Loading
scRNASeqDB
Home » Search by Cell » Cell View

Cell View

Cell Information

  iPSC 409B2[65 days]

Overall Design734 single-cell transcriptomes from human fetal neocortex or human cerebral organoids from multiple time points were analyzed in this study. All single cell samples were processed on the microfluidic Fluidigm C1 platform and contain 92 external RNA spike-ins. Fetal neocortex data were generated at 12 weeks post conception (chip 1: 81 cells; chip 2: 83 cells) and 13 weeks post conception (62 cells). Cerebral organoid data were generated from dissociated whole organoids derived from induced pluripotent stem cell line 409B2 (iPSC 409B2) at 33 days (40 cells), 35 days (68 cells), 37 days (71 cells), 41 days (74 cells), and 65 days (80 cells) after the start of embryoid body culture. Cerebral organoid data were also generated from microdissected cortical-like regions from H9 embryonic stem cell derived organoids at 53 days (region 1, 48 cells; region 2, 48 cells) or from iPSC 409B2 organoids at 58 days (region 3, 43 cells; region 4, 36 cells).
SummaryCerebral organoids – three-dimensional cultures of human cerebral tissue derived from pluripotent stem cells – have emerged as models of human cortical development. However, the extent to which in vitro organoid systems recapitulate neural progenitor cell proliferation and neuronal differentiation programs observed in vivo remains unclear. Here we use single-cell RNA sequencing (scRNA-seq) to dissect and compare cell composition and progenitor-to-neuron lineage relationships in human cerebral organoids and fetal neocortex. Covariation network analysis using the fetal neocortex data reveals known and novel interactions among genes central to neural progenitor proliferation and neuronal differentiation. In the organoid, we detect diverse progenitors and differentiated cell types of neuronal and mesenchymal lineages, and identify cells that derived from regions resembling the fetal neocortex. We find that these organoid cortical cells use gene expression programs remarkably similar to those of the fetal tissue in order to organize into cerebral cortex-like regions. Our comparison of in vivo and in vitro cortical single cell transcriptomes illuminates the genetic features underlying human cortical development that can be studied in organoid cultures.
Dataset viewGSE75140
PMID26644564

Samples in iPSC 409B2[65 days]

Displaying 31-40 of 80 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE75140GSM1957331Illumina HiSeq 2500Homo sapienswhOrg5_C7_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957332Illumina HiSeq 2500Homo sapienswhOrg5_C8_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957333Illumina HiSeq 2500Homo sapienswhOrg5_C9_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957334Illumina HiSeq 2500Homo sapienswhOrg5_D10_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957335Illumina HiSeq 2500Homo sapienswhOrg5_D11_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957336Illumina HiSeq 2500Homo sapienswhOrg5_D12_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957337Illumina HiSeq 2500Homo sapienswhOrg5_D1_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957338Illumina HiSeq 2500Homo sapienswhOrg5_D2_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957339Illumina HiSeq 2500Homo sapienswhOrg5_D3_hOrg65diPSC 409B2[65 days]
GSE75140GSM1957340Illumina HiSeq 2500Homo sapienswhOrg5_D4_hOrg65diPSC 409B2[65 days]

Gene rank in iPSC 409B2[65 days]

Displaying 16661-16670 of 16781 results.
Rank orderGene SymbolEnsembl ID
16661UROC1ENSG00000159650
16662USH1CENSG00000006611
16663USP17L11ENSG00000233136
16664USP17L2ENSG00000223443
16665USP26ENSG00000134588
16666USP29ENSG00000131864
16667USP35ENSG00000118369
16668USP9YENSG00000114374
16669UTS2BENSG00000188958
16670UTYENSG00000183878