2024
Neuroinflammatory Stress Exerts Distinct Proteomic Effects on Soma, Synapses and Mitochondria in Excitatory Neurons
Espinosa‐Garcia C, Srivastava U, Kumar P, Tobin B, Xiao H, Cheng L, Bagchi P, Duong D, Seyfried N, Faundez V, Wood L, Rangaraju S. Neuroinflammatory Stress Exerts Distinct Proteomic Effects on Soma, Synapses and Mitochondria in Excitatory Neurons. Alzheimer's & Dementia 2024, 20: e090723. PMCID: PMC11710382, DOI: 10.1002/alz.090723.Peer-Reviewed Original ResearchProteomic effectsLabel-free quantitative mass spectrometryCytoskeleton-related proteinsAlzheimer's disease pathogenesisProteome in vivoIncreased aerobic respirationCellular signaling pathwaysQuantitative mass spectrometryDisease pathogenesisCytoskeleton organizationSubcellular compartmentsOxidoreductase activitySynaptic vesiclesProteomic approachAerobic respirationBiological pathwaysNeuroinflammatory stressSignaling pathwaySynapse-related proteinsMAPK signalingMetabolic processesDifferential centrifugationMitochondriaSomatodendritic compartmentRegulating activity
2023
Differential regulation of hair cell actin cytoskeleton mediated by SRF and MRTFB
Zhou L, Jin C, Wang W, Song L, Shin J, Du T, Wu H. Differential regulation of hair cell actin cytoskeleton mediated by SRF and MRTFB. ELife 2023, 12: e90155. PMID: 37982489, PMCID: PMC10703445, DOI: 10.7554/elife.90155.Peer-Reviewed Original ResearchConceptsActin cytoskeletonRegulation of actin cytoskeletonMRTF-SRF pathwayModulating actin dynamicsCell actin cytoskeletonCuticular plateActin cytoskeleton organizationActin cytoskeleton activityTranscriptional regulation mechanismRNA-seq analysisF-actin intensityHair cell developmentProfiles of genesActin dynamicsCytoskeleton organizationTranscriptional regulationF-actinCalponin 2Cytoskeleton activityHair bundle morphologyTranscriptome analysisDifferential regulationCell developmentCell-specific deletionCytoskeleton
2022
Dysregulation of TSP2-Rac1-WAVE2 axis in diabetic cells leads to cytoskeletal disorganization, increased cell stiffness, and dysfunction
Xing H, Huang Y, Kunkemoeller B, Dahl P, Muraleetharan O, Malvankar N, Murrell M, Kyriakides T. Dysregulation of TSP2-Rac1-WAVE2 axis in diabetic cells leads to cytoskeletal disorganization, increased cell stiffness, and dysfunction. Scientific Reports 2022, 12: 22474. PMID: 36577792, PMCID: PMC9797577, DOI: 10.1038/s41598-022-26337-1.Peer-Reviewed Original ResearchConceptsCell-derived matricesCell stiffnessFamily verprolin-homologous protein 2Active Rac1Thrombospondin-2Homologous protein 2Less traction forceCytoskeleton organizationExtracellular matrix productionMajor cell populationF-actinCytoskeletal disorganizationRegulatory roleProtein 2Matrix productionCritical functionsECM productionArt microscopy techniquesNew functionsCell populationsSpindle-like shapeRac1Normal fibroblastsFibroblastsWound spacePlacental macrophage responses to viral and bacterial ligands and the influence of fetal sex
Pantazi P, Kaforou M, Tang Z, Abrahams V, McArdle A, Guller S, Holder B. Placental macrophage responses to viral and bacterial ligands and the influence of fetal sex. IScience 2022, 25: 105653. PMID: 36505933, PMCID: PMC9732417, DOI: 10.1016/j.isci.2022.105653.Peer-Reviewed Original ResearchPathogen-associated molecular patternsViral pathogen-associated molecular patternsHofbauer cellsFetal sexMajor histocompatibility complex class IAdverse pregnancy outcomesHistocompatibility complex class IToll-like receptorsComplex class ISex-dependent responseInfectious triggerPregnancy outcomesPlacental macrophagesVertical pathogen transmissionViral infectionLipid metabolismMacrophage responseBacterial ligandsProtein expression changesClass IMolecular patternsPlacentaMacrophagesCytoskeleton organizationQuantitative proteomics
2021
Platelet-derived growth factor receptor beta activates Abl2 via direct binding and phosphorylation
Wu K, Wu H, Lyu W, Kim Y, Furdui CM, Anderson KS, Koleske AJ. Platelet-derived growth factor receptor beta activates Abl2 via direct binding and phosphorylation. Journal Of Biological Chemistry 2021, 297: 100883. PMID: 34144039, PMCID: PMC8259415, DOI: 10.1016/j.jbc.2021.100883.Peer-Reviewed Original ResearchConceptsAbl family kinasesFamily kinasesPlatelet-derived growth factor receptor betaGrowth factor receptor betaAbl familySrc homology 2 domainSrc homology 3 domainDiverse cellular stimuliPost-translational modificationsN-terminal halfNonreceptor tyrosine kinaseMultiple novel sitesAutoinhibited conformationSrc homologyCytoskeleton organizationCytoplasmic domainCellular stimuliKinase domainGrowth factor receptorReceptor betaKinase activityMolecular mechanismsTyrosine kinaseDirect bindingKinaseThe Effect of Interleukin-4 and Dexamethasone on RNA-Seq-Based Transcriptomic Profiling of Human Podocytes: A Potential Role in Minimal Change Nephrotic Syndrome
Lee J, Ko Y, Lee C, Jeon N, Lee K, Oh J, Kronbichler A, Saleem M, Lim B, Shin J. The Effect of Interleukin-4 and Dexamethasone on RNA-Seq-Based Transcriptomic Profiling of Human Podocytes: A Potential Role in Minimal Change Nephrotic Syndrome. Journal Of Clinical Medicine 2021, 10: 496. PMID: 33535372, PMCID: PMC7866993, DOI: 10.3390/jcm10030496.Peer-Reviewed Original ResearchGene OntologyHuman podocytesRNA-seq-based transcriptome profilingIL-4-induced changesWhole-transcriptome sequencingRelevant biological pathwaysCytoskeleton organizationGO analysisInterleukin-4 treatmentCell signalingTranscriptome profilingPodocyte genesBiological pathwaysGenesTranscriptomeInterleukin-4Pathogenic effectsExpression levelsNephrotic syndromeDEGsEffect of interleukin-4PathwayPodocytesMinimal change nephrotic syndromePathogenesis of nephrotic syndrome
2019
Neurofilament-lysosomal genetic intersections in the cortical network of stuttering
Benito-Aragón C, Gonzalez-Sarmiento R, Liddell T, Diez I, d'Oleire Uquillas F, Ortiz-Terán L, Bueichekú E, Chow H, Chang S, Sepulcre J. Neurofilament-lysosomal genetic intersections in the cortical network of stuttering. Progress In Neurobiology 2019, 184: 101718. PMID: 31669185, PMCID: PMC6938554, DOI: 10.1016/j.pneurobio.2019.101718.Peer-Reviewed Original ResearchConceptsCytoskeleton organizationNeurofilament genesCortical networksGenetic expression levelsMannose-6-phosphateGenetic interactomesInteractome networkTranscriptome dataLarge-scale cortical networksLysosomal pathwayAllen Human Brain AtlasPresence of stutteringGenetic intersectionFunctional connectivity MRIBiological functionsNeuronal circuitsSpatial similarity analysisGenesHuman Brain AtlasTarget pathwaysFunctional linkInteractomeNeurobiological underpinningsCo-localizationLysosomal dysfunctionRudhira/BCAS3 couples microtubules and intermediate filaments to promote cell migration for angiogenic remodeling
Joshi D, Inamdar M. Rudhira/BCAS3 couples microtubules and intermediate filaments to promote cell migration for angiogenic remodeling. Molecular Biology Of The Cell 2019, 30: 1437-1450. PMID: 30995157, PMCID: PMC6724693, DOI: 10.1091/mbc.e18-08-0484.Peer-Reviewed Original ResearchConceptsCell migrationCytoskeleton organizationMT stabilityIntermediate filamentsEC migrationCytoskeletal protein essentialMT-IFVimentin intermediate filamentsFocal adhesionsEndothelial cell migrationMouse developmentProtein essentialRudhiraAssign functionCytoskeleton modulationDynamic remodelingBlood vessel formationAngiogenic sproutingSprouting angiogenesisAngiogenic remodelingMicrotubulesEssential roleVessel formationSequence 3Migration
2016
Truncating PREX2 mutations activate its GEF activity and alter gene expression regulation in NRAS-mutant melanoma
Lissanu Deribe Y, Shi Y, Rai K, Nezi L, Amin S, Wu C, Akdemir K, Mahdavi M, Peng Q, Chang Q, Hornigold K, Arold S, Welch H, Garraway L, Chin L. Truncating PREX2 mutations activate its GEF activity and alter gene expression regulation in NRAS-mutant melanoma. Proceedings Of The National Academy Of Sciences Of The United States Of America 2016, 113: e1296-e1305. PMID: 26884185, PMCID: PMC4780599, DOI: 10.1073/pnas.1513801113.Peer-Reviewed Original ResearchConceptsPREX2 mutationsCross-species gene expression analysisGuanine nucleotide exchange factor activityNucleotide exchange factor activityGene expression regulationPI3K/PTEN/Akt pathwayExchange factor activityMelanoma developmentPTEN/AKT pathwayCell cycle regulatorsGene expression analysisExpression regulationGEF activityCytoskeleton organizationCDKN1C geneRegulatory regionsExpression analysisGene expressionCycle regulatorsDNA hypomethylationCell cycleChromosome 11Tumor suppressorBiological pathwaysMechanistic basis
2006
Increased ICAM-1 Expression Causes Endothelial Cell Leakiness, Cytoskeletal Reorganization and Junctional Alterations
Clark PR, Manes TD, Pober JS, Kluger MS. Increased ICAM-1 Expression Causes Endothelial Cell Leakiness, Cytoskeletal Reorganization and Junctional Alterations. Journal Of Investigative Dermatology 2006, 127: 762-774. PMID: 17195014, DOI: 10.1038/sj.jid.5700670.Peer-Reviewed Original ResearchConceptsEC barrier functionCell junctionsHuman dermal microvascular ECsSmall-interfering RNA knockdownEC shape changesEndothelial cellsG actin ratioActin cytoskeletonShape changesCytoskeleton organizationCell elongationICAM-1 inductionCytoskeletal reorganizationIntracellular regionCell shapeRNA knockdownHuman dermal microvascular endothelial cellsDermal microvascular endothelial cellsZona occludens-1NF-kappaB activationJunctional alterationsCytoskeletonBarrier functionCell leakinessMicrovascular endothelial cells
2000
Determination of GTP loading on Rho
Ren X, Schwartz M. Determination of GTP loading on Rho. Methods In Enzymology 2000, 325: 264-272. PMID: 11036609, DOI: 10.1016/s0076-6879(00)25448-7.Peer-Reviewed Original ResearchConceptsRho-binding domainGTP-RhoLow molecular weight GTPaseAffinity precipitation assaysActin cytoskeleton organizationGTP loadingCytoskeleton organizationWeight GTPaseGTPase activityRho effectorCell lysatesGTPaseRhoPrecipitation assaysTRBDWestern immunoblottingDomainQuality controlPositive controlAssaysRhotekinEffectorsProtein
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