Loading

Cell View

Cell Information

  cultured embryonic stem cells[DCX+][40]

Overall DesignThe transcriptomes of 2684 single cells were profiled by CelSeq at different timepoints throughout a 54-day differentiation protocol that converted H1 human embryonic stem cells to a variety of brain cell types.
SummaryDuring development of the human brain, multiple cell types with diverse regional identities are generated. Here we report a system to generate early human brain forebrain and mid/hindbrain cell types from human embryonic stem cells (hESCs), and infer and experimentally confirm a lineage tree for the generation of these types based on single-cell RNA-Seq analysis. We engineered SOX2Cit/+ and DCXCit/Y hESC lines to target progenitors and neurons throughout neural differentiation for single-cell transcriptomic profiling, then identified discrete cell types consisting of both rostral (cortical) and caudal (mid/hindbrain) identities. Direct comparison of the cell types were made to primary tissues using gene expression atlases and fetal human brain single-cell gene expression data, and this established that the cell types resembled early human brain cell types, including preplate cells. From the single-cell transcriptomic data a Bayesian algorithm generated a unified lineage tree, and predicted novel regulatory transcription factors. The lineage tree highlighted a prominent bifurcation between cortical and mid/hindbrain cell types, confirmed by clonal analysis experiments. We demonstrated that cell types from either branch could preferentially generated by manipulation of the canonical Wnt/beta-catenin pathway. In summary, we present an experimentally validated lineage tree that encompasses multiple brain regions, and our work sheds light on the molecular regulation of region-specific neural lineages during human brain development.
Dataset viewGSE86977
PMIDNA

Samples in cultured embryonic stem cells[DCX+][40]

Displaying 341-346 of 346 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE86977GSM2313431Illumina HiSeq 2500Homo sapiens40Dp2c_D04cultured embryonic stem cells[DCX+][40]
GSE86977GSM2313432Illumina HiSeq 2500Homo sapiens40Dp2c_F03cultured embryonic stem cells[DCX+][40]
GSE86977GSM2313433Illumina HiSeq 2500Homo sapiens40Dp2c_D03cultured embryonic stem cells[DCX+][40]
GSE86977GSM2313434Illumina HiSeq 2500Homo sapiens40Dp2b_E11cultured embryonic stem cells[DCX+][40]
GSE86977GSM2313435Illumina HiSeq 2500Homo sapiens40Dp2b_G09cultured embryonic stem cells[DCX+][40]
GSE86977GSM2313436Illumina HiSeq 2500Homo sapiens40Dp2b_F09cultured embryonic stem cells[DCX+][40]

Gene rank in cultured embryonic stem cells[DCX+][40]

Displaying 91-100 of 23636 results.
Rank orderGene SymbolEnsembl ID
91RPS27AENSG00000143947
92RPL4ENSG00000174444
93H3F3BENSG00000132475
94RPL30ENSG00000156482
95FTLENSG00000087086
96EEF2ENSG00000167658
97NCAM1ENSG00000149294
98RPS21ENSG00000171858
99GABARAPENSG00000170296
100RPS6ENSG00000137154