Cuproptosis scoring system to predict the clinical outcome and immune response in bladder cancer

Song, Qiang; Zhou, Rui; Shu, Fangpeng; Wen, Fuxi

doi:10.3389/fimmu.2022.958368

Cited by 97 publications

(76 citation statements)

References 31 publications

(35 reference statements)

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“…Also, the algorithm downweights attributions that do not track other set members. Followed by obtaining the prognostic value of each gene, the cuproptosisScore was defined with principal components 1 and 2, similar to the gene expression grade index (GGI) (50,51): cuproptosisScore = ∑(PC1 i + PC2 i ). PC1 i and PC2 i represent the expression score of each intersecting gene in two dimensions, respectively.…”

Section: Differentially Expressed Genes Between the Three Cuproptosis...mentioning

confidence: 99%

A novel cuproptosis-related molecular pattern and its tumor microenvironment characterization in colorectal cancer

Zhu

Zhao²,

Wang³

et al. 2022

Front. Immunol.

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Cuproptosis, or copper-induced cell death, has been reported as a novel noncanonical form of cell death in recent times. However, the potential roles of cuproptosis in the alteration of tumor clinicopathological features and the formation of a tumor microenvironment (TME) remain unclear. In this study, we comprehensively analyzed the cuproptosis-related molecular patterns of 1,274 colorectal cancer samples based on 16 cuproptosis regulators. The consensus clustering algorithm was conducted to identify cuproptosis-related molecular patterns and gene signatures. The ssGSEA and ESTIMATE algorithms were used to evaluate the enrichment levels of the infiltrated immune cells and tumor immune scores, respectively. The cuproptosis score was established to assess the cuproptosis patterns of individuals with principal component analysis algorithms based on the expression of cuproptosis-related genes. Three distinct cuproptosis patterns were confirmed and demonstrated to be associated with distinguishable biological processes and clinical prognosis. Interestingly, the three cuproptosis patterns were revealed to be consistent with three immune infiltration characterizations: immune-desert, immune-inflamed, and immune-excluded. Enhanced survival, activation of immune cells, and high tumor purity were presented in patients with low cuproptosisScore, implicating the immune-inflamed phenotype. In addition, low scores were linked to high tumor mutation burden, MSI-H and high CTLA4 expression, showing a higher immune cell proportion score (IPS). Taken together, our study revealed a novel cuproptosis-related molecular pattern associated with the TME phenotype. The formation of cuproptosisScore will further strengthen our understanding of the TME feature and instruct a more personalized immunotherapy schedule in colorectal cancer.

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Section: Differentially Expressed Genes Between the Three Cuproptosis...mentioning

confidence: 99%

A novel cuproptosis-related molecular pattern and its tumor microenvironment characterization in colorectal cancer

Zhu

Zhao²,

Wang³

et al. 2022

Front. Immunol.

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“…Then, a best model was generated by multivariate Cox regression model analysis. The risk score was computed as follows ( Song et al, 2022 ; Sotiriou et al, 2006 ):

…”

Section: Identification Of Cuproptosis-related Lncrnasmentioning

confidence: 99%

Comprehensive analysis of cuproptosis-related lncRNAs to predict prognosis and immune infiltration characteristics in colorectal cancer

Zhu

Zhao²,

Li³

et al. 2022

Front. Genet.

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Background: Cuproptosis is a novel form of cell death discovered in recent. A great quantity of researches has confirmed the close relationships and crucial roles between long non-coding RNAs (lncRNAs) with the progression of colorectal cancer (CRC). However, the relationship between cuproptosis and lncRNAs remains unclear in CRC.Methods: 1,111 co-expressed lncRNAs with 16 cuproptosis regulators were retrieved from CRC samples of The Cancer Genome Atlas (TCGA) database. Through univariate Cox and least absolute shrinkage and selection operator regression analysis, a prognosis model was constructed with 15 lncRNAs. The Kaplan-Meier, receiver operating characteristic curve, C-index and principal component analysis identified the prognostic power. Furthermore, a cuproptosis-related cluster was generated based on the 15 lncRNAs by unsupervised methods. The correlations between the cuproptosis-related signatures with immune cell infiltration and anti-tumor therapy were explored by multiple algorithms.Results: A risk score and nomogram with great prediction ability were constructed for CRC prognosis evaluation. The immune activate pathways, immune infiltration cells, immune functions, immune score and immune activation genes were remarkably enriched in the high risk group. The cuproptosis-related cluster was generated, of which the cluster 2 showed longer overall survival. The immune cell infiltration analysis indicated the similar results of cluster 2 with the high risk group, implying a significant marker for “hot tumor.” The cluster 2 also presented high expression of immune checkpoint molecules, MSI-H status and higher susceptibility to multiple immunotherapy drugs.Conclusion: We appraised a novel cuproptosis-related prognosis model and molecular signature associated with prognosis, immune infiltration and immunotherapy. The identification of cuproptosis-related lncRNAs improved our understanding of immune infiltration and provided a significant marker for prognosis and immunotherapy in CRC.

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“…In addition, the cuproptosis-related risk score could divide liver cancer patients into two groups with differences in mutation status and responded to target therapy in different ways ( Zhang et al, 2022 ). Furthermore, cuproptosis patterns were able to predict immunotherapy responses in bladder cancer patients ( Song et al, 2022 ). A previous study proved that cuproptosis plays an essential role in glioma growth and progression ( Buccarelli et al, 2021 ).…”

Section: Discussionmentioning

confidence: 99%

Cuproptosis-related gene signature stratifies lower-grade glioma patients and predicts immune characteristics

Zhang

Wang²,

Xu³

et al. 2022

Front. Genet.

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Cuproptosis is the most recently discovered type of regulated cell death and is mediated by copper ions. Studies show that cuproptosis plays a significant role in cancer development and progression. Lower-grade gliomas (LGGs) are slow-growing brain tumors. The majority of LGGs progress to high-grade glioma, which makes it difficult to predict the prognosis. However, the prognostic value of cuproptosis-related genes (CRGs) in LGG needs to be further explored. mRNA expression profiles and clinical data of LGG patients were collected from public sources for this study. Univariate Cox regression analysis and the least absolute shrinkage and selection operator (LASSO) Cox regression model were used to build a multigene signature that could divide patients into different risk groups. The differences in clinical pathological characteristics, immune infiltration characteristics, and mutation status were evaluated in risk subgroups. In addition, drug sensitivity and immune checkpoint scores were estimated in risk subgroups to provide LGG patients with precision medication. We found that all CRGs were differentially expressed in LGG and normal tissues. Patients were divided into high- and low-risk groups based on the risk score of the CRG signature. Patients in the high-risk group had a considerably lower overall survival rate than those in the low-risk group. According to functional analysis, pathways related to the immune system were enriched, and the immune state differed across the two risk groups. Immune characteristic analysis showed that the immune cell proportion and immune scores were different in the different groups. High-risk group was characterized by low sensitivity to chemotherapy but high sensitivity to immune checkpoint inhibitors. The current study revealed that the novel CRG signature was related to the prognosis, clinicopathological features, immune characteristics, and treatment perference of LGG.

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Cuproptosis scoring system to predict the clinical outcome and immune response in bladder cancer

Cited by 97 publications

References 31 publications

A novel cuproptosis-related molecular pattern and its tumor microenvironment characterization in colorectal cancer

A novel cuproptosis-related molecular pattern and its tumor microenvironment characterization in colorectal cancer

Comprehensive analysis of cuproptosis-related lncRNAs to predict prognosis and immune infiltration characteristics in colorectal cancer

Cuproptosis-related gene signature stratifies lower-grade glioma patients and predicts immune characteristics

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