

We will discuss about "Physics-informed neural networks for PDE-constrained optimization and control", Barry-Straume, Jostein, et al., arXiv preprint arXiv:2205.03377 (2022). Abstract: A fundamental problem of science is designing optimal control …

We will discuss about "Cell clustering for spatial transcriptomics data with graph neural networks", Li, J., Chen, S., Pan, X. et al., Nat Comput Sci 2, 399–408 (2022) Abstract: Spatial transcriptomics …

We will discuss about "Absolute concentration robustness in networks with low-dimensional stoichiometric subspace", Meshkat, Nicolette, Anne Shiu, and Angelica Torres., Vietnam Journal of Mathematics 50.3 (2022): 623-651. Abstract: A reaction …

We will discuss about "Rhythmicity is linked to expression cost at the protein level but to expression precision at the mRNA level", David Laloum, and Marc Robinson-Rechavi, PLoS computational biology …

We will discuss about "Inferring microenvironmental regulation of gene expression from single-cell RNA sequencing data using scMLnet with an application to COVID-19", Cheng, Jinyu, et al., Briefings in bioinformatics 22.2 …

We will discuss about "Model Reduction for the Chemical Master Equation: an Information-Theoretic Approach", Öcal, Kaan, Guido Sanguinetti, and Ramon Grima., arXiv preprint arXiv:2210.05329 (2022). Abstract: The complexity of mathematical models …

We will discuss about “PI-VAE: Physics-Informed Variational Auto-Encoder for stochastic differential equations”, Zhong, Weiheng, and Hadi Meidani, Computer Methods in Applied Mechanics and Engineering 403 (2023): 115664. Abstract We propose …

We will discuss about “Detecting critical state before phase transition of complex biological systems by hidden Markov model”, Chen, Pei, et al. Bioinformatics 32.14 (2016): 2143-2150.   Abstract Motivation: Identifying …

We will discuss about “Multiparameter persistent homology landscapes identify immune cell spatial patterns in tumors”, Vipond, Oliver, et al, Proceedings of the National Academy of Sciences 118.41 (2021): e2102166118. Abstract …

We will discuss about "Role of DNA binding sites and slow unbinding kinetics in titration-based oscillators”, Karapetyan, Sargis, and Nicolas E. Buchler,Physical Review E 92.6 (2015): 062712. Abstract Genetic oscillators, …

We will discuss about “Optimal control of aging in complex networks”, Sun, Eric D., Thomas CT Michaels, and L. Mahadevan, Proceedings of the National Academy of Sciences 117.34 (2020): 20404-20410. Abstract …