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Series GSE74207 Query DataSets for GSE74207
Status Public on Jun 23, 2016
Title A Primate lncRNA Mediates Notch Signaling During Neuronal Development by Sequestering miRNA [single cell sequencing analysis]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Long non-coding RNAs (lncRNAs) are a diverse category of transcripts with poor conservation and have expanded greatly in primates, particularly in their brain. We identified a lncRNA, which has acquired 16 microRNA response elements (MREs) for miR-143-3p in the Catarrhini branch of primates. This lncRNA termed LncND (neuro-development) gets expressed in neural progenitor cells and then declines in mature neurons. Binding and release of miR-143-3p, by LncND, can control the expression of Notch. Its expression is highest in radial glia cells in the ventricular and outer subventricular zones of human fetal brain. Down-regulation of LncND in neuroblastoma cells reduced cell proliferation and induced neuronal differentiation, an effect phenocopied by miR-143-3p over-expression and supported by RNA-seq analysis. These findings support a role for LncND in miRNA-mediated regulation of Notch signaling in the expansion of the neural progenitor pool of primates and hence contributing to the rapid growth of the cerebral cortex.
Overall design Cerebral organoids were generated as in LancasterĀ et al. (Lancaster and Knoblich, 2014). Organoids were dissociated into single cells and captured on C1 Single-Cell Auto Prep Integrated Fluidic Circuit (IFC) (Fluidigm). The RNA extraction and amplification was performed on the chip as described by the manufacturer. We captured 68 single-cells on a C1 Single-Cell Auto Prep System (Fluidigm) and sequenced the RNA on a NextSeq500 System (Illumina) (Pollen et al., 2014). Out of 68 cells, we obtained 60 high quality cells.
Contributor(s) Rani N, Lisi V, Zhou H, Kosik K
Citation(s) 27263970
Submission date Oct 20, 2015
Last update date May 15, 2019
Contact name Kenneth S. Kosik
Organization name UCSB
Department NRI
Lab Kosik
Street address UC Santa Barbara
City Santa Barbara
State/province California
ZIP/Postal code 93106
Country USA
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (60)
GSM1914556 NR_A10
GSM1914557 NR_A03
GSM1914558 NR_B01
This SubSeries is part of SuperSeries:
GSE74210 A Primate lncRNA Mediates Notch Signaling During Neuronal Development by Sequestering miRNA
SRA SRP065040
BioProject PRJNA299330

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Supplementary file Size Download File type/resource
GSE74207_cpm.txt.gz 1.7 Mb (ftp)(http) TXT
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