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Single_Cell_RNAseq_at_various_stages_of_HiPSCs_differentiating_toward_definitive_endoderm_and_endoderm_derived_lineages

When comparing the differentiation capacities of pluripotent stem cell lines that have different genetic backgrounds, batch to batch experimental variablility poses a significant challenge, especially when trying to identify smaller effects. One way to address this issue is to differentiate several different lines in the same culture dish, thereby elimating experimental variation. In addition, it allows researchers to analyze many more lines with less experiments. Parallel single cell RNA-Seq exploits that individual cells are tagged and hence each cell can be reliably assigned to the donor of origin based on the genetic variants it contains. In addition, analyzing the genetic signature of single cells within a differentiating population can reveal differentation stages that are not easily detected in bulk RNAseq data. This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID Description Technology Samples
EGAD00001005741 Illumina HiSeq 2500 13433
Publications Citations
Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression.
Nat Commun 11: 2020 810
125
Optimizing expression quantitative trait locus mapping workflows for single-cell studies.
Genome Biol 22: 2021 188
31
Cell reprogramming shapes the mitochondrial DNA landscape.
Nat Commun 12: 2021 5241
16
splatPop: simulating population scale single-cell RNA sequencing data.
Genome Biol 22: 2021 341
6
Somatic mutations alter the differentiation outcomes of iPSC-derived neurons.
Cell Genom 3: 2023 100280
2