2023
Genomic data resources of the Brain Somatic Mosaicism Network for neuropsychiatric diseases
Garrison M, Jang Y, Bae T, Cherskov A, Emery S, Fasching L, Jones A, Moldovan J, Molitor C, Pochareddy S, Peters M, Shin J, Wang Y, Yang X, Akbarian S, Chess A, Gage F, Gleeson J, Kidd J, McConnell M, Mills R, Moran J, Park P, Sestan N, Urban A, Vaccarino F, Walsh C, Weinberger D, Wheelan S, Abyzov A. Genomic data resources of the Brain Somatic Mosaicism Network for neuropsychiatric diseases. Scientific Data 2023, 10: 813. PMID: 37985666, PMCID: PMC10662356, DOI: 10.1038/s41597-023-02645-7.Peer-Reviewed Original ResearchLysine Demethylation in Pathogenesis
Cao J, Yan Q. Lysine Demethylation in Pathogenesis. Advances In Experimental Medicine And Biology 2023, 1433: 1-14. PMID: 37751133, DOI: 10.1007/978-3-031-38176-8_1.ChaptersConceptsLysine demethylasesLSD1/KDM1AHistone lysine methylationHistone lysine methyltransferasesMajor epigenetic mechanismsNormal developmentNon-histone substratesSpecific small molecule inhibitorsSmall molecule inhibitorsLysine methylationLysine methyltransferasesHistone methylationHistone lysineLysine demethylationEpigenetic mechanismsDNA repairArginine residuesHuman diseasesMore subfamiliesMolecule inhibitorsLysine modificationDemethylasesMethylationTreatment of cancerEnzymeHigh-resolution visualization of pial surface vessels by flattened whole mount staining
Xu Y, Zhang J, Lee H, Zhang G, Bai Y, Simons M. High-resolution visualization of pial surface vessels by flattened whole mount staining. IScience 2023, 26: 106467. PMID: 37020957, PMCID: PMC10067958, DOI: 10.1016/j.isci.2023.106467.Peer-Reviewed Original ResearchBlood vesselsCerebral vasculatureWhole cerebral cortexCerebral blood vesselsParticular blood vesselCentral nervous system researchCLARITY technologyCerebral cortexStroke settingsCerebral vesselsWhole-mount techniqueDisease settingsEndothelial proliferationNervous system researchPostnatal developmentTherapeutic developmentWhole-mount stainingVasculatureVesselsMount stainingMount techniqueConfocal imagingNormal developmentHigh-resolution visualizationImaging
2022
Live imaging and conditional disruption of native PCP activity using endogenously tagged zebrafish sfGFP-Vangl2
Jussila M, Boswell C, Griffiths N, Pumputis P, Ciruna B. Live imaging and conditional disruption of native PCP activity using endogenously tagged zebrafish sfGFP-Vangl2. Nature Communications 2022, 13: 5598. PMID: 36151137, PMCID: PMC9508082, DOI: 10.1038/s41467-022-33322-9.Peer-Reviewed Original ResearchConceptsPlanar cell polarityVertebrate planar cell polarityTissue-specific functionsNon-canonical Wnt/planar cell polarityWnt/planar cell polarityCore PCP componentsLoss of vangl2Polarity proteinsCell polarityPCP componentsMembrane localizationCytoskeletal organizationGenome editingPowerful experimental paradigmCRISPR/Live imagingDynamic regulationCell lineagesAuthentic regulationPCP activityVangl2Fluorescent reportersEpendymal cell ciliaCell behaviorNormal developmentNew insights into the role of dipeptidyl peptidase 8 and dipeptidyl peptidase 9 and their inhibitors
Cui C, Tian X, Wei L, Wang Y, Wang K, Fu R. New insights into the role of dipeptidyl peptidase 8 and dipeptidyl peptidase 9 and their inhibitors. Frontiers In Pharmacology 2022, 13: 1002871. PMID: 36172198, PMCID: PMC9510841, DOI: 10.3389/fphar.2022.1002871.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsDipeptidyl peptidase 8Peptidase 8Dipeptidyl peptidase 9Serine proteolytic enzymesBiological processesNew potential targetsPhysiological functionsSpecific substratesCell behaviorNormal developmentEnergy metabolismEssential roleChronic kidney diseaseN-terminal dipeptidePenultimate positionPotential targetOrgan fibrosisPathological rolePathological processesNew insightsTreatment of tumorsProteolytic enzymesRecent research advancesKidney diseaseCell pyroptosisHorvitz, H. Robert
Koelle M. Horvitz, H. Robert. 2022 DOI: 10.1016/b978-0-12-822563-9.00005-6.ChaptersModel organism Caenorhabditis elegansForward genetic analysisOrganism Caenorhabditis elegansCaenorhabditis elegansGenetic analysisCell lineagesCell deathNormal developmentBiological researchHorvitzDisease statesAmyotrophic lateral sclerosisElegansLineagesLateral sclerosisGeneticsPhysiologyNobel PrizeCells
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
Novel insights into ferroptosis: Implications for age-related diseases
Zhou R, Chen Y, Wei X, Yu B, Xiong Z, Lu C, Hu W. Novel insights into ferroptosis: Implications for age-related diseases. Theranostics 2020, 10: 11976-11997. PMID: 33204324, PMCID: PMC7667696, DOI: 10.7150/thno.50663.Peer-Reviewed Original ResearchConceptsAge-related diseasesInhibition of ferroptosisNew treatment strategiesMolecular signaling pathwaysOrgan failureIron-dependent cell deathCardiovascular diseaseTreatment strategiesTherapeutic targetProgressive deteriorationEffective interventionsDiseaseOlder adultsHealthcare systemFerroptosisSignaling pathwaysCell deathNormal developmentIndirect involvementTissueUrgent needNovel insightsRegulatory mechanismsPathogenesis
2019
Genetics and functions of the retinoic acid pathway, with special emphasis on the eye
Thompson B, Katsanis N, Apostolopoulos N, Thompson DC, Nebert DW, Vasiliou V. Genetics and functions of the retinoic acid pathway, with special emphasis on the eye. Human Genomics 2019, 13: 61. PMID: 31796115, PMCID: PMC6892198, DOI: 10.1186/s40246-019-0248-9.Peer-Reviewed Original ResearchConceptsRequirement of RAEmbryonic developmentRetinoic acidAnterior segment formationRetinoic acid pathwayRas signalingPotent morphogenEye developmentOptic cup formationPostnatal lethalitySegment formationAcid pathwayCup formationNormal developmentOptic vesicleMultistep processParacrine fashionPathwayRecent advancesMorphogensGenesGeneticsMutationsVesiclesLethalityPhysiology of the Arterial Wall
Liu S, Dardik A. Physiology of the Arterial Wall. DeckerMed Vascular And Endovascular Surgery 2019 DOI: 10.2310/vasc.3001.Chapters
2018
Oligodendrocyte precursor survival and differentiation requires chromatin remodeling by Chd7 and Chd8
Marie C, Clavairoly A, Frah M, Hmidan H, Yan J, Zhao C, Van Steenwinckel J, Daveau R, Zalc B, Hassan B, Thomas JL, Gressens P, Ravassard P, Moszer I, Martin DM, Lu QR, Parras C. Oligodendrocyte precursor survival and differentiation requires chromatin remodeling by Chd7 and Chd8. Proceedings Of The National Academy Of Sciences Of The United States Of America 2018, 115: e8246-e8255. PMID: 30108144, PMCID: PMC6126750, DOI: 10.1073/pnas.1802620115.Peer-Reviewed Original ResearchConceptsChromatin remodelersProliferation-differentiation balanceNormal developmentChromatin accessibility analysisOligodendrocyte precursor cellsChromatin closingChromatin remodelingChromatin openingTranscriptional repressionGenetic interactionsUncharacterized functionGenetic reprogrammingRisk-associated genesTranscriptional activationKey regulatorNeurodevelopmental defectsPrecursor survivalLineage cellsCHD7RemodelersOligodendrocyte lineage cellsPrecursor cellsGlioma formationBinding profileCHD8Role of alternative splicing in hematopoietic stem cells during development
Gao Y, Vasic R, Halene S. Role of alternative splicing in hematopoietic stem cells during development. Stem Cell Investigation 2018, 5: 26-26. PMID: 30221171, PMCID: PMC6131231, DOI: 10.21037/sci.2018.08.02.Commentaries, Editorials and LettersAlternative splicingSingle genomic locusRNA nuclear exportSplicing of mRNAGenomic lociMature proteinHematopoietic stem cellsNuclear exportSplicing isoformsTranscript stabilityAlternative isoformsTranscript levelsSplicingNormal developmentStem cellsSequencing modalitiesIsoformsTranscriptomeProteomeLociProteinDiversityMRNACellsExport
2017
Using In Vivo and Tissue and Cell Explant Approaches to Study the Morphogenesis and Pathogenesis of the Embryonic and Perinatal Aorta.
Misra A, Feng Z, Zhang J, Lou ZY, Greif DM. Using In Vivo and Tissue and Cell Explant Approaches to Study the Morphogenesis and Pathogenesis of the Embryonic and Perinatal Aorta. Journal Of Visualized Experiments 2017 PMID: 28930997, PMCID: PMC5752224, DOI: 10.3791/56039.Peer-Reviewed Original ResearchConceptsSmooth muscle cellsAortic smooth muscle cellsPregnant micePharmacological agentsAortic wallAortaLarge arteriesAdult aortaMuscle cellsEndothelial cellsPathological modelsHypothesis-generating experimentsContinuous exposureCell explantsTissue explantsPathogenesisFate mappingSpecific gene targetsClonal analysisNormal developmentVivoGene targetsExtracellular matrixClonal architectureCells
2016
Abelson kinase acts as a robust, multifunctional scaffold in regulating embryonic morphogenesis
Rogers EM, Spracklen AJ, Bilancia CG, Sumigray KD, Allred SC, Nowotarski SH, Schaefer KN, Ritchie BJ, Peifer M. Abelson kinase acts as a robust, multifunctional scaffold in regulating embryonic morphogenesis. Molecular Biology Of The Cell 2016, 27: 2613-2631. PMID: 27385341, PMCID: PMC4985262, DOI: 10.1091/mbc.e16-05-0292.Peer-Reviewed Original ResearchConceptsF-actin-binding domainCell biological rolesCell shape changesDifferent protein motifsSeries of mutantsTyrosine kinase domainAbl functionActin regulationDrosophila morphogenesisEmbryonic morphogenesisProtein motifsAbelson familyPXXP motifInteraction domainKinase domainAbelson kinaseLinker regionKey regulatorAbl SH3Biological roleCellular behaviorMorphogenesisCell behaviorNormal developmentSH3
2015
Choosing Cell Fate Through a Dynamic Cell Cycle
Chen X, Hartman A, Guo S. Choosing Cell Fate Through a Dynamic Cell Cycle. Current Stem Cell Reports 2015, 1: 129-138. PMID: 28725536, PMCID: PMC5487535, DOI: 10.1007/s40778-015-0018-0.Peer-Reviewed Original ResearchCell fate changesCell fateCell cycle dynamicsFate changesSomatic cellsDifferentiated somatic cell typesCell cycleCell fate specificationCell fate determinationInduction of pluripotencyTranscription factor concentrationsSomatic cell typesFate specificationFate determinationCell cycle accelerationCycle dynamicsTissue homeostasisDevelopmental systemsYamanaka factorsCell typesNormal developmentPluripotencyRecent discoveryReprogrammingFateLearning and Memory
Levitan I, Kaczmarek L. Learning and Memory. 2015, 489-528. DOI: 10.1093/med/9780199773893.003.0019.ChaptersSimple nervous systemLong-term depressionLong-term potentiationMolecular mechanismsEnormous diversityNormal developmentCellular mechanismsNervous systemPresynaptic terminalsMost nervous systemsCyclic AMPSynaptic scalingPathwayMemory formationPlasticityPostsynaptic receptorsSynaptic taggingSynaptic connectionsLong-term phaseReduced preparationsDiversitySpike-timing dependent plasticityMechanismSynapseReceptors
2014
Receptor Tyrosine Kinases: Legacy of the First Two Decades
Schlessinger J. Receptor Tyrosine Kinases: Legacy of the First Two Decades. Cold Spring Harbor Perspectives In Biology 2014, 6: a008912. PMID: 24591517, PMCID: PMC3949355, DOI: 10.1101/cshperspect.a008912.Peer-Reviewed Original ResearchHematology in Clinical Pathology
Torres R, Tormey C, Smith B. Hematology in Clinical Pathology. 2014, 3269-3286. DOI: 10.1016/b978-0-12-386456-7.06305-x.ChaptersRed blood cellsCoagulation factorsFunction of RBCsHematologic diagnosisUnderlying pathophysiologyCongenital/Hematologic diseasesLaboratory modalitiesClinical pathologyDiverse medical disciplinesBlood disordersLaboratory assaysBlood cellsDisordersPrimary aimMedical disciplinesDiagnosisHematologyNormal developmentAssaysNormal processCellular morphologyPathophysiologyWBCLeukocytes
2013
Neurogenesis and Maturation in Neonatal Brain Injury
Salmaso N, Tomasi S, Vaccarino FM. Neurogenesis and Maturation in Neonatal Brain Injury. Clinics In Perinatology 2013, 41: 229-239. PMID: 24524457, PMCID: PMC3925307, DOI: 10.1016/j.clp.2013.10.007.ChaptersConceptsChronic perinatal hypoxiaConsequences of prematurityNeonatal brain injurySevere neurologic deficitsAttention deficit hyperactivityPerinatal hypoxiaNeurologic deficitsPreterm birthPremature birthBrain injuryAnimal modelsCognitive impairmentNeuropsychiatric conditionsMost childrenCognitive delayPartial recoveryIncidenceEnvironmental enrichmentAutism spectrum disorderBirthSpectrum disorderNormal developmentPrematurityA Chimeric RNA Characteristic of Rhabdomyosarcoma in Normal Myogenesis Process
Yuan H, Qin F, Movassagh M, Park H, Golden W, Xie Z, Zhang P, Sklar J, Li H. A Chimeric RNA Characteristic of Rhabdomyosarcoma in Normal Myogenesis Process. Cancer Discovery 2013, 3: 1394-1403. PMID: 24089019, DOI: 10.1158/2159-8290.cd-13-0186.Peer-Reviewed Original ResearchMeSH KeywordsCell DifferentiationCell LineForkhead Box Protein O1Forkhead Transcription FactorsGene Expression Regulation, DevelopmentalGene FusionHumansMesenchymal Stem CellsMuscle DevelopmentMusclesMyoD ProteinMyogeninOncogene Proteins, FusionPaired Box Transcription FactorsPAX3 Transcription FactorRhabdomyosarcoma, AlveolarTranslocation, GeneticConceptsPAX3-FOXO1Chimeric RNAsChromosomal translocationsMuscle differentiation processChimeric fusion RNAsChimeric gene productsNormal cellsNormal non-cancer cellsPluripotent cellsNormal fetal muscleNon-cancer cellsGene productsChromosomal rearrangementsPosttranscriptional mechanismsDevelopmental roleFusion RNAGene fusionsDifferentiation processRNA characteristicsSame lineageMyogenesis processChimeric productsNormal developmentRhabdomyosarcoma cellsRNA
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