2023
Live imaging reveals chromatin compaction transitions and dynamic transcriptional bursting during stem cell differentiation in vivo
May D, Yun S, Gonzalez D, Park S, Chen Y, Lathrop E, Cai B, Xin T, Zhao H, Wang S, Gonzalez L, Cockburn K, Greco V. Live imaging reveals chromatin compaction transitions and dynamic transcriptional bursting during stem cell differentiation in vivo. ELife 2023, 12: e83444. PMID: 36880644, PMCID: PMC10027315, DOI: 10.7554/elife.83444.Peer-Reviewed Original ResearchConceptsStem cell differentiationCell differentiationStem cell compartmentCompaction changesChromatin compaction statesDynamic transcriptional statesCell compartmentChromatin architectureCell cycle statusChromatin rearrangementNascent RNATranscriptional burstingTranscriptional statesLive imagingTissue contextGene expressionDifferentiating cellsGlobal remodelingIndividual cellsCycle statusStem cellsDifferentiation statusDifferentiationCellsMorphological changes
2021
Chromatin tracing and multiplexed imaging of nucleome architectures (MINA) and RNAs in single mammalian cells and tissue
Liu M, Yang B, Hu M, Radda JSD, Chen Y, Jin S, Cheng Y, Wang S. Chromatin tracing and multiplexed imaging of nucleome architectures (MINA) and RNAs in single mammalian cells and tissue. Nature Protocols 2021, 16: 2667-2697. PMID: 33903756, PMCID: PMC9007104, DOI: 10.1038/s41596-021-00518-0.Peer-Reviewed Original ResearchConceptsSame single cellNucleome architecturesGene expressionMammalian tissuesChromatin foldingNuclear laminaSingle cellsNumerous RNA speciesDifferent biological processesSingle mammalian cellsDifferent cell typesMultiplexed imagingGenomic organizationGenomic architectureChromatin loopsGenomic regionsRNA speciesIndividual chromosomesMammalian cellsGenomic techniquesBiological processesDetailed protocolCopy numberCell typesNormal development
2020
ProbeDealer is a convenient tool for designing probes for highly multiplexed fluorescence in situ hybridization
Hu M, Yang B, Cheng Y, Radda JSD, Chen Y, Liu M, Wang S. ProbeDealer is a convenient tool for designing probes for highly multiplexed fluorescence in situ hybridization. Scientific Reports 2020, 10: 22031. PMID: 33328483, PMCID: PMC7745008, DOI: 10.1038/s41598-020-76439-x.Peer-Reviewed Original ResearchConceptsSingle-molecule RNA FISHSpecific genomic lociSitu hybridizationNucleome architecturesRNA FISHGenomic lociRNA speciesMultiplexed fluorescenceFISH techniqueFishRecent technological advancesMultiplexed imagingHybridizationMultiplexed mannerLociSpeciesFluorescencePowerful methodNotable exampleProbeProbe designTechnological advancesChromatin Tracing: Imaging 3D Genome and Nucleome
Hu M, Wang S. Chromatin Tracing: Imaging 3D Genome and Nucleome. Trends In Cell Biology 2020, 31: 5-8. PMID: 33191055, PMCID: PMC8094612, DOI: 10.1016/j.tcb.2020.10.006.Peer-Reviewed Original ResearchMultiplexed imaging of nucleome architectures in single cells of mammalian tissue
Liu M, Lu Y, Yang B, Chen Y, Radda JSD, Hu M, Katz SG, Wang S. Multiplexed imaging of nucleome architectures in single cells of mammalian tissue. Nature Communications 2020, 11: 2907. PMID: 32518300, PMCID: PMC7283333, DOI: 10.1038/s41467-020-16732-5.Peer-Reviewed Original ResearchConceptsNucleome architecturesChromatin organizationMammalian tissuesNumerous RNA speciesNumerous genomic regionsSpecific chromatin architectureSurface of chromosomesSingle cellsDifferent cell typesMouse fetal liverChromatin architectureMultiplexed imagingChromatin loopsChromatin foldingGenomic functionsNuclear laminaGenomic regionsRNA speciesMultiple genomesGene expressionCopy numberCell typesDe novoGenomeSame cellsLamina-Dependent Stretching and Unconventional Chromosome Compartments in Early C. elegans Embryos
Sawh AN, Shafer MER, Su JH, Zhuang X, Wang S, Mango SE. Lamina-Dependent Stretching and Unconventional Chromosome Compartments in Early C. elegans Embryos. Molecular Cell 2020, 78: 96-111.e6. PMID: 32105612, PMCID: PMC7263362, DOI: 10.1016/j.molcel.2020.02.006.Peer-Reviewed Original ResearchConceptsB compartmentsEmbryonic chromosomesChromosome compartmentsInactive compartmentsChromosome domainsNuclear laminaEntire autosomesChromosomesCompartment boundariesUnappreciated roleDiverse conformationsDevelopmental contextChromosome stretchingCompartmentsConformationAutosomesChromatinGastrulationEmbryogenesisVariable positioningLaminaEmbryos
2016
Super-resolution imaging reveals distinct chromatin folding for different epigenetic states
Boettiger AN, Bintu B, Moffitt JR, Wang S, Beliveau BJ, Fudenberg G, Imakaev M, Mirny LA, Wu CT, Zhuang X. Super-resolution imaging reveals distinct chromatin folding for different epigenetic states. Nature 2016, 529: 418-422. PMID: 26760202, PMCID: PMC4905822, DOI: 10.1038/nature16496.Peer-Reviewed Original Research
2014
Characterization and development of photoactivatable fluorescent proteins for single-molecule–based superresolution imaging
Wang S, Moffitt JR, Dempsey GT, Xie XS, Zhuang X. Characterization and development of photoactivatable fluorescent proteins for single-molecule–based superresolution imaging. Proceedings Of The National Academy Of Sciences Of The United States Of America 2014, 111: 8452-8457. PMID: 24912163, PMCID: PMC4060684, DOI: 10.1073/pnas.1406593111.Peer-Reviewed Original ResearchAnimalsBacterial ProteinsBlotting, WesternCell Line, TumorChlorocebus aethiopsCOS CellsDNA-Binding ProteinsEscherichia coli ProteinsHumansLuminescent ProteinsMicroscopy, FluorescencePhotonsProtein MultimerizationReceptors, Cell SurfaceRecombinant Fusion ProteinsSpectrometry, FluorescenceVimentinZyxin