26 June 2023. Congratulations to Dr. Kshitiz and Dr. Afzal from UCSF that published Research Highlights in Nature on “CRISPRing the hypertrophic cardiomyopathy: correcting one pathogenic variant at a time”, https://www.nature.com/articles/s41392-023-01526-0
News
Dr. Agmon’s pioneering paper on antibiotic resistance in E. coli
06-16-2023. Dr. Eran Agmon has published a pioneering paper that explores antibiotic resistance in E. coli by implementing a multiscale whole-cell model. Developed with Dr. Agmon‘s model integration software, Vivarium, the study encompasses single-cell dynamics and population-level heterogeneity to provide a mechanistic understanding of antibiotic resistance, furthering the fight against the rise of multidrug-resistant bacterial strains.
Skalnik, C. J., Cheah, S. Y., Yang, M. Y., Wolff, M. B., Spangler, R. K., … Agmon, E., & Covert, M. W. (2023). Whole-cell modeling of E. coli colonies enables quantification of single-cell heterogeneity in antibiotic responses. PLOS Computational Biology, 19(6), e1011232.
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1011232
Blinov & Loew publish new methods to analyze molecular clusters
06-01-2023. Drs. Michael Blinov and Leslie Loew together with a former student Aniruddha Chattaraj (currently a PostDoc at Harvard) published a paper introducing a novel software, MolClustPy, to characterize and visualize the distribution of cluster sizes, molecular composition, and bonds across biomolecular clusters.
Chattaraj, A., Nalagandla, I., Loew, L. M., & Blinov, M. L. (2023). MolClustPy: a Python package to characterize multivalent biomolecular clusters. Bioinformatics, 39(6), btad385.
https://academic.oup.com/bioinformatics/article/39/6/btad385/7199581
Dr. Vera-Licona giving an invited talk on Model Checking in Marseille, France
Dr. Vera-Licona will be giving an invited talk on Model Checking during the thematic workshop on networks and biological model inference in the context of the CNRS Bioss working group on symbolic systems biology (https://www.bioss-cnrs.fr). The aim is to gather people working on this topic to present recent results and discuss challenges and perspectives. The workshop will take place on July 3-4 2023 at CIRM in Marseille, France
Drs. Blinov, Moraru and Kuchel publish a research on aging
05-04-2023. The interdisciplinary team consisting of CCAM modelers Drs. Blinov and Moraru and researchers from the Center on Aging Drs. Kuchel and Kositsawat, together with former undergrad students Schaumburger and Pally published a manuscript theoretically explaining the bistability of clinical outcomes: the likelihood of an individual remaining mobile over time either increases to almost 100% or decreases to almost zero
Schaumburger, N., Pally, J., Moraru, I. I., Kositsawat, J., Kuchel, G. A., & Blinov, M. L. (2023). Dynamic model assuming mutually inhibitory biomarkers of frailty suggests bistability with contrasting mobility phenotypes. Frontiers in Network Physiology, 3, 1079070.
https://www.frontiersin.org/articles/10.3389/fnetp.2023.1079070/full