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TranscriptomicsPosterior brain organoids multi-omics atlas
Here, we generated multiome (coupled scRNA-seq and scATAC-seq) data over a time course of mid- and hindbrain organoid development to map cell composition and explore the regulatory mechanisms underlying cell type maturation. The dataset incorporates 5 time points from day 7 to day 120 from 3 human i...
ORGANISM(S): Homo sapiens 
2026-03-17 | E-MTAB-15659 | biostudies-arrayexpress
TranscriptomicsNgn2 induces diverse neuronal lineages from human pluripotency
Human neurons engineered from induced pluripotent stem cells (iPSCs) through Neurogenin 2 (Ngn2) overexpression are widely used to study neuronal differentiation mechanisms and to model neurological diseases. However, the differentiation paths and heterogeneity of emerged neurons have not been fully...
ORGANISM(S): Homo sapiens 
2021-08-05 | E-MTAB-10632 | biostudies-arrayexpress
TranscriptomicsscRNA-seq of posterior brain organoid morphogen screen
To pattern novel posterior brain regions, we used a multiplexed morphogen screen with a single-cell sequencing readout to test 48 concentrations and combinations of 10 morphogens involved in brain patterning. This screen revealed the emergence of regions harboring under-represented cell types, such ...
ORGANISM(S): Homo sapiens 
2026-03-16 | E-MTAB-15660 | biostudies-arrayexpress
TranscriptomicsLineage recording in human cerebral organoids (whole organoids)
Induced pluripotent stem cell (iPSC) derived organoid systems provide models to study human organ development. Single-cell transcriptome sequencing enables highly-resolved descriptions of cell state heterogeneity within these systems and computational methods can reconstruct developmental trajectori...
ORGANISM(S): Homo sapiens 
2021-11-03 | E-MTAB-10974 | biostudies-arrayexpress
TranscriptomicsLineage recording in human cerebral organoids (microdissected)
Induced pluripotent stem cell (iPSC) derived organoid systems provide models to study human organ development. Single-cell transcriptome sequencing enables highly-resolved descriptions of cell state heterogeneity within these systems and computational methods can reconstruct developmental trajectori...
ORGANISM(S): Homo sapiens 
2021-11-03 | E-MTAB-10973 | biostudies-arrayexpress
TranscriptomicsLineage recording in human cerebral organoids (iTracer-perturb)
Induced pluripotent stem cell (iPSC) derived organoid systems provide models to study human organ development. Single-cell transcriptome sequencing enables highly-resolved descriptions of cell state heterogeneity within these systems and computational methods can reconstruct developmental trajectori...
ORGANISM(S): Homo sapiens 
2021-11-03 | E-MTAB-10971 | biostudies-arrayexpress
TranscriptomicsLineage recording in human cerebral organoids (Visium)
Induced pluripotent stem cell (iPSC) derived organoid systems provide models to study human organ development. Single-cell transcriptome sequencing enables highly-resolved descriptions of cell state heterogeneity within these systems and computational methods can reconstruct developmental trajectori...
ORGANISM(S): Homo sapiens 
2021-11-03 | E-MTAB-10972 | biostudies-arrayexpress
TranscriptomicsscRNA-seq CRISPR screening of human posterior brain organoids
We used a pooled, multiplexed CRISPR/Cas9 gene knock-out (KO) experiment with single-cell transcriptomic readout to perturb and validate selected TF regulomes . We designed gRNAs and generated a pooled lentiviral library targeting 12 TFs with specific midbrain or hindbrain expression or high regulat...
ORGANISM(S): Homo sapiens 
2026-03-17 | E-MTAB-15826 | biostudies-arrayexpress
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