Extended Data Fig. 4: Pseudo-bulk analysis was performed on all collected organoid scRNA-seq data, using both raw and scPoli embedding datasets. | Nature Genetics

Extended Data Fig. 4: Pseudo-bulk analysis was performed on all collected organoid scRNA-seq data, using both raw and scPoli embedding datasets.

From: An integrated transcriptomic cell atlas of human endoderm-derived organoids

Extended Data Fig. 4: Pseudo-bulk analysis was performed on all collected organoid scRNA-seq data, using both raw and scPoli embedding datasets.The alternative text for this image may have been generated using AI.

(a-e) PCA plot showing pseudo-bulk transcriptomes from each organoid single-cell RNA-seq sample, colored by: (a) tissue type, (b) stem cell source, (c) scRNA-seq methods, (d) total counts in the sample, and (e) publication. (f-j) PCA plot showing pseudo-bulk scPoli embedding all organoid samples, colored by: (f) tissue type, (g) stem cell source, (h) scRNA-seq methods, (i) total counts in the sample, and (j) publication. (k) The bar plots display the adjusted correlation coefficients between sample variance factors (such as sample counts, stem cell source, scRNA-seq method, tissue type, and publication) and scPoli embedding principal components (from left to right: PC1 to PC4).

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