2001
Triplex forming oligonucleotides: sequence-specific tools for gene targeting
Knauert M, Glazer P. Triplex forming oligonucleotides: sequence-specific tools for gene targeting. Human Molecular Genetics 2001, 10: 2243-2251. PMID: 11673407, DOI: 10.1093/hmg/10.20.2243.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsHuman gene therapyGene therapy agentsAbility of TFOsTriplex formingGenome modificationGene therapyMammalian cellsGenetic manipulationGene targetingGene expressionPotential applicationsGenetic targetingDuplex DNATherapy agentsMajor grooveLoose canonsHigh specificityGenesRecent studiesTargetingRelated moleculesTFOCellsDevicesDNAChromosome Targeting at Short Polypurine Sites by Cationic Triplex-forming Oligonucleotides*
Vasquez K, Dagle J, Weeks D, Glazer P. Chromosome Targeting at Short Polypurine Sites by Cationic Triplex-forming Oligonucleotides*. Journal Of Biological Chemistry 2001, 276: 38536-38541. PMID: 11504712, DOI: 10.1074/jbc.m101797200.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBase SequenceCationsChromosomesCOS CellsDiaminesDNADNA Mutational AnalysisDose-Response Relationship, DrugEthylenediaminesFicusinGenes, ReporterGenes, SuppressorGenetic TechniquesGenomeIndicators and ReagentsMagnesiumMiceMice, KnockoutModels, GeneticMolecular Sequence DataMutagenesisMutagenesis, Site-DirectedNucleic Acid ConformationPotassiumProtein BindingPurinesRNA, TransferSequence Homology, Nucleic AcidConceptsChromosomal reporter geneMonkey COS cellsTarget siteSite-specific mutationsTriplex target sitesChromosome targetingEpisomal targetChromosomal targetsGene mutagenesisMammalian cellsSite-specific inductionChromosomal lociReporter geneCOS cellsGene knockoutGenomic DNAMouse cellsSite-directed modificationOligonucleotide bindsPhosphodiester bondShort sitesThird strand bindingPhosphodiester backboneSystemic administrationDNA
2000
High-frequency intrachromosomal gene conversion induced by triplex-forming oligonucleotides microinjected into mouse cells
Luo Z, Macris M, Faruqi A, Glazer P. High-frequency intrachromosomal gene conversion induced by triplex-forming oligonucleotides microinjected into mouse cells. Proceedings Of The National Academy Of Sciences Of The United States Of America 2000, 97: 9003-9008. PMID: 10900269, PMCID: PMC16811, DOI: 10.1073/pnas.160004997.Peer-Reviewed Original ResearchConceptsTriple helix-forming oligonucleotidesLtk- cell lineTK geneChromosomal lociIntrachromosomal gene conversionMouse Ltk- cell lineSingle chromosomal locusFunctional tk geneGene conversion eventsSite-specific recombinationSequence-specific mannerCell linesSimplex virus thymidine kinase geneVirus thymidine kinase geneHerpes simplex virus thymidine kinase geneThymidine kinase geneGene conversionIdentical base compositionMammalian cellsDownstream genesConversion eventsChromosomal sitesBase compositionKinase geneMutant copies
1999
The Tyr-265-to-Cys mutator mutant of DNA polymerase β induces a mutator phenotype in mouse LN12 cells
Clairmont C, Narayanan L, Sun K, Glazer P, Sweasy J. The Tyr-265-to-Cys mutator mutant of DNA polymerase β induces a mutator phenotype in mouse LN12 cells. Proceedings Of The National Academy Of Sciences Of The United States Of America 1999, 96: 9580-9585. PMID: 10449735, PMCID: PMC22251, DOI: 10.1073/pnas.96.17.9580.Peer-Reviewed Original ResearchConceptsMutator mutantsDNA polymerase betaTyr-265Mutator phenotypePolymerase betaWild-type DNA polymerase betaWild-type DNA polymeraseWild-type proteinBase excision repairRat DNA polymerase betaSpontaneous mutation frequencyDNA polymerase βDNA polymerase IMammalian cellsMutator polymeraseComplementation systemBeta mutantsExcision repairPolymerase IMutantsMutator activityGenetic instabilityHuman cellsPolymerase βEscherichia coliTargeted Correction of an Episomal Gene in Mammalian Cells by a Short DNA Fragment Tethered to a Triplex-forming Oligonucleotide*
Chan P, Lin M, Faruqi A, Powell J, Seidman M, Glazer P. Targeted Correction of an Episomal Gene in Mammalian Cells by a Short DNA Fragment Tethered to a Triplex-forming Oligonucleotide*. Journal Of Biological Chemistry 1999, 274: 11541-11548. PMID: 10206960, DOI: 10.1074/jbc.274.17.11541.Peer-Reviewed Original ResearchConceptsMammalian cellsGene correctionSV40 shuttle vectorTriplex motifNucleotide excision repairSequence-specific mannerEpisomal geneSupF reporter geneXPA cDNASpecific target sitesGene conversionShort DNA fragmentsDNA repairGene targetingTarget genesDNA segmentsReporter geneExcision repairDNA fragmentsBifunctional oligonucleotidesShuttle vectorSequence conversionGenesSV40 vectorsFlexible linkerChromosomal mutations induced by triplex-forming oligonucleotides in mammalian cells
Vasquez K, Wang G, Havre P, Glazer P. Chromosomal mutations induced by triplex-forming oligonucleotides in mammalian cells. Nucleic Acids Research 1999, 27: 1176-1181. PMID: 9927753, PMCID: PMC148300, DOI: 10.1093/nar/27.4.1176.Peer-Reviewed Original ResearchConceptsTriplex-forming oligonucleotidesMutation reporter geneMultiple chromosomal copiesMutation frequencyMammalian chromosomesTriplex binding siteMammalian cellsChromosomal copyFibroblast cell lineChromosomal lociGenetic manipulationMouse fibroblast cell lineSequencing dataChromosomal mutationsDuplex DNAUntreated control cellsBinding sitesCell linesControl cellsSpecific recognitionMutagenesisMutationsT transversionSpecific sitesCellsTriplex Formation by Oligonucleotides Containing 5-(1-Propynyl)-2‘-deoxyuridine: Decreased Magnesium Dependence and Improved Intracellular Gene Targeting †
Lacroix L, Lacoste J, Reddoch J, Mergny J, Levy D, Seidman M, Matteucci M, Glazer P. Triplex Formation by Oligonucleotides Containing 5-(1-Propynyl)-2‘-deoxyuridine: Decreased Magnesium Dependence and Improved Intracellular Gene Targeting †. Biochemistry 1999, 38: 1893-1901. PMID: 10026270, DOI: 10.1021/bi982290q.Peer-Reviewed Original ResearchGenome Modification by Triplex-Forming Oligonucleotides
Vasquez K, Glazer P. Genome Modification by Triplex-Forming Oligonucleotides. Perspectives In Antisense Science 1999, 2: 167-179. DOI: 10.1007/978-1-4615-5177-5_13.Peer-Reviewed Original ResearchSite-specific genome modificationGenome modificationSpecific DNA sequencesExpression of genesLevel of DNAMammalian cellsHomologous recombinationDNA sequencesGene replacementGene expressionLiving cellsTriplex technologyTriplex formingSpecific sitesDNARecombinationExpressionInitial stepCellsMutagenesisGenesMutationsModificationSitesSequence
1997
Role of DNA mismatch repair in the cytotoxicity of ionizing radiation.
Fritzell J, Narayanan L, Baker S, Bronner C, Andrew S, Prolla T, Bradley A, Jirik F, Liskay R, Glazer P. Role of DNA mismatch repair in the cytotoxicity of ionizing radiation. Cancer Research 1997, 57: 5143-7. PMID: 9371516.Peer-Reviewed Original ResearchConceptsMammalian cellsCellular responsesCell linesTranscription-coupled repairMMR systemWild-type cellsDNA-damaging agentsWild-type cell linesMMR-deficient cellsDNA mismatch repairDNA mismatch repair systemMismatch repair systemActive genesFutile repairMMR factorsAlkylation damageMismatch repairReplication errorsDNA damageRepair systemRelated miceCancer cellsClonogenic survivalMMR genesGenesPotassium-Resistant Triple Helix Formation and Improved Intracellular Gene Targeting by Oligodeoxyribonucleotides Containing 7-Deazaxanthine
Faruqi A, Krawczyk S, Matteucci M, Glazer P. Potassium-Resistant Triple Helix Formation and Improved Intracellular Gene Targeting by Oligodeoxyribonucleotides Containing 7-Deazaxanthine. Nucleic Acids Research 1997, 25: 633-640. PMID: 9016606, PMCID: PMC146453, DOI: 10.1093/nar/25.3.633.Peer-Reviewed Original ResearchConceptsTriple helix-forming oligonucleotidesTriple helix formationGel mobility shift assaysHelix formationMutation reporter geneMobility shift assaysMammalian cellsAnti-gene strategyHigh mutation frequencyShift assaysGene targetingReporter geneGenesPhosphodiester backboneMutation frequencyPsoralen adductsVivo geneTriplex formationPhysiological concentrationsNucleotide chemistry
1996
Mutagenesis in Mammalian Cells Induced by Triple Helix Formation and Transcription-Coupled Repair
Wang G, Seidman M, Glazer P. Mutagenesis in Mammalian Cells Induced by Triple Helix Formation and Transcription-Coupled Repair. Science 1996, 271: 802-805. PMID: 8628995, DOI: 10.1126/science.271.5250.802.Peer-Reviewed Original ResearchConceptsMammalian cellsSufficient binding affinitiesTranscription-coupled repairHuman cell extractsInhibition of transcriptionSimian virus 40 vectorXeroderma pigmentosum groupExcision repairGenetic instabilityTriple helix formationCell extractsTriplex-forming oligonucleotidesGroup B cellsDNA repair synthesisTranscriptionMutagenesisRepair synthesisTriplex DNAHelix formationTriplex formationTriple helixCellsBinding affinitiesTherapeutic applicationsB cells
1995
Altered Repair of Targeted Psoralen Photoadducts in the Context of an Oligonucleotide-mediated Triple Helix (∗)
Wang G, Glazer P. Altered Repair of Targeted Psoralen Photoadducts in the Context of an Oligonucleotide-mediated Triple Helix (∗). Journal Of Biological Chemistry 1995, 270: 22595-22601. PMID: 7673252, DOI: 10.1074/jbc.270.38.22595.Peer-Reviewed Original ResearchConceptsTriplex-forming oligonucleotidesMammalian cellsPattern of mutationsSV40 shuttle vectorHeLa whole cell extractsMonkey COS cellsDNA repair pathwaysNucleotide excision repairSequence-specific mannerWhole cell extractsExcision repair patchesTriple helixPsoralen adductsSite-specific modificationThird strandGenetic manipulationSame target siteRepair pathwaysCOS cellsExcision repairAltered repairShuttle vectorCell extractsIncision stepTarget siteMutagenesis by 8-methoxypsoralen and 5-methylangelicin photoadducts in mouse fibroblasts: mutations at cross-linkable sites induced by offoadducts as well as cross-links.
Gunther E, Yeasky T, Gasparro F, Glazer P. Mutagenesis by 8-methoxypsoralen and 5-methylangelicin photoadducts in mouse fibroblasts: mutations at cross-linkable sites induced by offoadducts as well as cross-links. Cancer Research 1995, 55: 1283-8. PMID: 7882323.Peer-Reviewed Original ResearchConceptsLambda phage shuttle vectorMutation reporter geneMammalian cellsCross-linkable sitesFibroblast cell lineMouse fibroblast cell lineReporter geneMolecular eventsShuttle vectorSpectrum of mutationsMouse fibroblastsPremutagenic lesionsSupF geneCross-link formationMutationsC transversionCell linesMutagenesisGenesApt sitePsoralen treatmentCellsSitesDNAFrequent T:A→G:C transversions in X-irradiated mouse cells
Yuan J, Yeasky T, Rhee M, Glazer P. Frequent T:A→G:C transversions in X-irradiated mouse cells. Carcinogenesis 1995, 16: 83-88. PMID: 7834808, DOI: 10.1093/carcin/16.1.83.Peer-Reviewed Original ResearchConceptsMammalian cellsMouse cellsC transversionRadiation-induced point mutationsLambda phage shuttle vectorPoint mutationsMutation reporter geneRecoverable lambda phage shuttle vectorDistinctive mutational signaturesUnique mutational spectrumPattern of mutationsReporter geneSpontaneous mutationsShuttle vectorCellular repair processesMultiple copiesMutational signaturesPolymerase betaMouse fibroblastsMutationsMutational spectrumTransversionsRepair processCellsPossible role
1993
Targeted mutagenesis of simian virus 40 DNA mediated by a triple helix-forming oligonucleotide.
Havre P, Glazer P. Targeted mutagenesis of simian virus 40 DNA mediated by a triple helix-forming oligonucleotide. Journal Of Virology 1993, 67: 7324-31. PMID: 8230456, PMCID: PMC238196, DOI: 10.1128/jvi.67.12.7324-7331.1993.Peer-Reviewed Original ResearchConceptsTriple helix-forming oligonucleotidesTarget genesTranscription factor accessViral genomeTransient expression assaysSimian virus 40 DNASequence-specific mannerDNA sequence analysisGene functionFactor accessMammalian cellsGenetic manipulationHomopurine/homopyrimidineTargeted base pairsPromoter sitesTriple-helical DNAExpression assaysGenetic engineeringGene expressionTargeted mutationsSequence analysisMutagenesisHeritable effectsSV40 DNAGenome
1989
Lambda phage shuttle vectors for analysis of mutations in mammalian cells in culture and in transgenic mice
Summers W, Glazer P, Malkevich D. Lambda phage shuttle vectors for analysis of mutations in mammalian cells in culture and in transgenic mice. Mutation Research/Fundamental And Molecular Mechanisms Of Mutagenesis 1989, 220: 263-268. PMID: 2522589, DOI: 10.1016/0165-1110(89)90030-4.Peer-Reviewed Original ResearchConceptsMammalian DNALambda phage shuttle vectorForeign DNA sequencesLambda packaging extractsAnalysis of mutationsInfectious phage particlesMammalian cellsBacteriophage genomesGene sequencesDNA sequencesChromosomal sequencesBacterial systemsMammalian mutagenesisShuttle vectorLambda phageMolecular levelPhage particlesE. coliDNATransgenic miceSequenceMutationsGenomeMutagenesisPhagesMismatch Repair in Mammalian Cells: Approaches to the in Vitro Study of DNA Mismatch Correction Reactions
Summers W, Glazer P. Mismatch Repair in Mammalian Cells: Approaches to the in Vitro Study of DNA Mismatch Correction Reactions. NATO Science Series A: 1989, 255-261. DOI: 10.1007/978-1-4684-1327-4_24.Peer-Reviewed Original Research
1986
Detection and analysis of UV-induced mutations in mammalian cell DNA using a lambda phage shuttle vector.
Glazer P, Sarkar S, Summers W. Detection and analysis of UV-induced mutations in mammalian cell DNA using a lambda phage shuttle vector. Proceedings Of The National Academy Of Sciences Of The United States Of America 1986, 83: 1041-1044. PMID: 2937054, PMCID: PMC323006, DOI: 10.1073/pnas.83.4.1041.Peer-Reviewed Original ResearchConceptsMammalian cellsStable mouse L cell lineLambda phage shuttle vectorMouse cell DNACell DNAMammalian cell DNASupF geneMouse L cell lineDNA sequence analysisLambda phage vectorL cell lineMutant phageMouse cellsSequence analysisShuttle vectorUV-induced mutationsMultiple copiesUV mutagenesisPhage vectorEscherichia coliMutagenesisViable phagePhagesGenesT transition
1985
Direct and inducible mutagenesis in mammalian cells.
Summers W, Sarkar S, Glazer P. Direct and inducible mutagenesis in mammalian cells. Cancer Surveys 1985, 4: 517-28. PMID: 3916654.Peer-Reviewed Original ResearchConceptsMammalian cellsAnimal cellsAnimal virusesSimple eukaryotesInducible mutagenesisMutant geneSequence analysisShuttle vectorMutagenic pathwayMutagenesisDNA damageViral genomeWeigle mutagenesisMutagenic mechanismsDirect sequence analysisProkaryotesCellsBacteriaEukaryotesGenomeSimilar sitesRecent dataGenesExtrapolation of resultsPhages