2022
Direct tracking of reverse-transcriptase speed and template sensitivity: implications for sequencing and analysis of long RNA molecules
Guo LT, Olson S, Patel S, Graveley BR, Pyle AM. Direct tracking of reverse-transcriptase speed and template sensitivity: implications for sequencing and analysis of long RNA molecules. Nucleic Acids Research 2022, 50: 6980-6989. PMID: 35713547, PMCID: PMC9262592, DOI: 10.1093/nar/gkac518.Peer-Reviewed Original Research
2020
Sequencing and Structure Probing of Long RNAs Using MarathonRT: A Next-Generation Reverse Transcriptase
Guo LT, Adams RL, Wan H, Huston NC, Potapova O, Olson S, Gallardo CM, Graveley BR, Torbett BE, Pyle AM. Sequencing and Structure Probing of Long RNAs Using MarathonRT: A Next-Generation Reverse Transcriptase. Journal Of Molecular Biology 2020, 432: 3338-3352. PMID: 32259542, PMCID: PMC7556701, DOI: 10.1016/j.jmb.2020.03.022.Peer-Reviewed Original ResearchConceptsLong RNA moleculesLong RNAsRNA moleculesRNA base modificationsGroup II intronsMutational profilingTranscriptome compositionRNA metabolismRNA researchBase modificationsPrimer extensionTool enzymeDiverse aspectsMixed populationEnzymeReverse transcriptionRNAStructural complexityReverse transcriptaseProfilingTranscriptase enzymeIntronsTranscription
2016
Transcriptome analysis of human cumulus cells reveals hypoxia as the main determinant of follicular senescence
Molinari E, Bar H, Pyle AM, Patrizio P. Transcriptome analysis of human cumulus cells reveals hypoxia as the main determinant of follicular senescence. Molecular Human Reproduction 2016, 22: 866-876. PMID: 27268410, PMCID: PMC4986421, DOI: 10.1093/molehr/gaw038.Peer-Reviewed Original ResearchMeSH KeywordsAdultCell HypoxiaCumulus CellsFemaleGene Expression ProfilingHumansOocytesOvarian FollicleOvulation InductionPregnancySequence Analysis, RNATranscriptomeConceptsRNA sequencingHuman cumulus cellsCumulus cellsGEO accession numberHypoxia stress responseWhole transcriptome analysisTranscriptome analysisSomatic cellsEmbryonic developmentBioinformatics toolsGene pathwaysSpecific molecular findingsAccession numbersCell agingMolecular mechanismsStress responseVasculature developmentGenetic differencesSAMPLES/MATERIALSGenetic platformMolecular pathwaysReproductive potentialCAMP turnoverGenesSenescence
1998
More than one way to splice an RNA: branching without a bulge and splicing without branching in group II introns.
Chu VT, Liu Q, Podar M, Perlman PS, Pyle AM. More than one way to splice an RNA: branching without a bulge and splicing without branching in group II introns. RNA 1998, 4: 1186-202. PMID: 9769094, PMCID: PMC1369692, DOI: 10.1017/s1355838298980724.Peer-Reviewed Original Research