R objects for processed single nuclei RNA-seq data of the mouse placenta from E9.5-E14.5 included in "Single nuclei RNA-seq of mouse placental labyrinth development" (https://elifesciences.org/articles/60266).
AllStages_AllNuclei_obj.Rdata is the R object for the data shown in Figure 1. It contains the integrated datasets from E9.5, E10.5, E12.5, and E14.5 mouse placentas, including both trophoblast, stromal, and decidual nuclei .
AllStages_TrophoblastNuclei_obj.Rdata is the R object for the data shown in Figure 2. It contains the integrated dataset of only the trophoblast nuclei from E9.5, E10.5, E12.5, E14.5 mouse placentae.
AllStages_velocyto_output.loom is output file from velocyto run10x function run with default parameters on the E9.5, E10.5, E12.5, and E14.5 mouse placentae snRNA-seq datasets concatenated into one loom file. This file can be filtered to include only the cells in AllStages_TrophoblastNuclei.loom for analysis in scVelo of the trophoblast cells in Figure 3.
AllStages_TrophoblastNuclei.loom is the processed trophoblast data shown in Figure 2 in loom file format. It contains the integrated dataset of only the trophoblast nuclei from E9.5, E10.5, E12.5, E14.5 mouse placentae. This file can be used to filter the AllStages_velocyto_output.loom for the trophoblast nuclei and UMAP projections from Figure 2 for analysis in scVelo.
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