2024
An RNA-centric view of transcription and genome organization
Henninger J, Young R. An RNA-centric view of transcription and genome organization. Molecular Cell 2024, 84: 3627-3643. PMID: 39366351, PMCID: PMC11495847, DOI: 10.1016/j.molcel.2024.08.021.Peer-Reviewed Original ResearchConceptsGene regulationGenome architectureTranscriptional regulationModel of transcriptional regulationAssembly of protein complexesAssembly of transcription complexesLocal genome architectureSilencing of genesGenomic compartmentsGenome organizationGenomic structureRNA polymeraseChromatin regulationTranscription complexActive genesProtein complexesRNA moleculesTranscription factorsGenomeProtein kinaseSpecific genesGenesFeedback regulationRNASpatial compartments
2021
A regulatory network of microRNAs confers lineage commitment during early developmental trajectories of B and T lymphocytes
Nikhat S, Yadavalli AD, Prusty A, Narayan PK, Palakodeti D, Murre C, Pongubala JMR. A regulatory network of microRNAs confers lineage commitment during early developmental trajectories of B and T lymphocytes. Proceedings Of The National Academy Of Sciences Of The United States Of America 2021, 118: e2104297118. PMID: 34750254, PMCID: PMC8609617, DOI: 10.1073/pnas.2104297118.Peer-Reviewed Original ResearchConceptsMultipotent progenitorsCell type-specific genesDe novo motif analysisLymphocyte developmentLineage-inappropriate genesHematopoietic multipotent progenitorsSilencing of genesType-specific genesGene expression programsNovo motif analysisEarly T-lymphocyte developmentAlternate cell fatesCell-autonomous mannerGene expression patternsLineage determinantsMyeloid differentiation potentialExpression programsCell fateMiRNAs functionMotif analysisParticular lineageT lymphocyte developmentRegulatory networksLineage commitmentMiRNA targetome
2016
A Tunable Mechanism Determines the Duration of the Transgenerational Small RNA Inheritance in C. elegans
Houri-Ze'evi L, Korem Y, Sheftel H, Faigenbloom L, Toker I, Dagan Y, Awad L, Degani L, Alon U, Rechavi O. A Tunable Mechanism Determines the Duration of the Transgenerational Small RNA Inheritance in C. elegans. Cell 2016, 165: 88-99. PMID: 27015309, DOI: 10.1016/j.cell.2016.02.057.Peer-Reviewed Original ResearchConceptsAncestral responsesSmall RNAsC. elegansRNAi responseEndogenous small RNAsSilencing of genesRNA sequencing analysisRNA inheritanceHeritable silencingRNAi factorsExposure to dsRNAManipulating genesEpigenetic responsesComplementary sequencesEpigenetic effectsGenesRNAiTransgenerational effectsSilencingRNAFeedback loopInheritance mechanismDsRNAElegansAncestor
2012
The miR-35-41 Family of MicroRNAs Regulates RNAi Sensitivity in Caenorhabditis elegans
Massirer K, Perez S, Mondol V, Pasquinelli A. The miR-35-41 Family of MicroRNAs Regulates RNAi Sensitivity in Caenorhabditis elegans. PLOS Genetics 2012, 8: e1002536. PMID: 22412382, PMCID: PMC3297572, DOI: 10.1371/journal.pgen.1002536.Peer-Reviewed Original ResearchConceptsLin-35/RbSmall interfering RNADouble-stranded RNAMir-35RNA interferenceEndo-RNAiRNA pathwaysCaenorhabditis elegansSources of double-stranded RNASmall RNA pathwaysC. elegans homologGenome-wide microarray analysisRNA interference sensitivitySilencing of genesInactivation of genesRegulates RNA interferencePost-transcriptional mechanismsTargeting specific mRNAsEndo-siRNAsRNAi sensitivityExo-RNAiRNAi responseRetinoblastoma geneMaternal contributionSpecific mRNAs
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