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GenomicsCopy number profile of human prostate cancer organoid lines using Agilent 1M aCGH platform
Advanced prostate cancer is a highly heterogenous disease with few in vitro models. We report generation of seven novel 3D organoid lines of patient-derived prostate cancer. We determine the copy number alterations of these lines using array CGH. They contain may classic alterations of prostate canc...
ORGANISM(S): Homo sapiens 
2014-09-09 | E-GEOD-60612 | 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 (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
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
TranscriptomicsAnalysis of human enteroids and colonoids (3D organoid models from small intestine and colon) exposed to chemotherapy agent 5-fluorouracil (5FU) in a dose-repeated exposure across three doses (10,100 and 1000uM) and sampled at three points (24, 48 and 72h) since initial exposure. Organoids were obtained from healthy human tissues.
ADRs (adverse drug reactions) are one of the main reasons for treatment discontinuation or alterations in dose regimens in clinical settings. Chemotherapy-induced ADRs are common, especially gastrointestinal-induced ones. Within TransQST (transqst.org), one of the main goal is to improve the in vitr...
ORGANISM(S): Homo sapiens 
2021-09-09 | E-MTAB-9134 | 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
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
TranscriptomicsRNA-seq of brain organoids from human NKX2.1(GFP/w) hESCs treated with patterning molecules
There are on-going efforts to steer brain organoid development toward distinct regional identities by supplying cues in defined culture conditions. Here we incubated developing organoids with a number of patterning molecules at different concentrations to assess their effects on establishing brain r...
ORGANISM(S): Homo sapiens 
2021-02-11 | E-MTAB-10037 | biostudies-arrayexpress
TranscriptomicsMultiome experiment of the neuroepithelial stage of brain organoid developement
To investigate the heterogeneity during the neuroepithelial stage of organoid development, we performed a multiome experiment on day 15-18 old brain organoids
ORGANISM(S): Homo sapiens 
2022-10-03 | E-MTAB-12004 | 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
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