Determination of hypoxia signature to predict prognosis and the tumor immune microenvironment in melanoma

2021 ◽  
Vol 17 (2) ◽  
pp. 307-316
Author(s):  
Yanhong Shou ◽  
Lu Yang ◽  
Yongsheng Yang ◽  
Xiaohua Zhu ◽  
Feng Li ◽  
...  
Keyword(s):  
Prognostic Factor ◽  
Predictive Biomarker ◽  
Independent Prognostic Factor ◽  
Immune Microenvironment ◽  
Tumor Immune Microenvironment ◽  
Hypoxia Signature

The hypoxia score is identified as an independent prognostic factor and a predictive biomarker of the immune microenvironment for melanoma.

scholarly journals A Hypoxia Signature for Predicting Prognosis and Tumor Immune Microenvironment in Adrenocortical Carcinoma

2021 ◽  
Vol 2021 ◽  
pp. 1-11
Author(s):  
Xi Chen ◽  
Lijun Yan ◽  
Yu Lu ◽  
Feng Jiang ◽  
Ni Zeng ◽  
...  
Keyword(s):  
Regression Analysis ◽  
High Risk ◽  
Adrenocortical Carcinoma ◽  
Risk Group ◽  
Gene Signature ◽  
High Risk Group ◽  
Immune Microenvironment ◽  
Gene Sets ◽  
Tumor Immune Microenvironment ◽  
Hypoxia Signature

Adrenocortical carcinoma (ACC) is a rare malignancy with dismal prognosis. Hypoxia is one of characteristics of cancer leading to tumor progression. For ACC, however, no reliable prognostic signature on the basis of hypoxia genes has been built. Our study aimed to develop a hypoxia-associated gene signature in ACC. Data of ACC patients were obtained from TCGA and GEO databases. The genes included in hypoxia risk signature were identified using the Cox regression analysis as well as LASSO regression analysis. GSEA was applied to discover the enriched gene sets. To detect a possible connection between the gene signature and immune cells, the CIBERSORT technique was applied. In ACC, the hypoxia signature including three genes (CCNA2, COL5A1, and EFNA3) was built to predict prognosis and reflect the immune microenvironment. Patients with high-risk scores tended to have a poor prognosis. According to the multivariate regression analysis, the hypoxia signature could be served as an independent indicator in ACC patients. GSEA demonstrated that gene sets linked to cancer proliferation and cell cycle were differentially enriched in high-risk classes. Additionally, we found that PDL1 and CTLA4 expression were significantly lower in the high-risk group than in the low-risk group, and resting NK cells displayed a significant increase in the high-risk group. In summary, the hypoxia risk signature created in our study might predict prognosis and evaluate the tumor immune microenvironment for ACC.

scholarly journals Identification of Hypoxia Signature to Assess the Tumor Immune Microenvironment and Predict Prognosis in Patients with Ovarian Cancer

2021 ◽  
Vol 2021 ◽  
pp. 1-16
Author(s):  
Chunyan Wei ◽  
Xiaoqing Liu ◽  
Qin Wang ◽  
Qipei Li ◽  
Min Xie
Keyword(s):  
Ovarian Cancer ◽  
Risk Model ◽  
Risk Group ◽  
Plasmacytoid Dendritic Cell ◽  
Gene Signature ◽  
Immune Checkpoints ◽  
Immune Microenvironment ◽  
Cell Immunity ◽  
Tumor Immune Microenvironment ◽  
Hypoxia Signature

Background. The 5-year overall survival rate of ovarian cancer (OC) patients is less than 40%. Hypoxia promotes the proliferation of OC cells and leads to the decline of cell immunity. It is crucial to find potential predictors or risk model related to OC prognosis. This study aimed at establishing the hypoxia-associated gene signature to assess tumor immune microenvironment and predicting the prognosis of OC. Methods. The gene expression data of 378 OC patients and 370 OC patients were downloaded from datasets. The hypoxia risk model was constructed to reflect the immune microenvironment in OC and predict prognosis. Results. 8 genes (AKAP12, ALDOC, ANGPTL4, CITED2, ISG20, PPP1R15A, PRDX5, and TGFBI) were included in the hypoxic gene signature. Patients in the high hypoxia risk group showed worse survival. Hypoxia signature significantly related to clinical features and may serve as an independent prognostic factor for OC patients. 2 types of immune cells, plasmacytoid dendritic cell and regulatory T cell, showed a significant infiltration in the tissues of the high hypoxia risk group patients. Most of the immunosuppressive genes (such as ARG1, CD160, CD244, CXCL12, DNMT1, and HAVCR1) and immune checkpoints (such as CD80, CTLA4, and CD274) were upregulated in the high hypoxia risk group. Gene sets related to the high hypoxia risk group were associated with signaling pathways of cell cycle, MAPK, mTOR, PI3K-Akt, VEGF, and AMPK. Conclusion. The hypoxia risk model could serve as an independent prognostic indicator and reflect overall immune response intensity in the OC microenvironment.

scholarly journals Stromal score as a prognostic factor in primary gastric cancer and close association with tumor immune microenvironment

2020 ◽  
Vol 9 (14) ◽  
pp. 4980-4990
Author(s):  
Min Mao ◽  
Qingliang Yu ◽  
Rongzhi Huang ◽  
Yunxin Lu ◽  
Zhen Wang ◽  
...  
Keyword(s):  
Gastric Cancer ◽  
Prognostic Factor ◽  
Close Association ◽  
Immune Microenvironment ◽  
Primary Gastric Cancer ◽  
Tumor Immune Microenvironment

Early determination of homocysteine levels in acute coronary syndromes, is it an independent prognostic factor?

2005 ◽  
Vol 100 (2) ◽  
pp. 275-279 ◽  
Author(s):  
Lorenzo Fácila ◽  
Julio E. Nuñez ◽  
Vicente Bertomeu G. ◽  
Juan Sanchis ◽  
Vicent Bodi ◽  
...  
Keyword(s):  
Prognostic Factor ◽  
Acute Coronary Syndromes ◽  
Independent Prognostic Factor ◽  
Coronary Syndromes

scholarly journals Comprehensive Analysis Identified ETV7 as a Potential Prognostic Biomarker in Bladder Cancer

2021 ◽  
Vol 2021 ◽  
pp. 1-21
Author(s):  
Haimeng Li ◽  
Yibo Zhang ◽  
Shangyong Zheng
Keyword(s):  
Bladder Cancer ◽  
Transcription Factor ◽  
Prognostic Factor ◽  
Tumor Microenvironment ◽  
Immune Cells ◽  
Functional Enrichment ◽  
Immune Microenvironment ◽  
Gene Set ◽  
Tumor Immune Microenvironment ◽  
Low Expression

Background. The tumor microenvironment (TME) plays a crucial role in the initiation and progression of cancer. Bladder cancer (BLCA) is a malignant tumor of the genitourinary system. Its heterogeneity results in significant differences in the prognosis of patients. To date, this is still a huge challenge for clinical treatment. In recent years, more and more evidence showed that dysregulation of transcription factors (TFs) plays an important role in tumor progression, invasion, and metastasis. Unfortunately, the role of TFs on the tumor microenvironment in bladder cancer is unclear. Methods. The original data of BLCA and corresponding adjacent tissues were obtained from The Cancer Genome Atlas (TCGA) database. TFs were downloaded from the Animal Transcription Factor DataBase (Animal TFDB). Intersection analysis was used to obtain TFs that were differentially expressed between tumor and adjacent tissues. Gene Set Cancer Analysis (GSCALite) and CIBERSORT software were used to reveal the key differentially expressed TFs (DE-TFs). Subsequently, UALCAN and Human Protein Atlas (HPA) databases were used to disclose the expression of key DE-TFs in BLCA. The K - M curve divulged the relationship between the key DE-TFs and the patient’s overall survival (OS), and the univariate and multivariate Cox regression analyses were conducted to explore independent prognostic factors. The cluster profiler package and Gene Set Enrichment Analysis (GSEA) were used for functional enrichment of genes related to the key DE-TFs. Finally, CIBERSORT software analyzed the immune landscape of BLCA. Results. We obtained a total of 117 BLCA-related DE-TFs. Among them, ETV7 was identified as the key DE-TFs due to its association with the autophagy activation pathway and various immune cells in cancer. Online databases of UALCAN and HPA indicated that ETV7 was overexpressed in tumors and negatively correlated with tumor severity. The K - M curve showed that the OS of patients with high expression of ETV7 was poor, which indicated that it was an independent prognostic factor. Functional enrichment of 87 DEGs between ETV7-high and -low expression groups indicated that it was closely related to the immune response and the functions of a variety of immune cells. Finally, CIBERSORT results proved that the high and low expression of ETV7 also caused significant differences in the tumor immune microenvironment of patients. Conclusion. Overall, we proved that the transcription factor ETV7 was a novel prognostic factor, which may improve the individualized outcome prediction in BLCA by regulating the tumor immune microenvironment.

scholarly journals Tumor Budding Correlates With the Protumor Immune Microenvironment and Is an Independent Prognostic Factor for Recurrence of Stage I Lung Adenocarcinoma

CHEST Journal ◽  
2015 ◽  
Vol 148 (3) ◽  
pp. 711-721 ◽  
Author(s):  
Kyuichi Kadota ◽  
Yi-Chen Yeh ◽  
Jonathan Villena-Vargas ◽  
Leonid Cherkassky ◽  
Esther N. Drill ◽  
...  
Keyword(s):  
Prognostic Factor ◽  
Lung Adenocarcinoma ◽  
Independent Prognostic Factor ◽  
Stage I ◽  
Tumor Budding ◽  
Immune Microenvironment

scholarly journals A Five Collagen-Related Gene Signature to Estimate the Prognosis and Immune Microenvironment in Clear Cell Renal Cell Cancer

Vaccines ◽  
2021 ◽  
Vol 9 (12) ◽  
pp. 1510
Author(s):  
Xiaokai Shi ◽  
Xiao Zhou ◽  
Chuang Yue ◽  
Shenglin Gao ◽  
Zhiqin Sun ◽  
...  
Keyword(s):  
High Risk ◽  
Prognostic Factor ◽  
Renal Cell Cancer ◽  
Renal Cell ◽  
Clear Cell ◽  
Cell Cancer ◽  
Gene Signature ◽  
Independent Prognostic Factor ◽  
Related Gene ◽  
Immune Microenvironment

Collagen is the main component of the extracellular matrix (ECM) and might play an important role in tumor microenvironments. However, the relationship between collagen and clear cell renal cell cancer (ccRCC) is still not fully clarified. Hence, we aimed to establish a collagen-related signature to predict the prognosis and estimate the tumor immune microenvironment in ccRCC patients. Patients with a high risk score were often correlated with unfavorable overall survival (OS) and an immunosuppressive microenvironment. In addition, the collagen-related genetic signature was highly correlated with clinical pathological features and can be considered as an independent prognostic factor in ccRCC patients. Moreover, GSEA results show that patients with a high risk grade tend to be associated with epithelial–mesenchymal junctions (EMT) and immune responses. In this study, we developed a collagen-related gene signature, which might possess the potential to predict the prognosis and immune microenvironment of ccRCC patients and function as an independent prognostic factor in ccRCC.

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