A Novel Necroptosis-Related Gene Signature in Skin Cutaneous Melanoma Prognosis and Tumor Microenvironment

Song, Binyu; Wu, Pingfan; Liang, Zhen; Wang, Jianzhang; Zheng, Yu; Wang, Yuanyong; Chi, Hao; Li, Zichao; Song, Yajuan; Yin, Xisheng; Zhang, Yu; Song, Baoqiang

doi:10.3389/fgene.2022.917007

Cited by 21 publications

(21 citation statements)

References 52 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…However, only a limited number of HCC patients benefited from it, the efficacy of immunotherapy is affected by many factors specific to the individual, such as the unique TIME, the expression of the immune checkpoint genes and the related gene mutation levels. Tumor immune microenvironment (TME) has a significant impact on tumor progression process and therapy response, so that many researchers would conduct immune cell infiltration and TME analysis of tumors of their interest ( 49 – 51 ). In our work, with the application of CIBERSORT algorithm and ssGSEA approach, we found that macrophage M0 infiltration was greater in the high-risk group, while T cells CD4 memory resting was less infiltration.…”

Section: Discussionmentioning

confidence: 99%

An anoikis-related gene signature predicts prognosis and reveals immune infiltration in hepatocellular carcinoma

Yang

Lin

et al. 2023

Front. Oncol.

View full text Add to dashboard Cite

BackgroundHepatocellular carcinoma (HCC) is a global health burden with poor prognosis. Anoikis, a novel programmed cell death, has a close interaction with metastasis and progression of cancer. In this study, we aimed to construct a novel bioinformatics model for evaluating the prognosis of HCC based on anoikis-related gene signatures as well as exploring the potential mechanisms.Materials and methodsWe downloaded the RNA expression profiles and clinical data of liver hepatocellular carcinoma from TCGA database, ICGC database and GEO database. DEG analysis was performed using TCGA and verified in the GEO database. The anoikis-related risk score was developed via univariate Cox regression, LASSO Cox regression and multivariate Cox regression, which was then used to categorize patients into high- and low-risk groups. Then GO and KEGG enrichment analyses were performed to investigate the function between the two groups. CIBERSORT was used for determining the fractions of 22 immune cell types, while the ssGSEA analyses was used to estimate the differential immune cell infiltrations and related pathways. The “pRRophetic” R package was applied to predict the sensitivity of administering chemotherapeutic and targeted drugs.ResultsA total of 49 anoikis-related DEGs in HCC were detected and 3 genes (EZH2, KIF18A and NQO1) were selected out to build a prognostic model. Furthermore, GO and KEGG functional enrichment analyses indicated that the difference in overall survival between risk groups was closely related to cell cycle pathway. Notably, further analyses found the frequency of tumor mutations, immune infiltration level and expression of immune checkpoints were significantly different between the two risk groups, and the results of the immunotherapy cohort showed that patients in the high-risk group have a better immune response. Additionally, the high-risk group was found to have higher sensitivity to 5-fluorouracil, doxorubicin and gemcitabine.ConclusionThe novel signature of 3 anoikis-related genes (EZH2, KIF18A and NQO1) can predict the prognosis of patients with HCC, and provide a revealing insight into personalized treatments in HCC.

show abstract

Section: Discussionmentioning

confidence: 99%

An anoikis-related gene signature predicts prognosis and reveals immune infiltration in hepatocellular carcinoma

Yang

Lin

et al. 2023

Front. Oncol.

View full text Add to dashboard Cite

show abstract

“…CM is a lethal malignancy with an alarming and increasing incidence rate worldwide over the past years ( Song et al, 2022 ). It is well known that metastasis is a main factor leading to poor efficacy and prognosis of CM patients, despite the introduction of novel therapeutic approaches such as immunotherapy ( Burzi et al, 2021 ).…”

Section: Discussionmentioning

confidence: 99%

A novel risk model based on anoikis: Predicting prognosis and immune infiltration in cutaneous melanoma

et al. 2023

View full text Add to dashboard Cite

Cutaneous melanoma (CM) is a highly aggressive malignancy with a dimal prognosis and limited treatment options. Anoikis is believed to involve in the regeneration, migration, and metastasis of tumor. The exact role of anoikis-related genes (ARGs) in the development and progression of cutaneous melanoma, however, remains elusive. Four ARGs (SNAI2, TFDP1, IKBKG, and MCL1) with significant differential expression were selected through Cox regression and LASSO analyses. Data for internal and external cohorts validated the accuracy and clinical utility of the prognostic risk model based on ARGs. The Kaplan–Meier curve indicated a much better overall survival rate of low-risk patients. Notably, we also found that the action of ARGs in the CM was mediated by immune-related signaling pathways. Consensus clustering and TIME landscape analysis also indicated that the low-risk score patients have excellent immune status. Moreover, the results of immunotherapy response and drug sensitivity also confirmed the potential implications of informing individualized immune therapeutic strategies for CM. Collectively, the predictive risk model constructed based on ARGs provides an excellent and accurate prediction tool for CM patients. This present research provides a rationale for the joint application of targeted therapy and immunotherapy in CM treatment. The approach could have great therapeutic value and make a contribution to personalized medicine therapy.

show abstract

“…Finally, according to the drug sensitivity analysis, we screened 19 drugs with different sensitivities in the two risk groups, which may provide guidance for the treatment of melanoma. Song et al (2022a) , Song et al (2022b) utilized coagulation and apoptosis related genes to better predict the prognosis and tumor microenvironment of cutaneous melanoma. Although the recent researches on the model of cuproptosis predicting the prognosis of melanoma has shown a good prediction effect, it has not been verified in vivo or in vitro , and the true prediction effect of the model is still uncertain ( Liu et al, 2022 ; Zhou et al, 2022 ).…”

Section: Discussionmentioning

confidence: 99%

The value of cuproptosis-related differential genes in guiding prognosis and immune status in patients with skin cutaneous melanoma

et al. 2023

View full text Add to dashboard Cite

Background: Skin cutaneous melanoma (SKCM) is one of the most common cutaneous malignancies, which incidence is increasing. Cuproptosis is a new type of programming cell death recently reported, which may affect the progression of SKCM.Method: The mRNA expression data of melanoma were obtained from the Gene Expression Omnibus and the Cancer Genome Atlas databases. We constructed a prognostic model according to the cuproptosis-related differential genes in SKCM. Finally, real-time quantitative PCR was performed to verify the expression of cuproptosis-related differential genes in patients with different stages of cutaneous melanoma.Results: We detected 767 cuproptosis-related differential genes based on 19 cuproptosis-related genes, and screened out 7 differential genes to construct a prognostic model, which including three high-risk differential genes (SNAI2, RAP1GAP, BCHE), and four low-risk differential genes (JSRP1, HAPLN3, HHEX, ERAP2). Kaplan-Meier analysis indicated that SKCM patients with low-risk differential genes signals had better prognosis. The Encyclopedia of Genomes results manifested that cuproptosis-related differential genes are not only involved in T cell receptor signaling channel, natural killer cell mediated cytotoxicity, but also chemokine signaling pathway and B cell receptor signaling pathway. In our risk scoring model, the receiver operating characteristic (ROC) values of the three-time nodes are 0.669 (1-year), 0.669 (3-year) and 0.685 (5-year), respectively. Moreover, the tumor burden mutational and immunology function, cell stemness characteristics and drug sensitivity have significant differences between low-risk group and high-risk group. The mRNA level of SNAI2, RAP1GAP and BCHE in stage Ⅲ+Ⅳ SKCM patients was significantly higher than that in stage Ⅰ+Ⅱ patients, while the level of JSRP1, HAPLN3, HHEX and ERAP2 in stage Ⅰ+Ⅱ SKCM patients was more remarkable higher than that in stage Ⅲ+Ⅳ SKCM patients.Conclusion: In summary, we suggest that cuproptosis can not only regulate the tumor immune microenvironment but also affect the prognosis of SKCM patients, and may offer a basic theory for SKCM patients survival studies and clinical decision-making with potentially therapeutic drugs.

show abstract

A Novel Necroptosis-Related Gene Signature in Skin Cutaneous Melanoma Prognosis and Tumor Microenvironment

Cited by 21 publications

References 52 publications

An anoikis-related gene signature predicts prognosis and reveals immune infiltration in hepatocellular carcinoma

An anoikis-related gene signature predicts prognosis and reveals immune infiltration in hepatocellular carcinoma

A novel risk model based on anoikis: Predicting prognosis and immune infiltration in cutaneous melanoma

The value of cuproptosis-related differential genes in guiding prognosis and immune status in patients with skin cutaneous melanoma

Contact Info

Product

Resources

About