Significance of immunogenic cell death-related genes in prognosis prediction and immune microenvironment landscape of patients with cutaneous melanoma

Abstract

Cutaneous melanoma (CM) is one of the most life-threatening tumors. Although targeted therapies and immune checkpoint inhibitors have significantly improved patient outcomes over the past decades, they still have their efficacy limitations. Immunogenic cell death (ICD) induces regulated cell death through immunogenic signal secretion and exposure. Accumulated evidence suggests that the ICD process is an effective target for the treatment of a variety of tumor types, including CM. However, the research on ICD in CM is far from complete, and its clinical value has not been widely concerned. By analyzing the Cancer Genome Atlas (TCGA) database, we constructed a new risk model based on 4 ICD-related genes and validated its ability to predict the prognosis of CM patients. In addition, we comprehensively analyzed the tumor microenvironment (TME) of CM patients and showed a significant immunosuppressive TME in the high-risk group compared with the low-risk group. By Immunophenoscore (IPS), we further explored the correlation between the model and immunotherapy response. The data of Genomics of Drug Sensitivity in Cancer (GDSC) database were further extracted to analyze drug sensitivity and evaluate its correlation with the established risk model. In the end, differential expressed genes (DEGs) were analyzed by Gene Set Variation Analysis (GSVA) to preliminarily explore the possible signaling pathways related to the prognosis of ICD and CM. The results of this study provide new perspectives and insights for individualized and accurate treatment strategies for CM patients.

GEO data mining identifies potential immune-related genes in hypertrophic scar and verities in a rabbit model

“…We also found evidence underlying the numerical correlation between immune cell infiltrates in HTS, such as CD4 T cells (memory and resting) and CD8 T cells, resting and activated NK cells, and monocytes and macrophages M0. Some of these have been previously reported and others remain to be confirmed [ [21] , [22] , [23] ]. We compared the differences in immune infiltrating cell composition between HTS and normal tissues.…”

Development of anoikis-related long non-coding RNA signature associated with prognosis and immune landscape in cutaneous melanoma patients

“…We followed the methods of Ma et al [ 35 ]. The transcriptome data (TPM) as well as clinical information of 454 patients involved in this study was collected from The Cancer Genome Atlas (TCGA, https://portal.gdc.cancer.gov/ ).…”

Development of a prognostic model based on anoikis-related genes for predicting clinical prognosis and immunotherapy of hepatocellular carcinoma

“…For this study, the transcriptome matrix (TPM), which included survival time, survival status, age, gender, stage, T stage, and N stage, was retrieved from the TCGA database ( https://portal.gdc.cancer.gov/ ). A total of 365 HCC samples were included in the analysis [ 28 ]. Perl scripts were utilized to merge the gene expression data of each sample.…”