This dataset contains processed tabular and annotated single-cell data supporting the study “Spatial profiling of pooled mRNA-LNP delivery in vivo with NanoSTAMP.” The data support analyses presented in Supplementary Figure 1c, Figure 1d–g, Figure 2, and Supplementary Figures 6–11. Deposited files include CSV and H5AD datasets containing detected RCA-FISH spots, cell-level barcode assignments, decoded lipid nanoparticle identities, frozen cell-type annotations, imaging-marker measurements, and spatial-neighborhood analysis inputs and reference outputs. The data were generated through fluorescence image processing, Laplacian-of-Gaussian spot detection, Cellpose-based segmentation, 12-bit LNP barcode decoding, spot-to-cell assignment, and downstream cell-type, functional, and nearest-neighbor spatial analyses. Raw and registered microscopy TIFF images are not included; the deposit supports reproducibility beginning from the processed CSV and H5AD files. Cleaned analysis notebooks and software requirements will be available at https://github.com/HickeyLab/NanoSTAMP upon manuscript submission.
