2023
Transcriptomic identification of genes expressed in invasive S. aureus diabetic foot ulcer infection
Agidigbi T, Kwon H, Knight J, Zhao D, Lee F, Oh I. Transcriptomic identification of genes expressed in invasive S. aureus diabetic foot ulcer infection. Frontiers In Cellular And Infection Microbiology 2023, 13: 1198115. PMID: 37434783, PMCID: PMC10332306, DOI: 10.3389/fcimb.2023.1198115.Peer-Reviewed Original ResearchConceptsDiabetic foot ulcersPeripheral blood mononuclear cellsHost immune responseActive infectionImmune responseDiabetic foot ulcer infectionsInfected diabetic foot ulcersFoot ulcer infectionsPatients 8 weeksIntravenous antibiotic therapyBlood mononuclear cellsWound healing statusDFU infectionsPBMC expressionSalvage therapyUlcer infectionDifferent time pointsAntibiotic therapyMajor complicationsSurgical treatmentFoot ulcersMononuclear cellsPotential intervention optionsSpecies-specific infectionTreatment response
2021
Multi-omics analysis to identify susceptibility genes for colorectal cancer
Yuan Y, Bao J, Chen Z, Villanueva A, Wen W, Wang F, Zhao D, Fu X, Cai Q, Long J, Shu X, Zheng D, Moreno V, Zheng W, Lin W, Guo X. Multi-omics analysis to identify susceptibility genes for colorectal cancer. Human Molecular Genetics 2021, 30: 321-330. PMID: 33481017, PMCID: PMC8485221, DOI: 10.1093/hmg/ddab021.Peer-Reviewed Original ResearchMeSH KeywordsCarcinogenesisCell Line, TumorCell ProliferationColorectal NeoplasmsDNA MethylationGene Expression Regulation, NeoplasticGenetic Association StudiesGenetic Predisposition to DiseaseGenomeGenome-Wide Association StudyHumansNerve Tissue ProteinsPolymorphism, Single NucleotideRepressor ProteinsRisk FactorsTranscriptomeConceptsGenome-wide association studiesMulti-omics analysisSusceptibility genesTarget genesPutative target genesGWAS-identified variantsMost genetic variantsDNA methylation dataNovel susceptibility genesGenotype-Tissue ExpressionGenetic risk lociPutative susceptibility genesGene regulationIntergenic regionPathogenic dysregulationCancer Genome AtlasEpithelial-mesenchymal transitionRisk lociGene expressionMethylation dataAssociation studiesGenesCell behaviorGenetic variantsGenome Atlas
2019
Dissection of Merkel cell formation in hairy and glabrous skin reveals a common requirement for FGFR2‐mediated signalling
Nguyen MB, Valdes VJ, Cohen I, Pothula V, Zhao D, Zheng D, Ezhkova E. Dissection of Merkel cell formation in hairy and glabrous skin reveals a common requirement for FGFR2‐mediated signalling. Experimental Dermatology 2019, 28: 374-382. PMID: 30758073, PMCID: PMC6488392, DOI: 10.1111/exd.13901.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsFemaleMerkel CellsMicePregnancyReceptor, Fibroblast Growth Factor, Type 2SkinTranscriptomeConceptsCell formationCommon genetic programPaw skinMerkel cellsLineage-tracing experimentsBack skinTranscriptome studiesMerkel cell developmentGenetic programMAPK signalingPrimary hair folliclesCell developmentSpecialized structuresMechanosensory cellsSimilar regulatorsUpstream factorsCritical functionsPrecursor cellsFGFR2SignalingCellsTouch domesGlabrous skinMurineHair follicles
2018
Enriched expression of genes associated with autism spectrum disorders in human inhibitory neurons
Wang P, Zhao D, Lachman HM, Zheng D. Enriched expression of genes associated with autism spectrum disorders in human inhibitory neurons. Translational Psychiatry 2018, 8: 13. PMID: 29317598, PMCID: PMC5802446, DOI: 10.1038/s41398-017-0058-6.Peer-Reviewed Original ResearchConceptsASD candidatesEnriched expressionSingle-cell transcriptomic dataSingle-cell transcriptome profilesCo-expression gene modulesDifferent developmental stagesExcitatory/inhibitory (E/I) imbalance hypothesisInhibitory neuronsGene networksTranscriptome profilesGene modulesTranscriptomic dataUpregulated genesDownstream targetsGene expressionDevelopmental stagesCell typesGenesNeuron subtypesFunctional evidenceAutism spectrum disorderExpressionASD brainCortex samplesExcitatory neurons
2013
Efficient utilization of aerobic metabolism helps Tibetan locusts conquer hypoxia
Zhao D, Zhang Z, Cease A, Harrison J, Kang L. Efficient utilization of aerobic metabolism helps Tibetan locusts conquer hypoxia. BMC Genomics 2013, 14: 631. PMID: 24047108, PMCID: PMC3852963, DOI: 10.1186/1471-2164-14-631.Peer-Reviewed Original ResearchConceptsAerobic metabolismBasic metabolic processesExtreme hypoxiaTranscriptional responseHigh-altitude Tibetan PlateauGeographical populationsTCA cycleMigratory locustHypoxia toleranceMetabolic processesLocusta migratoriaHypoxic responseEntry genesLocustPhysiological perspectiveATP contentMetabolismTibetan PlateauInvertebratesInsectsDifferent altitudesGenesSpeciesHypoxiaConclusionsOur results
2012
Genome-wide analysis of transcriptional changes in the thoracic muscle of the migratory locust, Locusta migratoria, exposed to hypobaric hypoxia
Zhao D, Zhang Z, Harrison J, Kang L. Genome-wide analysis of transcriptional changes in the thoracic muscle of the migratory locust, Locusta migratoria, exposed to hypobaric hypoxia. Journal Of Insect Physiology 2012, 58: 1424-1431. PMID: 22985864, DOI: 10.1016/j.jinsphys.2012.08.006.Peer-Reviewed Original ResearchConceptsAnalysis of transcriptional changesHypoxia-inducible factorGenome-wide analysisPentose phosphate pathwayThoracic musclesPhosphate pathwayEndoplasmic reticulumMitochondrial biogenesisTranscriptional changesTranscriptional profilesDysfunctional proteinsTarget genesMitochondrial activityBiological response to hypoxiaMigratory locustLiving organismsResponse to hypoxiaLocusta migratoriaHigh-altitude regionsBiological responsesOxidative stressBiogenesisImpact of hypobaric hypoxiaPentoseInvertebrates