Additional file 9 of Amyloid fibril proteomics of AD brains reveals modifiers of aggregation and toxicity

Additional file 9: Table S7. List of proteins identified in label-free MS analysis of amyloid fibrils isolated from Aβ42 fly heads. Proteins identified with significantly higher levels in purified fibrils obtained from Aβ42 flies, compared to control Lac-Z flies (N = four independent biological replicates). In sheet 1, NSAF values for purified fibrils and cortex homogenates for individual proteins were used, each row has individual p values using Student’s t test, followed by adjusted p values with BH correction. Corresponding human and mouse orthologs have been identified for each fly gene (https://www.flyrnai.org/diopt). Sheet 2 shows proteins considered for obtaining RNAi lines following identification of Fly orthologs based on scoring. Sheet 3 and 4 indicates individual severity score and all the analysis performed, Sheet 5 and 6 indicates orthologous human and mouse genes, respectively. Experiment = specific data set, Uniprot accession= Uniprot identifier for each protein, ratio= log2 average NSAF values of purified fibrils (Aβ42 /control flies), protein = protein name, t test p value = t test p value, Rank = rank ordered proteins based on p value (if p values are identical, higher ratio was listed first), Adjusted p value is calculated using BH correction, description= protein description, putative human ortholog = human gene orthologous to the identified fly genes, putative mouse ortholog = mouse gene orthologous to the identified fly genes obtained using Dipot online tool, only high and moderate scoring genes were considered in the analysis). Additional remarks indicate if results (increased abundance in purified fibrils) are statistically significant or not.