2023
tRFtarget 2.0: expanding the targetome landscape of transfer RNA-derived fragments
Li N, Yao S, Yu G, Lu L, Wang Z. tRFtarget 2.0: expanding the targetome landscape of transfer RNA-derived fragments. Nucleic Acids Research 2023, 52: d345-d350. PMID: 37811890, PMCID: PMC10767876, DOI: 10.1093/nar/gkad815.Peer-Reviewed Original ResearchCis-meQTL for cocaine use-associated DNA methylation in an HIV-positive cohort show pleiotropic effects on multiple traits
Cheng Y, Justice A, Wang Z, Li B, Hancock D, Johnson E, Xu K. Cis-meQTL for cocaine use-associated DNA methylation in an HIV-positive cohort show pleiotropic effects on multiple traits. BMC Genomics 2023, 24: 556. PMID: 37730558, PMCID: PMC10510240, DOI: 10.1186/s12864-023-09661-2.Peer-Reviewed Original ResearchConceptsDNA methylationMultiple traitsPleiotropic effectsGenetic variantsAberrant DNA methylationPhenome-wide association studyCis-meQTLsComplex traitsRelevant traitsDNAm sitesEnrichment analysisMeQTLsAssociation studiesSignificant traitsTraitsImmune pathwaysMethylationNew insightsMendelian randomizationImmunological functionsGenesVariantsCausal rolePathwayCpG
2020
tRFtarget: a database for transfer RNA-derived fragment targets
Li N, Shan N, Lu L, Wang Z. tRFtarget: a database for transfer RNA-derived fragment targets. Nucleic Acids Research 2020, 49: d254-d260. PMID: 33035346, PMCID: PMC7779015, DOI: 10.1093/nar/gkaa831.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBase PairingBase SequenceCaenorhabditis elegansDatabases, Nucleic AcidDrosophila melanogasterGene OntologyHumansMiceMolecular Sequence AnnotationNucleic Acid ConformationNucleic Acid HybridizationRhodobacter sphaeroidesRNA, MessengerRNA, Small UntranslatedRNA, TransferSchizosaccharomycesThermodynamicsXenopusZebrafishConceptsTarget genesTransfer RNASmall non-coding RNAsGene Ontology annotationsNon-coding RNAsFunctional pathway analysisAccessible web-based databaseMolecular functionsOntology annotationsBiological functionsPathway analysisMolecular mechanismsPhysiological processesTarget predictionHuman diseasesGenesMRNA transcriptsRNAWeb-based databaseConvenient linkTRFImportant roleRNAhybridTargetIntaRNA
2015
Isolation and characterization of a poplar d-type cyclin gene associated with the SHORT-ROOT/SCARECROW network
Xu M, Liu S, Xuan L, Huang M, Wang Z. Isolation and characterization of a poplar d-type cyclin gene associated with the SHORT-ROOT/SCARECROW network. Trees 2015, 30: 255-263. DOI: 10.1007/s00468-015-1296-y.Peer-Reviewed Original ResearchAdventitious root developmentRegulatory networksCyclin genesProtoplast transient expression assaysRoot developmentD-type cyclin genesRoot radial patterningGFP fusion proteinBiomolecular fluorescence complementationTransient expression assaysCortex cell layersD-type cyclinsRoot patterningArabidopsis rootsFluorescence complementationRadial patterningCell specificationModel organismsCycle genesDaughter cellsExpression assaysKey regulatorFusion proteinGenesPericlinal divisions
2004
A statistical model for functional mapping of quantitative trait loci regulating drug response
Gong Y, Wang Z, Liu T, Zhao W, Zhu Y, Johnson J, Wu R. A statistical model for functional mapping of quantitative trait loci regulating drug response. The Pharmacogenomics Journal 2004, 4: 315-321. PMID: 15263889, DOI: 10.1038/sj.tpj.6500262.Peer-Reviewed Original ResearchConceptsQuantitative trait lociComplex traitsGenetic mappingTrait lociDifferent QTL genotypesPopulation genetic parametersFunction-valued traitsDrug responseMultiple genesSpecific genesHigh-resolution mappingRecombination eventsQTL genotypesDisequilibrium mappingPolymorphic markersGenetic parametersFunctional mappingTraitsGenesLociPharmacogenomics researchEnvironmental influencesPowerful toolHistoric times