Single-cell RNA sequencing of Ngn2-induced neurons from the pluripotent stem cells of great apes

ABSTRACT: We generated induced excitatory sensory neurons (iNeurons, iNs) from pluripotent stem cells of great apes (Human, Chimpanzee and Bonobo) by expressing the transcription factor neurogenin 2 (Ngn2). Single cell-RNA sequencing was performed to identify gene expressions differing in dendrite and synapse development during iNs maturation. Briefly, cultured cells were first dissociated and yield a concentration of 500 to 1000 cells/ml to obtain approximately 3000 cells per lane of a 10X microfluidic chip device. Single cell gene expression libraries were generated using the 10X Chromium Single Cell 3’ v2 Kit following the manufacturer’s instructions. Quantification and quality control of libraries was performed using a High Sensitivity DNA chip for Agilent’s Bioanalyzer and sequenced on a HiSeq2500 in Rapid sequencing mode. Our single-cell RNA-Seq data can be explored using our ShinyApp-based browser called iNeuronExplorer: https://bioinf.eva.mpg.de/shiny/iNeuron_Explorer/ (for details, please see this paper: DOI: 10.7554/eLife.59323). Sequencing raw data for all iNeurons from 409B2 line, one culture of day 35 iNeurons from H9 line and one culture of day 35 iNeurons from SC102A1 line are deposited under Mendeley Data with doi: 10.17632/y3s4hnyvg6, their corresponding gene counts (UMIs) are deposited in this ArrayExpress experiment with accession number MTAB-9233.

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Pan paniscus

SUBMITTER: Xiang-Chun Ju 

PROVIDER: E-MTAB-9233 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress