GitHub - MarioniLab/MouseGastrulationData: Clone of the Bioconductor repository for the MouseGastrulationData package. (original) (raw)

Processed scRNAseq timecourse data along mouse gastrulation and early organogenesis

This package contains the processed 10X Genomics data from Pijuan-Sala et al. (2019), which were processed as described in the paper, and at its repository on Github. This includes gene counts, cell annotation, and reduced-dimension representations for the atlas, which are stored as a SingleCellExperiment object.

Processed scRNAseq data of chimeric embryos

Data for chimeric embryos, also generated for Pijuan-Sala et al. (2019), are available via this package, presented in a similar manner to the atlas data. These include the _Tal1_-/-/wild-type and wild-type/wild-type chimaeras.

References

Blanca Pijuan-Sala*, Jonathan A. Griffiths*, Carolina Guibentif*, Tom W. Hiscock, Wajid Jawaid, Fernando J. Calero-Nieto, Carla Mulas, Ximena Ibarra-Soria, Richard C.V. Tyser, Debbie Lee Lian Ho, Wolf Reik, Shankar Srinivas, Benjamin D. Simons, Jennifer Nichols, John C. Marioni, Berthold Göttgens. A single-cell molecular map of mouse gastrulation and early organogenesis. Nature 566, pp490-495 (2019).

Acknowledgement

Thanks to Aaron Lun, on whose work on the scRNAseq package this package is based.