Data for "Peroxisomal interactome mapping enables network-based modelling of function and disease." by Gersting et al.

This data includes all necessary files to reproduce the results of the paper "Peroxisomal interactome mapping enables network-based modelling of function and disease." by Gersting et al. To reproduce the findings of this publication, Python and R code are made available via github. All files provided here must be downloaded in order to execute the provided code. The files NCBI_Homo_sapiens.gene_info, GO_gene2go and HGNC_gene_with_protein_product.txt contain the publicly available data from https://ftp.ncbi.nih.gov and https://www.genenames.org/download/. However these databases do not offer archived data. To provide reproducibility the files downloaded the 26th August 2023 are made available here. The file filtered_merged_HuRI_MINT_IntAct_BioGrid.csv contains the integrated data of the protein protein interaction databases HuRI, MINT, IntAct and Biogrid (downloaded the 26th August 2026) for more details see methods section of the provided publication. The files Bret_screen_entrez_final.txt and PEX_genes_final.xlsx contain the protein protein interaction data identified via iBRET and list of peroxisomal proteins investigated. proteins_lysosome_expert_curated.xlsx contains a expert curated list of lysosomal proteins. The Yifrach_adapted.xlsx contains the set of peroxisomal proteins as published by Yifrach et al. (DOI: 10.1007/978-981-13-2233-4_2). An overview of the reference data set can be found in PRS_overview.txt for the "positive" reference data set and RRS_overview.txt for the "random / negativ" reference data set RawData of measurement of the reference data sets can be found in reference_data_pex_interactome.txt and reference_data_pex11_interactome.txt Description of data format for interactions measurements:Column 1 and 2 identifier of experimentColumn 3: protein 1Column 4: Description of the tag for protein 1 in format T-P, where T may be C or N and P hRluc or VenusColumn 5: protein 2Column 6: Description of the tag for protein 2, same format as for Column 4Column 7: identifier of experimentColumn 8: Donor to acceptor ratio, format donor:acceptorColumn 9: Type; either PRS (positive reference data set) or RRS (random reference data set) The following columns provide actual data values:First we have 2 columns for all hRluc values, then 2 columns for all Venus values and finally 2 columns for BRET-ratios (pre-calculated). The last column may contain the average BRET ratio.