2025
Structural and functional significance of Aedes aegypti AgBR1 flavivirus immunomodulator
Martinez-Castillo A, Barriales D, Azkargorta M, Zalamea J, Ardá A, Jimenez-Barbero J, Gonzalez-Lopez M, Aransay A, Marín-López A, Fikrig E, Elortza F, Anguita J, Abrescia N. Structural and functional significance of Aedes aegypti AgBR1 flavivirus immunomodulator. Journal Of Virology 2025, 99: e01878-24. PMID: 40272158, PMCID: PMC12090808, DOI: 10.1128/jvi.01878-24.Peer-Reviewed Original ResearchConceptsSalivary gland proteinsGland proteinsMosquito-Borne VirusesFunctional significanceHost-cell responsesMosquito salivary gland proteinsProtein functionMosquito proteinsFunctional insightsThree-dimensional structureMurine primary macrophagesZika virusA-resolutionEnzymatic activityInfluence virus transmissionProteinBlood feedingCross-talkVirus entrySpread of mosquito-borne diseasesPrimary macrophagesCell proliferationInteraction studiesViral replicationPrevent Zika virus
2024
Laboratory Management of Mammalian Hosts for Ixodes scapularis -Host-Pathogen Interaction Studies.
Narasimhan S, Cibichakravarthy B, Wu M, Holter M, Walsh C, Goodrich J. Laboratory Management of Mammalian Hosts for Ixodes scapularis -Host-Pathogen Interaction Studies. Journal Of The American Association For Laboratory Animal Science 2024, 74: 235-245. PMID: 39289828, PMCID: PMC11373684, DOI: 10.30802/aalas-cm-24-036.Peer-Reviewed Original ResearchConceptsTick feedingHard-bodied ticksTick speciesArtificial membrane feedingHard ticksMammalian hostsAnimal healthHost-pathogen interaction studiesIxodes scapularisTicksManagement practicesNatural geographic rangePotential vectorsRabbit hostsFeedingHost healthGeographic rangePathogenic organismsInfectious prionsAnimal useRelevant speciesIxodesGuinea pigsLife cycleInteraction studies
2022
Supported Natural Membranes on Microspheres for Protein–Protein Interaction Studies
Cheppali S, Dharan R, Katzenelson R, Sorkin R. Supported Natural Membranes on Microspheres for Protein–Protein Interaction Studies. ACS Applied Materials & Interfaces 2022, 14: 49532-49541. PMID: 36306148, DOI: 10.1021/acsami.2c13095.Peer-Reviewed Original ResearchMembrane proteinsProtein-protein interaction studiesPlasma membraneMembrane-related biological processesProtein-membrane interaction studiesSpike proteinEukaryotic plasma membraneProtein of SARS-CoV-2Cell-cell communicationSpike protein of SARS-CoV-2Interaction studiesReceptor-binding domainBinding domainMembrane biologyBiological processesNatural membranesMembrane model systemsMembrane componentsMembrane bilayerNative membrane componentsProteinExtracellular vesiclesCorrect orientationBiophysical questionsHuman receptorForces of Change: Optical Tweezers in Membrane Remodeling Studies
Cheppali S, Dharan R, Sorkin R. Forces of Change: Optical Tweezers in Membrane Remodeling Studies. The Journal Of Membrane Biology 2022, 255: 677-690. PMID: 35616705, DOI: 10.1007/s00232-022-00241-1.Peer-Reviewed Original ResearchConceptsOptical tweezersStudy of protein-DNA interactionsBiophysical studies of membranesMembrane curvature generationProtein-DNA interactionsProtein-membrane interaction studiesMotor protein activityMembrane-coated beadsReview biophysical studiesProtein folding trajectoriesTweezersMembrane fusionNanometer precisionCurvature generationProtein activityBiological processesFolding trajectoriesStudy of membranesFluorescence microscopyInteraction studiesMembraneAssayExperimental toolFissionCombination of OT
2021
Sex-stratified gene-by-environment genome-wide interaction study of trauma, posttraumatic-stress, and suicidality
Wendt FR, Pathak GA, Levey DF, Nuñez YZ, Overstreet C, Tyrrell C, Adhikari K, De Angelis F, Tylee DS, Goswami A, Krystal JH, Abdallah CG, Stein MB, Kranzler HR, Gelernter J, Polimanti R. Sex-stratified gene-by-environment genome-wide interaction study of trauma, posttraumatic-stress, and suicidality. Neurobiology Of Stress 2021, 14: 100309. PMID: 33665242, PMCID: PMC7905234, DOI: 10.1016/j.ynstr.2021.100309.Peer-Reviewed Original ResearchGenome-wide interaction studyRisk lociChromatin interaction profilesExtracellular matrix biologyGene-based analysisMatrix biologyMolecular basisTranscriptomic profilesInteraction studiesMultivariate geneGenetic perspectiveSNP effectsSuicidal behavior severityLociNovel targetGenesInteraction profilesSynaptic plasticityCellsInteractorsGenetic riskBiologyStressGxEIndependent cohort
2017
A genome-wide gene-by-trauma interaction study of alcohol misuse in two independent cohorts identifies PRKG1 as a risk locus
Polimanti R, Kaufman J, Zhao H, Kranzler HR, Ursano RJ, Kessler RC, Gelernter J, Stein MB. A genome-wide gene-by-trauma interaction study of alcohol misuse in two independent cohorts identifies PRKG1 as a risk locus. Molecular Psychiatry 2017, 23: 154-160. PMID: 28265120, PMCID: PMC5589475, DOI: 10.1038/mp.2017.24.Peer-Reviewed Original ResearchConceptsGenome-wide interaction studyGene Ontology (GO) enrichment analysisOntology enrichment analysisProtein kinase 1Protein regulationSame effect directionCyclic GMP-dependent protein kinase 1Circadian rhythm regulationRisk lociWide geneEnrichment analysisInteraction studiesKinase 1Individual genetic riskPsychiatric geneticsCalcium-activated potassium channelsGenesLociPRKG1Potassium channelsEffect directionRhythm regulationAlcohol use problemsRegulationAlcohol misuse
2016
mTORC1-mediated inhibition of polycystin-1 expression drives renal cyst formation in tuberous sclerosis complex
Pema M, Drusian L, Chiaravalli M, Castelli M, Yao Q, Ricciardi S, Somlo S, Qian F, Biffo S, Boletta A. mTORC1-mediated inhibition of polycystin-1 expression drives renal cyst formation in tuberous sclerosis complex. Nature Communications 2016, 7: 10786. PMID: 26931735, PMCID: PMC4778067, DOI: 10.1038/ncomms10786.Peer-Reviewed Original ResearchConceptsPolycystin-1Genetic interaction studiesTSC genesPolycystic kidney diseaseTuberous sclerosis complex (TSC) genesKidney-specific inactivationPolycystin-1 expressionRenal cyst formationComplex genesContiguous gene syndromeGenesTsc1 mutantsAutosomal dominant polycystic kidney diseaseOpen new perspectivesDominant polycystic kidney diseaseCyst expansionMTOR inhibitorsNew interplayInteraction studiesTuberous sclerosis complexPKD1 mutationsInactivationCyst formationBiogenesisImportant role
2013
Environmental Confounding in Gene-Environment Interaction Studies
Vanderweele T, Ko Y, Mukherjee B. Environmental Confounding in Gene-Environment Interaction Studies. American Journal Of Epidemiology 2013, 178: 144-152. PMID: 23821317, PMCID: PMC3698991, DOI: 10.1093/aje/kws439.Peer-Reviewed Original ResearchConceptsGene-environment independenceGene-environment interaction studiesGene-environment interactionsEnvironmental confoundersGenetic factorsJoint testGene-environmentGenetic effectsEnvironmental factorsConfounding variablesConfoundingInteraction studiesSimulation studyJoint nullSample sizeBias estimatesFactorsIndependenceStudyTest
2012
Efficient designs of gene–environment interaction studies: implications of Hardy–Weinberg equilibrium and gene–environment independence
Chen J, Kang G, VanderWeele T, Zhang C, Mukherjee B. Efficient designs of gene–environment interaction studies: implications of Hardy–Weinberg equilibrium and gene–environment independence. Statistics In Medicine 2012, 31: 2516-2530. PMID: 22362617, PMCID: PMC3448495, DOI: 10.1002/sim.4460.Peer-Reviewed Original ResearchConceptsPresence of G-E interactionsG-E interactionsSubsample of casesGene-environmentHardy-Weinberg equilibriumG-E independenceGene-environment interaction studiesGene-environment independenceRandom subsampleGenetic susceptibility variantsCase-control sampleEnvironmental risk factorsSusceptibility variantsExternal control dataRisk factorsGenetic effectsWald statisticInteraction studiesSubsampleVariable EControl dataEnvironmental effectsIndependenceDataWald
2011
Roles of lipids in Golgi sorting
Burd C, Wood C, Hung C. Roles of lipids in Golgi sorting. The FASEB Journal 2011, 25: 83.2-83.2. DOI: 10.1096/fasebj.25.1_supplement.83.2.Peer-Reviewed Original ResearchGolgi compartmentPI4KGenetic interaction studiesGolgi membrane proteinLocation of enzymesMedial Golgi compartmentActivation of mTORRole of lipidsBiosynthetic cargoMembrane proteinsSorting reactionActing enzymesGolgi stacksKey regulatorOncogenic transformationGolgi apparatusGolgiVps74Trans compartmentEnzymeCompartmentsInteraction studiesProper identityCarbohydrate moietyOrthologs
2008
A comprehensive strategy enabling high-resolution functional analysis of the yeast genome
Breslow DK, Cameron DM, Collins SR, Schuldiner M, Stewart-Ornstein J, Newman HW, Braun S, Madhani HD, Krogan NJ, Weissman JS. A comprehensive strategy enabling high-resolution functional analysis of the yeast genome. Nature Methods 2008, 5: 711-718. PMID: 18622397, PMCID: PMC2756093, DOI: 10.1038/nmeth.1234.Peer-Reviewed Original ResearchConceptsGenetic interaction studiesEssential yeast genesChemical genetic screenHigh-resolution functional analysisGenetic screenYeast genesYeast genomeHypomorphic alleleSaccharomyces cerevisiaeFunctional analysisStrain collectionGrowth competitionInteraction studiesGenomeCerevisiaeGenesAllelesScreenMEN1 and FANCD2 mediate distinct mechanisms of DNA crosslink repair
Marek LR, Kottemann MC, Glazer PM, Bale AE. MEN1 and FANCD2 mediate distinct mechanisms of DNA crosslink repair. DNA Repair 2008, 7: 476-486. PMID: 18258493, PMCID: PMC2277339, DOI: 10.1016/j.dnarep.2007.12.009.Peer-Reviewed Original ResearchConceptsGenetic interaction studiesFanconi anemia genesDNA crosslink repairVivo reporter systemLoss of Men1Large deletionsMutation frequencyTumor suppressor geneSame repair processICL sensitivityRepair processSingle base deletionDrosophila geneticsCrosslink repairICL repairGenetic interactionsMutant fliesCell mutantsFA genesHomopolymeric tractsReporter systemWild typeMutantsInteraction studiesSuppressor gene
2007
Integrin Cytoskeletal Interactions
Lad Y, Harburger DS, Calderwood DA. Integrin Cytoskeletal Interactions. Methods In Enzymology 2007, 426: 69-84. PMID: 17697880, DOI: 10.1016/s0076-6879(07)26004-5.Peer-Reviewed Original ResearchConceptsIntegrin cytoplasmic tailsCytoplasmic tailProtein-protein interaction studiesIntegrin-binding proteinsIntegrin adhesion receptorsCell-substratum adhesionCytoskeletal interactionsPlasma membraneCytoskeletal proteinsBiochemical signalsAdhesion receptorsIntracellular ligandsTail interactionsCellular activitiesIntegrin-cytoskeletal interactionsMechanical forcesRecombinant modelProteinInteraction studiesTailAdhesionInteractionRegulationDynamic interactionMembrane
2004
Transportins 1 and 2 are redundant nuclear import factors for hnRNP A1 and HuR
Rebane A, Aab A, Steitz JA. Transportins 1 and 2 are redundant nuclear import factors for hnRNP A1 and HuR. RNA 2004, 10: 590-599. PMID: 15037768, PMCID: PMC1370549, DOI: 10.1261/rna.5224304.Peer-Reviewed Original ResearchMeSH KeywordsActive Transport, Cell NucleusAmino Acid SequenceAntigens, Surfacebeta KaryopherinsCell NucleusELAV ProteinsELAV-Like Protein 1HeLa CellsHeterogeneous Nuclear Ribonucleoprotein A1Heterogeneous-Nuclear Ribonucleoprotein Group A-BHumansMolecular Sequence DataMutationProtein Structure, Tertiaryran GTP-Binding ProteinReceptors, Cytoplasmic and NuclearRNA-Binding ProteinsSequence Analysis, ProteinConceptsHnRNP A1Transportin-1Import factorsDigitonin-permeabilized HeLa cellsNuclear import factorsMRNA-binding proteinRecombinant hnRNP A1Binding of HuRImp betaImport pathwayCargo specificityNuclear importExport receptorTransportin-2TransportinTransport signalHeLa cellsLikely actsHuRTrn1ProteinInteraction studiesImportTRN2RanGTP
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