Identification and Validation of a Prognostic Model of Necroptosis-related LncRNAs in Hepatocellular Carcinoma

Overview

Journal Front Genet

Date 2022 Oct 17

PMID 36246594

Authors

Min Chen

Guang-Bo Wu

Shan Hua

Zhi-Feng Zhao

Hong-Jie Li

Meng Luo

Affiliations

Soon will be listed here.

Abstract

The study focused on establishing a prognostic survival model with six necroptosis-related lncRNAs to predict overall survival (OS) in patients with hepatocellular carcinoma (HCC). The data of gene expression and clinical information of HCC patients were obtained from The Cancer Genome Atlas (TCGA). Cox regression with LASSO was used for constructing a necroptosis-related lncRNA survival model, which we further validated with qRT-PCR . The relative bioinformatics analysis and consensus cluster analysis were performed based on six differentially expressed lncRNAs. The survival prognostic model was constructed by using data from TCGA. Receiver operating characteristic (ROC) curves showed a good survival prediction by this model. GSEA showed that several signaling pathways were related to HCC progression. Immune-related functional analysis showed that aDCs, macrophages, Th2 cells, and Tregs have stronger correlation with the high-risk group. The consensus cluster analysis further validated the 6-lncRNA prognostic model. A novel 6-lncRNA (AL606489.1, NRAV, LINC02870, DUXAP8, "ZFPM2-AS1," and AL031985.3) prognostic model had an accurately predictive power in HCC prognosis, which might be worthy of clinical application.

Citing Articles

Identification of anoikis-related long non-coding RNA signature as a novel prognostic model in lung adenocarcinoma.

Fang X, Wei M, Liu X, Lu L, Liu G Transl Cancer Res. 2024; 13(10):5458-5472.

PMID: 39525036 PMC: 11543027. DOI: 10.21037/tcr-24-264.

Unlocking the Potential of Disulfidptosis-Related LncRNAs in Lung Adenocarcinoma: A Promising Prognostic LncRNA Model for Survival and Immunotherapy Prediction.

Nie X, Ge H, Wu K, Liu R, He C Cancer Med. 2024; 13(20):e70337.

PMID: 39431755 PMC: 11492340. DOI: 10.1002/cam4.70337.

Deciphering the Role of Necroptosis-Related Long Non-coding RNAs in Hepatocellular Carcinoma: A Necroptosis-Related lncRNA-Based Signature to Predict the Prognosis of Hepatocellular Carcinoma.

Ye G, Wang M, Diao Y, Li C, Yao L, Gu L Appl Biochem Biotechnol. 2024; 197(1):313-334.

PMID: 39115788 DOI: 10.1007/s12010-024-05014-1.

Identification of immune cell-related prognostic genes characterized by a distinct microenvironment in hepatocellular carcinoma.

Li M, Zheng K, Qiu Y World J Clin Oncol. 2024; 15(2):243-270.

PMID: 38455128 PMC: 10915937. DOI: 10.5306/wjco.v15.i2.243.

Long Non-coding RNA 02298 Promotes the Malignancy of HCC by Targeting the miR-28-5p/CCDC6 Pathway.

Wang J, Xu B, Liang L, Chen Q Biochem Genet. 2024; 62(6):4967-4986.

PMID: 38381357 DOI: 10.1007/s10528-023-10662-9.

References

Chen W, Cai M, Wei D, Wang X . Pivotal molecules of MHC I pathway in human primary hepatocellular carcinoma. World J Gastroenterol. 2005; 11(21):3297-9. PMC: 4316068. DOI: 10.3748/wjg.v11.i21.3297. View

Qian B, Pollard J . Macrophage diversity enhances tumor progression and metastasis. Cell. 2010; 141(1):39-51. PMC: 4994190. DOI: 10.1016/j.cell.2010.03.014. View

Tran N, Su H, Khodadadi-Jamayran A, Lin S, Zhang L, Zhou D . The AS-RBM15 lncRNA enhances RBM15 protein translation during megakaryocyte differentiation. EMBO Rep. 2016; 17(6):887-900. PMC: 5278610. DOI: 10.15252/embr.201541970. View

Fuertes M, Woo S, Burnett B, Fu Y, Gajewski T . Type I interferon response and innate immune sensing of cancer. Trends Immunol. 2012; 34(2):67-73. PMC: 3565059. DOI: 10.1016/j.it.2012.10.004. View

Li J, Liu L, Luo H, Chen Z, Wang J, Li N . Long Noncoding RNA DUXAP8 Promotes Pancreatic Carcinoma Cell Migration and Invasion Via Pathway by miR-448/WTAP/Fak Signaling Axis. Pancreas. 2021; 50(3):317-326. PMC: 8041564. DOI: 10.1097/MPA.0000000000001751. View

Lee Y, Park K, Lee S . Curcumin Targets Both Apoptosis and Necroptosis in Acidity-Tolerant Prostate Carcinoma Cells. Biomed Res Int. 2021; 2021:8859181. PMC: 8164543. DOI: 10.1155/2021/8859181. View

Crespo J, Sun H, Welling T, Tian Z, Zou W . T cell anergy, exhaustion, senescence, and stemness in the tumor microenvironment. Curr Opin Immunol. 2013; 25(2):214-21. PMC: 3636159. DOI: 10.1016/j.coi.2012.12.003. View

Yoo J, Chung G, Lee J, Nam J, Chang Y, Lee J . Sub-classification of Advanced-Stage Hepatocellular Carcinoma: A Cohort Study Including 612 Patients Treated with Sorafenib. Cancer Res Treat. 2017; 50(2):366-373. PMC: 5912123. DOI: 10.4143/crt.2017.126. View

Wang X, Tang J, Zhao J, Lou B, Li L . ZFPM2-AS1 promotes the proliferation, migration, and invasion of human non-small cell lung cancer cells involving the JAK-STAT and AKT pathways. PeerJ. 2020; 8:e10225. PMC: 7594634. DOI: 10.7717/peerj.10225. View

10.

Liu Z, Lu J, Fang H, Sheng J, Cui M, Yang Y . m6A Modification-Mediated Regulation of Malignant Phenotype and Chemotherapy Resistance of Hepatocellular Carcinoma Through miR-584-5p/MAPK1/ERK Pathway Axis. Front Cell Dev Biol. 2021; 9:783385. PMC: 8696125. DOI: 10.3389/fcell.2021.783385. View

11.

Zhao Z, Yang L, Fang S, Zheng L, Wu F, Chen W . The Effect of m6A Methylation Regulatory Factors on the Malignant Progression and Clinical Prognosis of Hepatocellular Carcinoma. Front Oncol. 2020; 10:1435. PMC: 7471744. DOI: 10.3389/fonc.2020.01435. View

12.

Stipp M, Acco A . Involvement of cytochrome P450 enzymes in inflammation and cancer: a review. Cancer Chemother Pharmacol. 2020; 87(3):295-309. DOI: 10.1007/s00280-020-04181-2. View

13.

Xu Q, Wang Y, Huang W . Identification of immune-related lncRNA signature for predicting immune checkpoint blockade and prognosis in hepatocellular carcinoma. Int Immunopharmacol. 2021; 92:107333. DOI: 10.1016/j.intimp.2020.107333. View

14.

Zhu Y, Yang J, Xu D, Gao X, Zhang Z, Hsu J . Disruption of tumour-associated macrophage trafficking by the osteopontin-induced colony-stimulating factor-1 signalling sensitises hepatocellular carcinoma to anti-PD-L1 blockade. Gut. 2019; 68(9):1653-1666. DOI: 10.1136/gutjnl-2019-318419. View

15.

Seo J, Lee E, Song J . New role of E3 ubiquitin ligase in the regulation of necroptosis. BMB Rep. 2016; 49(5):247-8. PMC: 5070702. DOI: 10.5483/bmbrep.2016.49.5.067. View

16.

Pradhan A, Lu D, Parisi L, Shen S, Berhane I, Galster S . Protein acylation by saturated very long chain fatty acids and endocytosis are involved in necroptosis. Cell Chem Biol. 2021; 28(9):1298-1309.e7. PMC: 8529612. DOI: 10.1016/j.chembiol.2021.03.012. View

17.

Saha S, Yin Y, Kim K, Yang G, Abdal Dayem A, Choi H . Valproic Acid Induces Endocytosis-Mediated Doxorubicin Internalization and Shows Synergistic Cytotoxic Effects in Hepatocellular Carcinoma Cells. Int J Mol Sci. 2017; 18(5). PMC: 5454960. DOI: 10.3390/ijms18051048. View

18.

Franchina D, Grusdat M, Brenner D . B-Cell Metabolic Remodeling and Cancer. Trends Cancer. 2018; 4(2):138-150. DOI: 10.1016/j.trecan.2017.12.006. View

19.

Long K, Gu L, Li L, Zhang Z, Li E, Zhang Y . Small-molecule inhibition of APE1 induces apoptosis, pyroptosis, and necroptosis in non-small cell lung cancer. Cell Death Dis. 2021; 12(6):503. PMC: 8131371. DOI: 10.1038/s41419-021-03804-7. View

20.

Cao Y, Li W, Wan G, Li Y, Du X, Li Y . Correlation and prognostic value of SIRT1 and Notch1 signaling in breast cancer. J Exp Clin Cancer Res. 2014; 33:97. PMC: 4248440. DOI: 10.1186/s13046-014-0097-2. View