Metadata record for the manuscript: Knockout of immunotherapy prognostic marker genes eliminates the effect of the anti-PD-1 treatment

Summary This metadata record provides details of the data supporting the claims of the related manuscript: “Knockout of immunotherapy prognostic marker genes eliminates the effect of the anti-PD-1 treatment ”. The related study sought to increase the statistical power of detecting genes related to patient survival by combining information from different studies involving various immunotherapies. Type of data: RNA sequencing, clinical data Subject of data: Mus musculus: Mouse B6. Malt1-/-, sourced from Ruefli-Brasse et al., 2003; Mouse B6. Malt1fl/fl, sourced from Cheng et al., 2019; Mouse B6. Dectin3-/-, sourced from Zhu et al. 2013. Sample size: RNA-seq data of 19 mice tumour tissues (WT mice received IgG: n=6; WT mice received anti-PD-1: n=6; KO mice received IgG: n=3; KO mice received anti-PD-1: n=4) Data access The RNA sequencing data are openly available in the Gene Expression Omnibus (GEO) repository via the following accession: https://identifiers.org/geo:GSE158056. The clinical data and genotype data of TCGA tumour samples are contained in the files ‘Table S4_ImmunotherapyPrognosticMarker Genes_list.xlsx’, ‘TCGA_clinical_rawdata.rar’, ‘dNdS_value_AllCancerType.tar.gz’, ‘Table S1_raw_clincaldata_TCGA.xlsx’, ‘immunotherapy-SNP-103.txt’, shared together with this metadata record. The tumour growth in WT and KO mice are contained in the files ‘Clec4d_WT-KO_TumorSize.pzf’, ‘Malt1_WT-KO-TumorSize.pzfx’, ‘MeanFluorescenceIntensity.pzfx’, shared together with this metadata record. The gene expression tables of TCGA tumour samples are contained in the files ‘EBPlusPlusAdjustPANCAN_IlluminaHiSeq_RNASeqV2-v2.geneExp.tsv.gz’, ‘TCGA_pancancer.FractionCorrection_logqq.exp.txt.gz’, ‘TCGA_pancancer.MutationCorrection_logqq.exp.txt.gz’, shared together with this metadata record. In addition to being available via the related publication, Supplementary Tables 1-6 are also available via this data record. Corresponding author(s) for this study Xun Lan, Tel: [phone]; Fax: [phone]; E-mail: [e-mail]. Xin Lin, Tel: [phone]; Fax: [phone]; E-mail: [e-mail].