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. 2020 May 5;8(1):e000617. doi: 10.1136/jitc-2020-000617

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© Author(s) (or their employer(s)) 2020. Re-use permitted under CC BY-NC. No commercial re-use. See rights and permissions. Published by BMJ.

This is an open access article distributed in accordance with the Creative Commons Attribution Non Commercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited, appropriate credit is given, any changes made indicated, and the use is non-commercial. See http://creativecommons.org/licenses/by-nc/4.0/.

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Immunological classification of 31 cancer types based on expression of ICR gene signature A. Consensus cluster matrix of SKCM samples based on RNA-seq expression values of ICR genes (left panel). RNA-seq expression heatmap of ICR genes annotated with ICR consensus clusters (n=469). Clusters with intermediate ICR gene expression levels (ICR Medium1 and ICR Medium2) were combined to obtain ICR high, medium and low groups (HML classification). ICR genes reflect four components of immune mediated tissue rejection: Th-1 signaling, CXCR3/CCR5 chemokines, immune effectors and immune regulatory functions (right panel). (B) Boxplot of ICR scores across ICR clusters in 31 cancer types. Cancer types are ordered by mean ICR score per cancer. (C) Forest plot showing Hrs (overall survival) of ICR low versus high, p value and number of patients (N) for each of the cancer types. ICR-enabled cancer types (HR >1; p<0.1) are indicated with orange asterisks and ICR-disabled cancer types (HR <1; p>0.1) are indicated with purple asterisks. Cancer types pCpG, THYM and TGCT are excluded from the plot, because CIs ranged from 0 to infinite due to low number of deaths in these cancer types. (D) Kaplan-Meier curves showing OS across ICR groups in ICR-enabled and ICR-disabled cancer types. ((A) Kaplan-Meier curves for each individual cancer type are available in the cancer datasheets). ICR, immunologic constant of rejection; OS, overall survival; Th-1, T helper 1. ACC: Adrenocortical Carcinoma; BLCA: Bladder Urothelial Carcinoma; BRCA: Breast Invasive Carcinoma; CESC: Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma; CHOL: Cholangiocarcinoma; COAD: Colon Adenocarcinoma; ESCA: Esophageal Carcinoma; GBM: Glioblastoma; HNSC: Head and Neck Squamous Cell Carcinoma; KICH: Kidney Chromophobe; KIRC: Kidney Renal Clear Cell Carcinoma; KIRP: Kidney Renal Papillary Cell Carcinoma; LGG: Low Grade Glioma; LIHC: Liver Hepatocellular Carcinoma; LUAD: Lung Adenocarcinoma; LUSC: Lung Squamous Cell Carcinoma; MESO: Mesothelioma; OV: Ovarian Serous Cystadenocarcinoma; PAAD: Pancreatic Adenocarcinoma; PCPG: Pheochromocytoma and Paraganglioma; PRAD: Prostate Adenocarcinoma; READ: Rectum Adenocarcinoma; SARC: Sarcoma; SKCM: Skin Cutaneous Melanoma; STAD: Stomach Adenocarcinoma; TGCT: Testicular Germ Cell Tumors; THCA: Thyroid Carcinoma; THYM: Thymoma; UCEC: Uterine Corpus Endometrial Carcinoma; UCS: Uterine carcinosarcoma; UVM Uveal Melanoma.