2013
Forward genetics identifies Kdf1/1810019J16Rik as an essential regulator of the proliferation–differentiation decision in epidermal progenitor cells
Lee S, Kong Y, Weatherbee SD. Forward genetics identifies Kdf1/1810019J16Rik as an essential regulator of the proliferation–differentiation decision in epidermal progenitor cells. Developmental Biology 2013, 383: 201-213. PMID: 24075906, PMCID: PMC3841015, DOI: 10.1016/j.ydbio.2013.09.022.Peer-Reviewed Original ResearchMeSH Keywords14-3-3 ProteinsAllelesAnimalsBase SequenceCell DifferentiationCell ProliferationCleft PalateEmbryo LossEpidermisFemaleGene Expression Regulation, DevelopmentalGenes, RecessiveGenetic Complementation TestHeterozygoteKeratinocytesMaleMiceMice, Inbred C57BLMolecular Sequence DataPhenotypePhosphoproteinsPoint MutationProtein BindingProteinsRNA SplicingStem CellsTrans-ActivatorsConceptsEpidermal progenitor cellsEssential regulatorProgenitor cellsProliferation-differentiation balanceUnbiased genetic screenCell fate decisionsProliferation-differentiation decisionsCell proliferationUncontrolled cell proliferationFactor 1 geneProgenitor cell proliferationGenetic screenFate decisionsRepressive signalsTerminal fateInductive signalsPremature differentiationGenetic mechanismsInhibition of p63Terminal differentiationCell differentiationEpidermal cellsKDF1Rapid turnoverRate of proliferationAlleles of a Polymorphic ETV6 Binding Site in DCDC2 Confer Risk of Reading and Language Impairment
Powers NR, Eicher JD, Butter F, Kong Y, Miller LL, Ring SM, Mann M, Gruen JR. Alleles of a Polymorphic ETV6 Binding Site in DCDC2 Confer Risk of Reading and Language Impairment. American Journal Of Human Genetics 2013, 93: 19-28. PMID: 23746548, PMCID: PMC3710765, DOI: 10.1016/j.ajhg.2013.05.008.Peer-Reviewed Original ResearchMeSH KeywordsAllelesBase SequenceBinding SitesCase-Control StudiesDyslexiaGenetic Association StudiesHaplotypesHeLa CellsHumansLanguage Development DisordersLanguage TestsLinkage DisequilibriumMicrosatellite RepeatsMicrotubule-Associated ProteinsMolecular Sequence DataPhylogenyPolymorphism, GeneticPromoter Regions, GeneticProtein BindingProto-Oncogene Proteins c-etsRepressor ProteinsRisk Factors
2012
Exon capture and bulk segregant analysis: rapid discovery of causative mutations using high-throughput sequencing
del Viso F, Bhattacharya D, Kong Y, Gilchrist MJ, Khokha MK. Exon capture and bulk segregant analysis: rapid discovery of causative mutations using high-throughput sequencing. BMC Genomics 2012, 13: 649. PMID: 23171430, PMCID: PMC3526394, DOI: 10.1186/1471-2164-13-649.Peer-Reviewed Original ResearchConceptsBulk segregant analysisForward genetic screenSegregant analysisGenetic screenGenome assemblyExon captureCausative mutationsVertebrate model systemHigh-throughput sequencingHuman genetic analysisThousands of SNPsAssembly of scaffoldsModel systemGenomic resourcesVertebrate modelXenopus tropicalisFine mappingGenetic analysisCapture sequencingSequence variantsSequencingMutationsRapid discoveryMutantsExome sequencingForward genetics uncovers Transmembrane protein 107 as a novel factor required for ciliogenesis and Sonic hedgehog signaling
Christopher KJ, Wang B, Kong Y, Weatherbee SD. Forward genetics uncovers Transmembrane protein 107 as a novel factor required for ciliogenesis and Sonic hedgehog signaling. Developmental Biology 2012, 368: 382-392. PMID: 22698544, PMCID: PMC3402655, DOI: 10.1016/j.ydbio.2012.06.008.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid SequenceAnimalsBody PatterningCells, CulturedCiliaEmbryo, MammalianExtremitiesFemaleGene Expression Regulation, DevelopmentalHedgehog ProteinsIn Situ HybridizationKruppel-Like Transcription FactorsMaleMembrane ProteinsMiceMice, Inbred C3HMice, Inbred C57BLMice, Mutant StrainsMicroscopy, Electron, ScanningMolecular Sequence DataMutationNerve Tissue ProteinsNeural TubeSequence Homology, Amino AcidSignal TransductionZinc Finger Protein Gli2Zinc Finger Protein Gli3ConceptsCilia formationDistinct tissuesLeft-right patterning defectsForward genetic approachDevelopmental patterning eventsLeft-right specificationShh target genesNovel mutant allelesSonic hedgehog (Shh) signalingNeuronal cell typesEmbryonic patterningMutant phenotypeCilia mutantsDynamic organellesGli activatorPatterning defectsPatterning eventsRepressor formCilia biogenesisUnknown regulatorCilia formGenetic approachesSkeletal formationTarget genesTmem107
2011
Streptococcus pneumoniae Serotype 6C: an Intra- and Interclonal Complex Comparison
Thomas JC, Kong Y, Sabharwal V, Pelton SI, Pettigrew MM. Streptococcus pneumoniae Serotype 6C: an Intra- and Interclonal Complex Comparison. Journal Of Bacteriology 2011, 193: 3409-3410. PMID: 21551297, PMCID: PMC3133277, DOI: 10.1128/jb.05079-11.Peer-Reviewed Original ResearchMicrobial Communities of the Upper Respiratory Tract and Otitis Media in Children
Laufer AS, Metlay JP, Gent JF, Fennie KP, Kong Y, Pettigrew MM. Microbial Communities of the Upper Respiratory Tract and Otitis Media in Children. MBio 2011, 2: 10.1128/mbio.00245-10. PMID: 21285435, PMCID: PMC3031303, DOI: 10.1128/mbio.00245-10.Peer-Reviewed Original ResearchMeSH KeywordsBacteriaChildChild, PreschoolCross-Sectional StudiesFemaleHumansInfantInfant, NewbornMaleMolecular Sequence DataNoseOtitis MediaPhylogenyStreptococcus pneumoniaeConceptsOtitis mediaUpper respiratory tractS. pneumoniaeRespiratory tractOtitis media treatmentRespiratory virus seasonS. pneumoniae colonizationOtitis media pathogensCross-sectional studyOtitis media susceptibilityPneumoniae colonizationDecreased riskPneumococcal colonizationNasal swabsFrequent causePrevention strategiesStreptococcus pneumoniaeDemographic dataProtective floraPneumoniaeSwabsChildrenCausal pathwaysTractRisk
2010
Construction and maintenance of randomized retroviral expression libraries for transmembrane protein engineering
Marlatt SA, Kong Y, Cammett TJ, Korbel G, Noonan JP, DiMaio D. Construction and maintenance of randomized retroviral expression libraries for transmembrane protein engineering. Protein Engineering Design And Selection 2010, 24: 311-320. PMID: 21149273, PMCID: PMC3038463, DOI: 10.1093/protein/gzq112.Peer-Reviewed Original ResearchConceptsSignificant genetic bottleneckRetroviral expression libraryDeep DNA sequencingAmino acid segmentNovel biological activitiesGenetic bottleneckTransmembrane domainMammalian cellsLibrary sequencesRandom mutagenesisProtein engineeringExpression libraryDeep sequencingDifferent proteinsSmall proteinsGenetic selectionAcid segmentRetroviral libraryDNA sequencingSequencing resultsRandomized libraryProteinPowerful approachSequencingDiversityHeterologous quaternary structure of CXCL12 and its relationship to the CC chemokine family
Murphy JW, Yuan H, Kong Y, Xiong Y, Lolis EJ. Heterologous quaternary structure of CXCL12 and its relationship to the CC chemokine family. Proteins Structure Function And Bioinformatics 2010, 78: 1331-1337. PMID: 20077567, PMCID: PMC3021379, DOI: 10.1002/prot.22666.Peer-Reviewed Original Research
2009
Calculating complexity of large randomized libraries
Kong Y. Calculating complexity of large randomized libraries. Journal Of Theoretical Biology 2009, 259: 641-645. PMID: 19376134, DOI: 10.1016/j.jtbi.2009.04.008.Peer-Reviewed Original ResearchStatistical Distributions of Pyrosequencing
Kong Y. Statistical Distributions of Pyrosequencing. Journal Of Computational Biology 2009, 16: 31-42. PMID: 19072582, DOI: 10.1089/cmb.2008.0106.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsBase SequenceDiphosphatesMathematicsMolecular Sequence DataSequence Analysis, DNASoftwareStatistical Distributions
1998
Crystal structures of the Klenow fragment of Thermus aquaticus DNA polymerase I complexed with deoxyribonucleoside triphosphates
Li Y, Kong Y, Korolev S, Waksman G. Crystal structures of the Klenow fragment of Thermus aquaticus DNA polymerase I complexed with deoxyribonucleoside triphosphates. Protein Science 1998, 7: 1116-1123. PMID: 9605316, PMCID: PMC2144016, DOI: 10.1002/pro.5560070505.Peer-Reviewed Original Research