2021
Transcriptional network orchestrating regional patterning of cortical progenitors
Ypsilanti AR, Pattabiraman K, Catta-Preta R, Golonzhka O, Lindtner S, Tang K, Jones IR, Abnousi A, Juric I, Hu M, Shen Y, Dickel DE, Visel A, Pennachio LA, Hawrylycz M, Thompson CL, Zeng H, Barozzi I, Nord AS, Rubenstein JL. Transcriptional network orchestrating regional patterning of cortical progenitors. Proceedings Of The National Academy Of Sciences Of The United States Of America 2021, 118: e2024795118. PMID: 34921112, PMCID: PMC8713794, DOI: 10.1073/pnas.2024795118.Peer-Reviewed Original ResearchConceptsRegional patterningEnhancer-gene interactionsTranscription factor networkTF ChIP-seqExpression of hundredsCortical progenitorsVentricular zoneRadial glial stem cellsMutant miceEpigenomic marksTF networksDNA accessibilityGenomic programmingTranscriptional networksGlial stem cellsFactor networkChIP-seqStem cellsVZ cellsPatterningProgenitorsEnhancerMouse cortexExpressionCells
2015
Genomic Perspectives of Transcriptional Regulation in Forebrain Development
Nord AS, Pattabiraman K, Visel A, Rubenstein JL. Genomic Perspectives of Transcriptional Regulation in Forebrain Development. Neuron 2015, 85: 27-47. PMID: 25569346, PMCID: PMC4438709, DOI: 10.1016/j.neuron.2014.11.011.Peer-Reviewed Original ResearchConceptsCis-acting genomic elementsForebrain developmentGene expression statesGene expression programsAnalysis of chromatinGenomic regulatory mechanismsGenetic circuitryGenomic perspectiveExpression programsGenomic elementsTranscriptional regulationExpression statesHigher-order brain functionsTranscription factorsDNA modificationsGene expressionRegulatory mechanismsHuman neuropsychiatric disordersGenetic defectsCurrent knowledgeChromatinRecent progressEnhancerNeuropsychiatric disordersRegulation
2013
A High-Resolution Enhancer Atlas of the Developing Telencephalon
Visel A, Taher L, Girgis H, May D, Golonzhka O, Hoch RV, McKinsey GL, Pattabiraman K, Silberberg SN, Blow MJ, Hansen DV, Nord AS, Akiyama JA, Holt A, Hosseini R, Phouanenavong S, Plajzer-Frick I, Shoukry M, Afzal V, Kaplan T, Kriegstein AR, Rubin EM, Ovcharenko I, Pennacchio LA, Rubenstein JL. A High-Resolution Enhancer Atlas of the Developing Telencephalon. Cell 2013, 152: 895-908. PMID: 23375746, PMCID: PMC3660042, DOI: 10.1016/j.cell.2012.12.041.Peer-Reviewed Original ResearchConceptsForebrain enhancersDistant-acting enhancersGene regulatory mechanismsTransgenic mouse embryosEnhancer architectureVivo enhancerEpigenomic analysisRegulatory sequencesMouse embryosRegulatory mechanismsTelencephalon developmentMammalian telencephalonVivo expressionEnhancerCritical roleDeveloping TelencephalonSequenceNeurodevelopmental disordersTelencephalonCortex tissueVivo activityGenesEmbryosSpeciesAtlas