Additional file 2 of Kinase inhibitor pulldown assay (KiP) for clinical proteomics

Additional file 2. Comprehensive Data Compilation from Multiple Excel Spreadsheets. ExpNo_mapping_table Mapping identifier to raw files. 55Druggable_Kinases List of kinases deemed “druggable” based on available information. 47basal_luminal_specific_proteins List of additional kinases of interest based on preliminary experiments. sKiPs_counts count of Strict gene products (Mascot IonScore >= 30, q-value <= 0.01) corresponding to Figure 1. FunCats_mapping Mapping table to in-house protein Functional Categories corresponding to Figure 1. Dilutions_9KiP_counts Total kinase counts across dilutions (variable input) corresponding to Figure 2. Depletions_9KiP_counts Total kinase counts across depletions corresponding to Figure 2. Depletions_9KiP_individual_DDA Individual kinase values (iBAQ log transformed) for DDA data corresponding to Figure 2. Log scale. Dilutions_9KiP_individual_DDA Individual kinase values (iBAQ log transformed) for DDA data corresponding to Figures 2-3. Log scale. Dilutions_9KiP_individual_PRM Individual kinase values for PRM data corresponding to Figure 3. Linear scale. WHIM_PDX_PRM_Transitions_Sum PRM measurements for WHIM PDXs corresponding to Figure 4. Linear scale. Basal_vs_Luminal_pvalues Raw p-values across datasets for WHIM PDXs corresponding to Figure 4. DP1_POL_ClinicalSamples_PRM_zscore PRM data (log transformed and zscored) for clinical samples corresponding to Figure 5. Heavy_Peptide_summary Summary of peptides explored for use as heavy trigger peptides. WHIM_PDX_SureQuant_Transitions Transition intensities for experimental peptides, linear scale. WHIM_PDX_SureQuant_TransitionsTICnorm Transition intensities for experimental peptides, linear scale, after TIC normalization.