2022
An ELISA-based platform for rapid identification of structure-dependent nucleic acid–protein interactions detects novel DNA triplex interactors
Economos NG, Thapar U, Balasubramanian N, Karras GI, Glazer PM. An ELISA-based platform for rapid identification of structure-dependent nucleic acid–protein interactions detects novel DNA triplex interactors. Journal Of Biological Chemistry 2022, 298: 102398. PMID: 35988651, PMCID: PMC9493393, DOI: 10.1016/j.jbc.2022.102398.Peer-Reviewed Original ResearchMeSH KeywordsDNAEnzyme-Linked Immunosorbent AssayHumansNucleic Acid ConformationPeptide Nucleic AcidsConceptsNucleic acid structuresNucleic acid-protein interactionsNucleotide excision repairSingle-strand annealing repairDouble-strand break intermediatesUnusual nucleic acid structuresNovel interactorNucleic acid interactionsHigh-throughput platformCellular processesFactor localizationAcid structureExcision repairRelevant lociHuman cellsGene editingAcid interactionsInteractorsTherapeutic gene editingNucleic acidsDNA triplexesRapid identificationComparative approachGenomeTriplexes
2001
Intracellular generation of single-stranded DNA for chromosomal triplex formation and induced recombination
Datta H, Glazer P. Intracellular generation of single-stranded DNA for chromosomal triplex formation and induced recombination. Nucleic Acids Research 2001, 29: 5140-5147. PMID: 11812847, PMCID: PMC97609, DOI: 10.1093/nar/29.24.5140.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBase SequenceCell LineDNADNA, Single-StrandedGenetic VectorsMolecular Sequence DataNucleic Acid ConformationRecombination, GeneticConceptsNovel vector systemMouse cellsInduced recombinationPrimer extension analysisVector systemGenome modificationTriplex formationExtension analysisIntrachromosomal recombinationChromosomal eventsGene expressionSequence insertReporter substrateSuch oligodeoxyribonucleotidesTarget siteSsDNA moleculesIntracellular generationDNARecombinationEfficient intracellular deliveryCellsSuch moleculesSequenceIntracellular deliveryOligodeoxyribonucleotidesTriplex 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 StatementsMeSH KeywordsDNADNA RepairForecastingGene TargetingGenetic TherapyHumansMutagenesisNucleic Acid ConformationOligonucleotidesPeptide Nucleic AcidsRecombination, GeneticConceptsHuman 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 administrationDNADirected gene modification via triple helix formation.
Gorman L, Glazer P. Directed gene modification via triple helix formation. 2001, 1: 391-9. PMID: 11899085, DOI: 10.2174/1566524013363771.Peer-Reviewed Original ResearchConceptsGene modificationNon-functional gene productMammalian genesGene productsGenomic DNASingle nucleotideDefective geneTriple helix formationGenetic diseasesTriplex formingGenesHelix formationEfficient targetingNucleic acidsDNAInitial stepGene therapyCorrect sequenceNucleotidesMutationsMoleculesImportant advancesSequenceTargetingModificationGene targeting via triple-helix formation
Casey B, Glazer P. Gene targeting via triple-helix formation. Progress In Nucleic Acid Research And Molecular Biology 2001, 67: 163-192. PMID: 11525382, DOI: 10.1016/s0079-6603(01)67028-4.Peer-Reviewed Original ResearchMeSH KeywordsChromatinDNADNA RepairGene TargetingGenetic TherapyMutagenesisNucleic Acid ConformationPeptide Nucleic AcidsRecombination, GeneticUp-Regulation
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 ResearchMeSH KeywordsAnimalsBase SequenceCell LineDNA PrimersGene ConversionMiceMicroinjectionsNucleic Acid ConformationOligonucleotidesRecombination, GeneticSimplexvirusThymidine KinaseConceptsTriple 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 copiesTriple-Helix Formation Induces Recombination in Mammalian Cells via a Nucleotide Excision Repair-Dependent Pathway
Faruqi A, Datta H, Carroll D, Seidman M, Glazer P. Triple-Helix Formation Induces Recombination in Mammalian Cells via a Nucleotide Excision Repair-Dependent Pathway. Molecular And Cellular Biology 2000, 20: 990-1000. PMID: 10629056, PMCID: PMC85216, DOI: 10.1128/mcb.20.3.990-1000.2000.Peer-Reviewed Original ResearchAnimalsBase SequenceCell Line, TransformedChromosome MappingColonic NeoplasmsCOS CellsDNA RepairDNA-Binding ProteinsGenes, ReporterGenes, SuppressorHumansModels, GeneticMutagenesisNucleic Acid ConformationOligodeoxyribonucleotidesRecombinant ProteinsRecombination, GeneticRNA, TransferRNA-Binding ProteinsSequence DeletionTransfectionTumor Cells, CulturedXeroderma Pigmentosum Group A Protein
1999
Chromosomal 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 sitesCells
1998
Targeted gene knockout mediated by triple helix forming oligonucleotides
Majumdar A, Khorlin A, Dyatkina N, Lin F, Powell J, Liu J, Fei Z, Khripine Y, Watanabe K, George J, Glazer P, Seidman M. Targeted gene knockout mediated by triple helix forming oligonucleotides. Nature Genetics 1998, 20: 212-214. PMID: 9771719, DOI: 10.1038/2530.Peer-Reviewed Original ResearchMutagenesis Mediated by Triple Helix–Forming Oligonucleotides Conjugated to Psoralen: Effects of Linker Arm Length and Sequence Context
Raha M, Lacroix L, Glazer P. Mutagenesis Mediated by Triple Helix–Forming Oligonucleotides Conjugated to Psoralen: Effects of Linker Arm Length and Sequence Context. Photochemistry And Photobiology 1998, 67: 289-294. PMID: 9523530, DOI: 10.1111/j.1751-1097.1998.tb05201.x.Peer-Reviewed Original ResearchPeptide nucleic acid-targeted mutagenesis of a chromosomal gene in mouse cells
Faruqi A, Egholm M, Glazer P. Peptide nucleic acid-targeted mutagenesis of a chromosomal gene in mouse cells. Proceedings Of The National Academy Of Sciences Of The United States Of America 1998, 95: 1398-1403. PMID: 9465026, PMCID: PMC19018, DOI: 10.1073/pnas.95.4.1398.Peer-Reviewed Original Research
1997
Triplex DNA: fundamentals, advances, and potential applications for gene therapy
Chan P, Glazer P. Triplex DNA: fundamentals, advances, and potential applications for gene therapy. Journal Of Molecular Medicine 1997, 75: 267-282. PMID: 9151213, DOI: 10.1007/s001090050112.Peer-Reviewed Original ResearchPotassium-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 ResearchMeSH KeywordsAnimalsCOS CellsGene TargetingNucleic Acid ConformationOligodeoxyribonucleotidesPotassiumUltraviolet RaysXanthinesConceptsTriple 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
Facilitating oligonucleotide delivery: helping antisense deliver on its promise.
Gewirtz A, Stein C, Glazer P. Facilitating oligonucleotide delivery: helping antisense deliver on its promise. Proceedings Of The National Academy Of Sciences Of The United States Of America 1996, 93: 3161-3163. PMID: 8622906, PMCID: PMC39574, DOI: 10.1073/pnas.93.8.3161.Peer-Reviewed Original ResearchAnimalsGene TargetingGenetic TherapyHumansNucleic Acid ConformationOligonucleotides, AntisenseRNA, MessengerTransfectionTriplex‐Mediated, in vitro Targeting of Psoralen Photoadducts within the Genome of a Transgenic Mouse
Gunther E, Havre P, Gasparro F, Glazer P. Triplex‐Mediated, in vitro Targeting of Psoralen Photoadducts within the Genome of a Transgenic Mouse. Photochemistry And Photobiology 1996, 63: 207-212. PMID: 8657733, DOI: 10.1111/j.1751-1097.1996.tb03015.x.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBase SequenceBinding SitesDNADNA AdductsFicusinGenes, SuppressorGenomeMiceMice, TransgenicMolecular Sequence DataNucleic Acid ConformationRNA, TransferConceptsPsoralen modificationMouse DNAGenomic mouse DNAPsoralen photoadductsSequence-specific bindingSequence-specific modificationNucleic acid secondary structureTarget site modificationMammalian genomesAcid secondary structureChromatin structureTriplex binding siteDNA repairTransgenic miceGenomeSequence specificitySecondary structureViral genomeSupF geneDNABinding sitesMutagenesisSite modificationSpecific sitesTriple helixTargeted Mutagenesis Mediated by the Triple Helix Formation
Glazer P, Wang G, Havre P, Gunther E. Targeted Mutagenesis Mediated by the Triple Helix Formation. Methods In Molecular Biology 1996, 57: 109-118. PMID: 8849999, DOI: 10.1385/0-89603-332-5:109.Peer-Reviewed Original Research
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 site
1994
Site-specific targeting of psoralen photoadducts with a triple helix-forming oligonucleotide: characterization of psoralen monoadduct and crosslink formation
Gasparro F, Havre P, Olack G, Gunther E, Glazer P. Site-specific targeting of psoralen photoadducts with a triple helix-forming oligonucleotide: characterization of psoralen monoadduct and crosslink formation. Nucleic Acids Research 1994, 22: 2845-2852. PMID: 8052539, PMCID: PMC308256, DOI: 10.1093/nar/22.14.2845.Peer-Reviewed Original Research