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E-GEOD-66217 - Transcription profiling by high throughput sequencing of the developing human cortex

Released on 24 February 2015, last updated on 20 April 2016
Homo sapiens
Samples (9)
Protocols (2)
The human cerebral cortex depends for its normal development and size on a precisely controlled balance between self-renewal and differentiation of diverse neural progenitor cells. Specialized progenitors that are common in humans, but virtually absent in rodents, called ‘outer radial glia’ (ORG), have been suggested to be crucial to the evolutionary expansion of the human cortex. We combined cell type-specific sorting with transcriptome-wide RNA-sequencing to identify genes enriched in human ORG, including targets of the transcription factor Neurogenin, and previously uncharacterized, evolutionarily dynamic, long noncoding RNAs. Single-cell transcriptional profiling of human, ferret, and mouse progenitors showed that more human RGC co-express proneural Neurogenin targets than in ferret or mouse, suggesting greater self-renewal of neuronal lineage-committed progenitors in humans. Finally, we show that activating the Neurogenin pathway in ferret RGC promotes delamination and outward migration. Thus, we find that the abundance of human ORG is paralleled by increased transcriptional heterogeneity of cortical progenitors. Three biological replicates of human late mid-fetal cortex (18 to 19 weeks of gestation) were dissociated and immunolabeled. Apical and outer radial glial cells were purified by FACS and compared to an immunonegative population, predominantly neurons.
Experiment type
RNA-seq of coding RNA 
Matthew Bonser Johnson <>, Christopher A Walsh, Matthew B Johnson, Peter P Wang
Single-cell analysis reveals transcriptional heterogeneity of neural progenitors in human cortex. Johnson MB, Wang PP, Atabay KD, Murphy EA, Doan RN, Hecht JL, Walsh CA. , PMID:25734491
Exp. designProtocolsVariablesProcessedSeq. reads
Investigation descriptionE-GEOD-66217.idf.txt
Sample and data relationshipE-GEOD-66217.sdrf.txt
Additional data (1)