Data connected with "Cell signaling pathways discovery from multi-modal data"

Input data used to run Incytr as described in "Cell signaling pathways discovery from multi-modal data": mc38_input_data: pr_10, pr_14: total proteomics for 10 and 14 day conditions deconvoluted by cell type ps_10, ps_14: pS phosphoproteomics for 10 and 14 day conditions deconvoluted by cell type py_10, py_14: pY phosphoproteomics for 10 and 14 day conditions deconvoluted by cell type kldata: Kinase Library predictions for observed phosphosites mc38b.rds: Seurat object with scRNA-seq data input_gene_list: markers and highly expressed genes in transcriptomics data 5xfad_input_data: processed_pr_5X_v2, processed_pr_WT_v2: total proteomics for 5X and WT conditions deconvoluted by cell type processed_ps_5X_v2, processed_ps_WT_v2: pS phosphoproteomics for 5X and WT conditions deconvoluted by cell type processed_py_5X_v2, processed_py_WT_v2: pY phosphoproteomics for 5X and WT conditions deconvoluted by cell type kldata: Kinase Library predictions for observed phosphosites transcriptomics is available from Zhou et al. (2020) covid_input_data: covid_bl_t_2024.rds: Seurat object with scRNA-seq data (T cells from BL group) additional_input_genes: additional genes used as input to Incytr besides those indicated through high expression in the transcriptomic data First cohort data available at Gene Expression Omnibus (GSE186267)