2024
Glis2 is an early effector of polycystin signaling and a target for therapy in polycystic kidney disease
Zhang C, Rehman M, Tian X, Pei S, Gu J, Bell T, Dong K, Tham M, Cai Y, Wei Z, Behrens F, Jetten A, Zhao H, Lek M, Somlo S. Glis2 is an early effector of polycystin signaling and a target for therapy in polycystic kidney disease. Nature Communications 2024, 15: 3698. PMID: 38693102, PMCID: PMC11063051, DOI: 10.1038/s41467-024-48025-6.Peer-Reviewed Original ResearchConceptsMouse models of autosomal dominant polycystic kidney diseaseModel of autosomal dominant polycystic kidney diseasePolycystin signalingAutosomal dominant polycystic kidney diseasePolycystin-1Polycystic kidney diseaseTreat autosomal dominant polycystic kidney diseaseGlis2Primary ciliaKidney tubule cellsSignaling pathwayMouse modelDominant polycystic kidney diseasePotential therapeutic targetTranslatomeAntisense oligonucleotidesKidney diseasePolycystinMouse kidneyFunctional effectorsCyst formationTherapeutic targetInactivationFunctional targetPharmacological targets
2023
The C-terminal tail of polycystin-1 suppresses cystic disease in a mitochondrial enzyme-dependent fashion
Onuchic L, Padovano V, Schena G, Rajendran V, Dong K, Shi X, Pandya R, Rai V, Gresko N, Ahmed O, Lam T, Wang W, Shen H, Somlo S, Caplan M. The C-terminal tail of polycystin-1 suppresses cystic disease in a mitochondrial enzyme-dependent fashion. Nature Communications 2023, 14: 1790. PMID: 36997516, PMCID: PMC10063565, DOI: 10.1038/s41467-023-37449-1.Peer-Reviewed Original ResearchConceptsPolycystin-1Nicotinamide nucleotide transhydrogenaseTerminal tailCystic phenotypeAutosomal dominant polycystic kidney diseaseCyst cell proliferationC-terminal domainAmino acid residuesLethal monogenic disorderC-terminal cleavageNucleotide transhydrogenaseAcid residuesMitochondrial functionTransgenic expressionPKD1 geneRedox stateShort fragmentsCell proliferationMonogenic disordersDominant polycystic kidney diseasePolycystic kidney diseaseGene therapy strategiesProteinPhenotypeFragments
2017
A Comparison of Methods for Estimating the Determinant of High-Dimensional Covariance Matrix
Hu Z, Dong K, Dai W, Tong T. A Comparison of Methods for Estimating the Determinant of High-Dimensional Covariance Matrix. The International Journal Of Biostatistics 2017, 13: 20170013. PMID: 28953454, DOI: 10.1515/ijb-2017-0013.Peer-Reviewed Original ResearchConceptsHigh-dimensional covariance matricesCovariance matrixCovariance matrix estimationMatrix estimation methodExtensive simulation studyHigh-dimensional dataStatistical inferenceCovariance matrix estimation methodMatrix estimationComputational challengesInformation theoryEstimation methodSimulation studyHigh dimensionalityLoss functionStatistical testsComparison resultsReal applicationsInteresting comparison resultsComparison of methodsMatrixRecent proposalSample sizeDimensionalityTheory
2016
NBLDA: negative binomial linear discriminant analysis for RNA-Seq data
Dong K, Zhao H, Tong T, Wan X. NBLDA: negative binomial linear discriminant analysis for RNA-Seq data. BMC Bioinformatics 2016, 17: 369. PMID: 27623864, PMCID: PMC5022247, DOI: 10.1186/s12859-016-1208-1.Peer-Reviewed Original ResearchConceptsNegative binomial linear discriminant analysisNegative binomial distributionNegative binomial variablesPresence of overdispersionBinomial distributionSimulation resultsUnknown parametersNegative binomial modelBinomial modelReal RNA-seq data setsRNA-seq data classificationStatistical methodsDispersion parametersCount dataR codePoisson assumptionLinear discriminant analysisReal-world applicationsPoisson distributionImpact of dispersionDiscrete natureBinomial variablesComparison resultsBinomial classifierWitten