2024
Characterization and implementation of the MarathonRT template-switching reaction to expand the capabilities of RNA-Seq
Guo L, Grinko A, Olson S, Leipold A, Graveley B, Saliba A, Pyle A. Characterization and implementation of the MarathonRT template-switching reaction to expand the capabilities of RNA-Seq. RNA 2024, 30: rna.080032.124. PMID: 39174298, PMCID: PMC11482623, DOI: 10.1261/rna.080032.124.Peer-Reviewed Original ResearchNontemplated additionRNA-seqRNA sequencingGroup II self-splicing intronsTemplate-switching oligonucleotidesLong-read sequencingRNA-seq technologySelf-splicing intronsTemplate-switching reactionsLong RNA transcriptsRNA sequencing methodsWell-characterized enzymesPoly(A)-enriched RNART enzymeRNA identityNucleotide specificityEnzymatic specificityRNA librariesRNA transcriptsLong RNAsHuman RNARNA moleculesRNA referenceAccurate sequencingBinding specificity
2020
The Global and Local Distribution of RNA Structure throughout the SARS-CoV-2 Genome
de Cesaris Araujo Tavares R, Mahadeshwar G, Wan H, Huston NC, Pyle AM. The Global and Local Distribution of RNA Structure throughout the SARS-CoV-2 Genome. Journal Of Virology 2020, 95: 10.1128/jvi.02190-20. PMID: 33268519, PMCID: PMC8092842, DOI: 10.1128/jvi.02190-20.Peer-Reviewed Original ResearchSARS-CoV-2 genomeRNA structureRNA genomeRNA virusesViral genomeIndividual RNA structuresDrug targetsSARS-CoV-2 RNA genomeSilico pipelineMost RNA virusesRNA structural featuresComplex viral genomesRNA drug targetsStructured viral RNAsPotential drug targetsViral RNAViral infection cycleBase pair contentRNA biologyStructural ORFsLong genomeCellular mixturesGenomeRNA transcriptsInfection cycle