Fig. 3: Correction of low-quality genes by mapping snRNA-seq on STARmap data.
From: Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram
a, Probabilistic mapping of snRNA-seq data on STARmap data. Probability of mapping (color bar) of each cell subset (gray label) in each of three major categories. b, Deterministic mapping. STARmap slide with segmented cells (dot) colored by the cell-type annotation of the most likely snRNA-seq profile mapped on that position by Tangram (legend). c, Measured (top) and Tangram-predicted (bottom) expression (color bar signifies fluorescence at top and normalized mRNA counts at bottom, see Methods) of select test gene (gray labels). d, Correction of low-quality spatial measurements. Tangram-predicted test genes (left), STARmap measurements (middle), and Allen atlas images (right) (color bar, normalized mRNA counts, see Methods) of four genes (gray labels) whose predicted patterns differ from STARmap measurement but match direct measurement by MERFISH. e, Predicted expression of test genes. Tangram-predicted (top) expression (top; color bar, normalized mRNA counts, see Methods) and corresponding ISH images from the Allen Brain Atlas (bottom) for six genes not measured by STARmap.
