Featured Publications
Automated time-lapse data segmentation reveals in vivo cell state dynamics
Genuth M, Kojima Y, Jülich D, Kiryu H, Holley S. Automated time-lapse data segmentation reveals in vivo cell state dynamics. Science Advances 2023, 9: eadf1814. PMID: 37267354, PMCID: PMC10413672, DOI: 10.1126/sciadv.adf1814.Peer-Reviewed Original ResearchConceptsCell statesSingle-cell RNA sequencing dataCell state dynamicsCell behaviorEmbryonic development proceedsCell state transitionsRNA sequencing dataCollective cell behaviorIndividual cell behaviorsZebrafish tailbudLeft-right asymmetryCell tracking dataCollective cell motionGene expressionSequencing dataMolecular processesIndividual embryosDevelopment proceedsEmbryosCell motionParallel identificationBilateral symmetryReproducible patternTailbudState transitions
2013
Regulated tissue fluidity steers zebrafish body elongation
Lawton AK, Nandi A, Stulberg MJ, Dray N, Sneddon MW, Pontius W, Emonet T, Holley SA. Regulated tissue fluidity steers zebrafish body elongation. Development 2013, 140: 573-582. PMID: 23293289, PMCID: PMC3561786, DOI: 10.1242/dev.090381.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsAnimals, Genetically ModifiedBiomechanical PhenomenaBody PatterningCadherinsCell AdhesionCell CountCell MovementCell PolarityComputer SimulationEmbryo, NonmammalianEmbryonic DevelopmentFibroblast Growth FactorsGene Expression Regulation, DevelopmentalModels, BiologicalTailTime FactorsWnt Signaling PathwayZebrafishZebrafish Proteins
2012
Crosstalk between Fgf and Wnt signaling in the zebrafish tailbud
Stulberg MJ, Lin A, Zhao H, Holley SA. Crosstalk between Fgf and Wnt signaling in the zebrafish tailbud. Developmental Biology 2012, 369: 298-307. PMID: 22796649, PMCID: PMC3423502, DOI: 10.1016/j.ydbio.2012.07.003.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBase SequenceDNA PrimersFibroblast Growth FactorsGene Expression Regulation, DevelopmentalGene Regulatory NetworksGlycogen Synthase Kinase 3Glycogen Synthase Kinase 3 betaMAP Kinase Signaling SystemModels, BiologicalPhosphatidylinositol 3-KinasesPhosphorylationProto-Oncogene Proteins c-aktSignal TransductionTailWnt Signaling PathwayZebrafishZebrafish ProteinsConceptsZebrafish tailbudCell fate specificationCell fate changesCo-regulated genesWnt antagonist Dkk1Reciprocal positive regulationFate specificationFate changesNascent transcriptionAxis elongationProtein phosphorylationPhosphorylation of GSK3βPI3-kinaseFGF pathwayMesodermal developmentTail elongationPositive regulationTarget genesAntagonist DKK1TailbudFibroblast growth factorWntPhosphorylation levelsTranscriptionGSK3β phosphorylation