4.3. Data resource and curation

We manually retrieved and curated 25 studies associated with SARS-CoV-2 on viral protein/RNA-host protein interaction. All data resources and relevant information (including method, cell line, tags, baits, and datasets) are summarized in Table 1. As the interactome data were from various sources, we mapped the viral and host gene names using an NCBI resource (ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/gene_info.gz, March 2022) to unify the names. In addition, we also manually collected and downloaded CRISPR screening data associated with SARS-CoV-2. The interactome of SARS-CoV-2 proteins in BioGRID (https://thebiogrid.org/, BIOGRID-4.4.202) was downloaded and extracted (Oughtred et al., 2021). The post-translational modifications (PTMs) datasets including phosphorylation, acetylation, ubiquitination, methylation, sumoylation, and O-glycosylation were downloaded from PhosphoSitePlus database at https://www.phosphosite.org/homeAction (Hornbeck et al., 2015). We extracted the localization information of host proteins from the Cell Map database at https://humancellmap.org/(Go et al., 2021). Human protein sequences were downloaded from UniProt database at https://www.uniprot.org/(Uniprot, 2021). The gene expression profiles across various tissues were downloaded from GTEx database at https://www.gtexportal.org (Consortium, 2020). Similarly, to facilitate the subsequent integrated analysis, we unified the gene names from various data sources using the above NCBI resource.