Cell cycle controls long-range calcium signaling in the regenerating epidermis
Moore J, Bhaskar D, Gao F, Matte-Martone C, Du S, Lathrop E, Ganesan S, Shao L, Norris R, Sanz N, Annusver K, Kasper M, Cox A, Hendry C, Rieck B, Krishnaswamy S, Greco V. Cell cycle controls long-range calcium signaling in the regenerating epidermis. Journal Of Cell Biology 2023, 222: e202302095. PMID: 37102999, PMCID: PMC10140546, DOI: 10.1083/jcb.202302095.Peer-Reviewed Original ResearchTopological data analysis of collective and individual epithelial cells using persistent homology of loops
Bhaskar D, Zhang W, Wong I. Topological data analysis of collective and individual epithelial cells using persistent homology of loops. Soft Matter 2021, 17: 4653-4664. PMID: 33949592, PMCID: PMC8276269, DOI: 10.1039/d1sm00072a.Peer-Reviewed Original ResearchCoupling mechanical tension and GTPase signaling to generate cell and tissue dynamics
Zmurchok C, Bhaskar D, Edelstein-Keshet L. Coupling mechanical tension and GTPase signaling to generate cell and tissue dynamics. Physical Biology 2018, 15: 046004. PMID: 29473547, DOI: 10.1088/1478-3975/aab1c0.Peer-Reviewed Original ResearchPolarization and migration in the zebrafish posterior lateral line system
Knutsdottir H, Zmurchok C, Bhaskar D, Palsson E, Nogare D, Chitnis A, Edelstein-Keshet L. Polarization and migration in the zebrafish posterior lateral line system. PLOS Computational Biology 2017, 13: e1005451. PMID: 28369079, PMCID: PMC5393887, DOI: 10.1371/journal.pcbi.1005451.Peer-Reviewed Original ResearchConceptsPosterior lateral line primordiumZebrafish posterior lateral line systemCell-cell adhesionLateral line primordiumCollective cell migrationPosterior lateral line systemCell-based simulationsMutant phenotypeZebrafish embryosCell divisionFGF ligandsLateral line systemCell migrationTrailing cellsSensory structuresObserved motilityChemotaxisCellsImportant roleCXCL12aPrimordiaAdhesionEmbryosMigrationPhenotypeTopological data analysis of spatial patterning in heterogeneous cell populations: clustering and sorting with varying cell-cell adhesion
Bhaskar D, Zhang W, Volkening A, Sandstede B, Wong I. Topological data analysis of spatial patterning in heterogeneous cell populations: clustering and sorting with varying cell-cell adhesion. Npj Systems Biology And Applications 2023, 9: 43. PMID: 37709793, PMCID: PMC10502054, DOI: 10.1038/s41540-023-00302-8.Peer-Reviewed Original ResearchConceptsTopological data analysisPersistence imagesClassification accuracyHigh classification accuracyMachine learningRobust classificationDimensionality reductionUnsupervised classificationHierarchical architectureData analysisArchitectureHierarchical clusteringImagesTopological featuresClassificationDifferent topological featuresAutoencoderAccuracyClusteringLearningSimulationsInformationRecent developments