Development and Validation of a Novel Ferroptosis-Related LncRNA Signature for Predicting Prognosis and the Immune Landscape Features in Uveal Melanoma

Ma, Xiaochen1; Yu, Sejie1; Zhao, Bin2; Bai, Wei1; Cui, Yubo3,4; Ni, Jinglan1; Lyu, Qinghua3,4; Zhao, Jun3,4

2022-06-14

10.3389/fimmu.2022.922315

Frontiers in Immunology   Impact Factor & Quartile

1664-3224

BackgroundFerroptosis is a newly iron-dependent mode of programmed cell death that is involved in a variety of malignancies. But no research has shown a link between ferroptosis-related long non-coding RNAs (FRLs) and uveal melanoma (UM). We aimed to develop a predictive model for UM and explore its potential function in relation to immune cell infiltration. MethodsIdentification of FRLs was performed using the Cancer Genome Atlas (TCGA) and FerrDb databases. To develop a prognostic FRLs signature, univariate Cox regression and least absolute shrinkage and selection operator (LASSO) were used in training cohort. Kaplan-Meier (K-M) and receiver operating characteristic (ROC) curve analyses were used to assess the reliability of the risk model. The immunological functions of FRLs signature were determined using gene set enrichment analysis (GSEA). Immunological cell infiltration and immune treatment were studied using the ESTIMATE, CIBERSORT, and ssGSEA algorithms. Finally, in vitro assays were carried out to confirm the biological roles of FRLs with known primer sequences (LINC00963, PPP1R14B.AS1, and ZNF667.AS1). ResultsA five-genes novel FRLs signature was identified. The mean risk score generated by this signature was used to create two risk groups. The high-risk score UM patients had a lower overall survival rate. The area under the curve (AUC) of ROC and K-M analysis further validated the strong prediction capacity of the prognostic signature. Immune cells such as memory CD8 T cells, M1 macrophages, monocytes, and B cells showed a substantial difference between the two groups. GSEA enrichment results showed that the FRLs signature was linked to certain immune pathways. Moreover, UM patients with high-risk scores were highly susceptible to several chemotherapy drugs, such as cisplatin, imatinib, bortezomib, and pazopanib. Finally, the experimental validation confirmed that knockdown of three identified lncRNA (LINC00963, PPP1R14B.AS1, and ZNF667.AS1) suppressed the invasive ability of tumor cells in vitro. ConclusionThe five-FRLs (AC104129.1, AC136475.3, LINC00963, PPP1R14B.AS1, and ZNF667.AS1) signature has effects on clinical survival prediction and selection of immunotherapies for UM patients.

ferroptosis lncRNA immune microenvironment uveal melanoma bioinformatics prognostic value

SCI

English

Corresponding

Science, Technology and Innovation Commission of Shenzhen Municipality["JCYJ20210324113610029","JCYJ20180228164400218"]

Immunology

Immunology

WOS:000817682600001

FRONTIERS MEDIA SA

Web of Science

1.Jinan Univ, Clin Med Coll 2, Shenzhen, Peoples R China
2.Hong Kong Univ Sci & Technol, Shenzhen Peking Univ, Biomed Res Inst, Med Ctr, Shenzhen, Peoples R China
3.Jinan Univ, Shenzhen Peoples Hosp, Dept Ophthalmol, Clin Med Coll 2, Shenzhen, Peoples R China
4.Southern Univ Sci & Technol, Affiliated Hosp 1, Shenzhen, Peoples R China

Ma, Xiaochen,Yu, Sejie,Zhao, Bin,et al. Development and Validation of a Novel Ferroptosis-Related LncRNA Signature for Predicting Prognosis and the Immune Landscape Features in Uveal Melanoma[J]. Frontiers in Immunology,2022,13.

Ma, Xiaochen.,Yu, Sejie.,Zhao, Bin.,Bai, Wei.,Cui, Yubo.,...&Zhao, Jun.(2022).Development and Validation of a Novel Ferroptosis-Related LncRNA Signature for Predicting Prognosis and the Immune Landscape Features in Uveal Melanoma.Frontiers in Immunology,13.

Ma, Xiaochen,et al."Development and Validation of a Novel Ferroptosis-Related LncRNA Signature for Predicting Prognosis and the Immune Landscape Features in Uveal Melanoma".Frontiers in Immunology 13(2022).