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  cultured embryonic stem cells[DCX+][19]

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+][19]

Displaying 51-60 of 168 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE86977GSM2312528Illumina HiSeq 2500Homo sapiens19Dp1b_B01cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312527Illumina HiSeq 2500Homo sapiens19Dp1b_B02cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312525Illumina HiSeq 2500Homo sapiens19Dp1b_B03cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312520Illumina HiSeq 2500Homo sapiens19Dp1b_B04cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312517Illumina HiSeq 2500Homo sapiens19Dp1b_B05cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312590Illumina HiSeq 2500Homo sapiens19Dp1b_B06cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312433Illumina HiSeq 2500Homo sapiens19Dp1b_B07cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312515Illumina HiSeq 2500Homo sapiens19Dp1b_B08cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312514Illumina HiSeq 2500Homo sapiens19Dp1b_B09cultured embryonic stem cells[DCX+][19]
GSE86977GSM2312509Illumina HiSeq 2500Homo sapiens19Dp1b_B10cultured embryonic stem cells[DCX+][19]

Gene rank in cultured embryonic stem cells[DCX+][19]

Displaying 23621-23630 of 23636 results.
Rank orderGene SymbolEnsembl ID
23621ZNF503-AS1ENSG00000226051
23622ZNF534ENSG00000198633
23623ZNF645ENSG00000175809
23624ZNF648ENSG00000179930
23625ZNF670-ZNF695ENSG00000135747
23626ZNF683ENSG00000176083
23627ZNF705DENSG00000215343
23628ZNF705GENSG00000215372
23629ZNF736ENSG00000234444
23630ZPBP2ENSG00000186075