Topic · Molecular Biology · Biochemistry, Genetics and Molecular Biology
OpenAlex topic; a paper is listed when OpenAlex scores it at least 0.5 for this topic.
4 papers
Ron Teichner, Ron Meir, Naama Brenner
Likelihood comparison on six E. coli mother-machine datasets finds sizer, adder, and log-foldchange division rules only weakly separable, while a neural conditional cycle-duration model fits best.
bioRxiv · Sep 9, 2026 · PreprintCell Biology✦ In-depth digest
Xiaoqing Huang, Andersen Man Shun Ang, Aatman Pushkarkumar Vasoya, Kun Huang, Teresa M. Przytycka, Yijie Wang
Fitting a linear ODE with an equilibrium term via its matrix-exponential solution, not finite differences, raises TF-network AUROC over competing methods on simulated and scRNA-seq data.
bioRxiv · May 20, 2026 · PreprintSystems Biology✦ In-depth digest
Zane R. Thornburg, Andrew K. Maytin, Jiwoong Kwon, Troy A. Brier, Benjamin R. Gilbert, Enguang Fu, Yang-le Gao, Jordan Quenneville, Tianyu Wu, Henry Li, Talia Long, Weria Pezeshkian, Lijie Sun, DANIELA MATIAS DE CARVALHO BITTENCOURT, John I. Glass, , Zaida Ann Luthey-Schulten
A hybrid 4D whole-cell simulation of the minimal bacterium JCVI-syn3A integrates spatial reaction-diffusion, metabolism, polymer chromosome dynamics, and division across a complete 105-minute cell cycle.
Cell · Mar 9, 2026Peer-reviewedBiophysics✦ In-depth digest
Sophia Müller‐Dott, Eirini Tsirvouli, Miguél Vázquez, Ricardo O. Ramirez Flores, Pau Badia-i-Mompel, Robin Fallegger, Dénes Türei, Astrid Lægreid, Julio Sáez-Rodríguez
CollecTRI-derived signed regulons, spanning 1,183 transcription factors (TFs) and 45,856 TF-gene links, outperform DoRothEA, ChEA3, RegNetwork and Pathway Commons at identifying perturbed TFs in KnockTF data.
Nucleic Acids Research · Sep 22, 2023Peer-reviewedBioinformatics✦ In-depth digest