Datasets for neighbor-dependent gene expression analysis with CellNeighborEX

The following datasets were used for CellNeighborEX:<b>SSembryo_log_data.txt</b> is the pre-processed expression data file in the mouse embryo Slide-seq data (Puck_190926_03). <b>SSembryo_cell_id.txt</b> contains information on the bead barcodes in the embryo data. <b>SSembryo_gene_name.txt</b> is the list of top 2000 genes plus cell type markers for the embryo data.<b>SSembryo_RCTD.csv</b> is the data file produced based on the result of deconvolution tool RCTD for the embryo data.<b>SSembryo_abbrev.csv</b> includes the abbreviations for cell types in the embryo data.<b>SShippo_log_data.txt</b> is the pre-processed expression data file in the mouse hippocampus Slide-seq data (Puck_200115_08). <b>SShippo_cell_id.txt </b>contains information on the bead barcodes in the hippocampus data. <b>SShippo_gene_name.txt</b> is the list of top 2000 genes plus cell type markers for the hippocampus data.<b>SShippo_RCTD.csv</b> is the data file produced based on the result of deconvolution tool RCTD for the hippocampus data.<b>SShippo_abbrev.csv</b> includes the abbreviations for cell types in the hippocampus data.<b>SSliver_log_data.txt </b>is the pre-processed expression data file in the mouse liver cancer Slide-seq data (mouse_liver_met_2_rna_201002_04). <b>SSliver_cell_id.txt</b> contains information on the bead barcodes in the liver cancer data. <b>SSliver_gene_name.txt</b> is the list of top 2000 genes plus cell type markers for the liver cancer data.<b>SSliver_RCTD.csv</b> is the data file produced based on the result of deconvolution tool RCTD for the liver cancer data.