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  cultured embryonic stem cells[DCX+][54]

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+][54]

Displaying 421-430 of 495 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE86977GSM2313911Illumina HiSeq 2500Homo sapiens54Dp4a_D07cultured embryonic stem cells[DCX+][54]
GSE86977GSM2314167Illumina HiSeq 2500Homo sapiens54Dp2a_A02cultured embryonic stem cells[DCX+][54]
GSE86977GSM2313912Illumina HiSeq 2500Homo sapiens54Dp2b_A09cultured embryonic stem cells[DCX+][54]
GSE86977GSM2314168Illumina HiSeq 2500Homo sapiens54Dp6a_B05cultured embryonic stem cells[DCX+][54]
GSE86977GSM2313913Illumina HiSeq 2500Homo sapiens54Dp4a_D04cultured embryonic stem cells[DCX+][54]
GSE86977GSM2314169Illumina HiSeq 2500Homo sapiens54Dp2a_B07cultured embryonic stem cells[DCX+][54]
GSE86977GSM2313914Illumina HiSeq 2500Homo sapiens54Dp6a_H10cultured embryonic stem cells[DCX+][54]
GSE86977GSM2314170Illumina HiSeq 2500Homo sapiens54Dp6b_G09cultured embryonic stem cells[DCX+][54]
GSE86977GSM2313915Illumina HiSeq 2500Homo sapiens54Dp6a_E11cultured embryonic stem cells[DCX+][54]
GSE86977GSM2314171Illumina HiSeq 2500Homo sapiens54Dp6a_H07cultured embryonic stem cells[DCX+][54]

Gene rank in cultured embryonic stem cells[DCX+][54]

Displaying 23561-23570 of 23636 results.
Rank orderGene SymbolEnsembl ID
23561SNORD25ENSG00000275043
23562SNORD28ENSG00000274544
23563SNORD29
23564SNORD30ENSG00000277846
23565SNORD34ENSG00000202503
23566SNORD59AENSG00000207031
23567SNORD62BENSG00000231587
23568SNORD74
23569SNORD76
23570SNORD77