2023
Accelerated SARS-CoV-2 intrahost evolution leading to distinct genotypes during chronic infection
Chaguza C, Hahn A, Petrone M, Zhou S, Ferguson D, Breban M, Pham K, Peña-Hernández M, Castaldi C, Hill V, Initiative Y, Billig K, Earnest R, Fauver J, Kalinch C, Kerantzas N, Koch T, De Kumar B, Landry M, Ott I, Peaper D, Tikhonova I, Vogels C, Schulz W, Swanstrom R, Roberts S, Grubaugh N. Accelerated SARS-CoV-2 intrahost evolution leading to distinct genotypes during chronic infection. Cell Reports Medicine 2023, 4: 100943. PMID: 36791724, PMCID: PMC9906997, DOI: 10.1016/j.xcrm.2023.100943.Peer-Reviewed Original ResearchConceptsChronic infectionEvolutionary ratesGenetic diversityIntrahost evolutionDistinct genotypesHigher viral genome copiesVirus evolutionary ratesSARS-CoV-2 evolutionUntreated chronic infectionAdvantageous mutationsNucleotide substitutionsViral genome copiesDivergent variantsInfection hypothesisVariant emergenceViral populationsInfectious virusInfectionHallmark changesGenome copiesDifferent genotypesDiversityGenotypesTemporal dynamicsEvolution
2014
Epigenome-wide analysis of piRNAs in gene-specific DNA methylation
Fu A, Jacobs D, Zhu Y. Epigenome-wide analysis of piRNAs in gene-specific DNA methylation. RNA Biology 2014, 11: 1301-1312. PMID: 25590657, PMCID: PMC4615395, DOI: 10.1080/15476286.2014.996091.Peer-Reviewed Original ResearchConceptsPIWI-interacting RNAsGene-specific DNA methylationDNA methylationGenic lociTransposable elementsCpG sitesSilencing of transposable elementsGenome-wide methylation profilingDifferentially methylated CpG sitesGenome-wide effortsTarget CpG sitesInduce DNA methylationTransposon classesEpigenome-wide analysisIntergenic regionGenomic regionsNascent mRNAHuman genomeMethylation changesGenomic DNAMethylation profilesHuman somatic cellsUnique speciesGenome copiesSomatic cells
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