Prognostic significance of an autophagy‑related long non‑coding RNA signature in patients with oral and oropharyngeal squamous cell carcinoma

Jiang, Qingkun; Xue, Danfeng; Shi, Fanzhe; Qiu, Jiaxuan

doi:10.3892/ol.2020.12290

Cited by 27 publications

(32 citation statements)

References 47 publications

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“…The lncRNA LINC01963 has been con rmed to be signi cantly lower in pancreatic carcinoma tissues and cell lines by targeting miR-641/TMEFF2, whereas silence of LINC01963 could improve the development of cell culture tumors. For oral and oropharyngeal squamous cell carcinoma (OSCC/OPSCC), a strong correlation between LINC01963 and OSCC/OPSCC prognosis has been observed by an autophagy-related prediction model containing nine lncRNAs (21). Consistent with our study, the outcomes in these studies supported the multiple functions of LINC01963 in a variety of carcinomas, including pancreatic carcinoma, ccRCC, and OSCC/OPSCC.…”

Section: Discussionsupporting

confidence: 89%

Construction of an Individualized Clinical Prognostic Index Based on Ubiquitination-Associated lncRNA in Clear Cell Renal Cell Carcinoma Patients

Liu

Sun

et al. 2021

Preprint

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Background: The purpose of this study was to identify the ubiquitination-associated genes and co-expressed lncRNAs on the prognosis of clear cell renal cell carcinoma (ccRCC) patients.Methods and patients: We downloaded 530 cases and the corresponding transcriptome profiling from The Cancer Genome Atlas (TCGA) database. We distinguished mRNA and lncRNA expression data from the transcriptome profiling, then extracted the expression of mRNAs that regulate protein ubiquitination. We obtained lncRNAs associated with protein ubiquitination regulation from the lncRNA data by Gene Co-expression Analysis. Cox Regression Analysis of survival time, survival status, and lncRNA expression level was carried out and a Prognostic Index (PI) was constructed.Results: The PI was established based on 8 prognostic lncRNAs that regulate protein ubiquitination, and distinguish the high-risk group patients from all patients. Multivariate analysis indicated that this PI was an individualized clinical prognostic factor for patients with ccRCC. Regarding clinical characteristics, a Ubiquitination-associated Clinical-Prognostic Index (UCPI), containing 8 ubiquitination-related lncRNAs and age, was established and validated with high prognostic efficacy.Conclusion: We established a UCPI containing 8 lncRNAs related to protein ubiquitination. This UCPI may become an appropriate model to predict the prognosis in ccRCC patients and guide clinicians to adjust the follow-up regimen.

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Section: Discussionsupporting

confidence: 89%

Construction of an Individualized Clinical Prognostic Index Based on Ubiquitination-Associated lncRNA in Clear Cell Renal Cell Carcinoma Patients

Liu

Sun

et al. 2021

Preprint

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“…In this paper, by performing univariate cox regression analysis, multiple stepwise cox regression analysis, survival analyses and ROC analyses, etc., a total of six key PAF-lncRNAs in HNSC were identified, including MIR4435-2HG, PCED1B-AS1, AL512274.1, LINC02541, AL354836.1, and MIR9-3HG. Previous studies have reported that the expression of MIR4435-2HG, PCED1B-AS1, AL512274.1, AL354836.1, MIR9-3HG were associated with tumorigenesis and regulated cell death in various tumor types, which support the further identification and exploration in HNSC [68][69][70][71][72]. For example, overexpression of MIR4435-2HG will promote tumor cell proliferation while knockdown of MIR4435-2HG will lead to cell death [73][74][75][76].…”

Section: Discussionmentioning

confidence: 57%

Identification of Autophagy- and Ferroptosis-Related lncRNAs Functioned through Immune-Related Pathways in Head and Neck Squamous Carcinoma

Guo

Zhang

Shen

et al. 2021

Life

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The interplay between autophagy and ferroptosis has been highlighted as an important event to decide cancer cell fate. However, the underlying mechanisms remain largely unclear. In this study, we systematically explored the expression, prognostic value and functional roles of lncRNA in autophagy and ferroptosis. By a set of bioinformatics analyses, we identified 363 autophagy- and ferroptosis-related lncRNAs (AF-lncRNAs) and found 17 of them are dramatically related to the prognosis of head and neck squamous cell carcinoma (HNSC) patients, named as prognosis-related AF-lncRNAs (PAF-lncRNAs). Based on six key PAF-lncRNAs, a risk score model was developed and used to categorize the TCGA-retrieved HNSC patients into two groups (high-risk vs. low-risk). Functional analysis showed the differentially expressed genes (DEGs) between the two groups were mainly enriched in immune-related pathways and regulated by a PAF-lncRNA-directed ceRNA (competitive endogenous RNA) network. Combined with a variety of immune infiltration analyses, we also found a decreased landscape of immune cell infiltration in high-risk groups. Together, by revealing PAF-lncRNAs with tumor prognostic features functioned through immune-related pathways, our work would contribute to show the pathogenesis of a lncRNA-directed interplay among autophagy, ferroptosis and tumor immunity in HNSC and to develop potential prognostic biomarkers and targets for tumor immunotherapy.

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“…For example, a piece of study on colorectal cancer shows that MIR600HG inhibits colorectal cancer metastasis and increases sensitivity to oxaliplatin chemotherapeutic ( Yao and Li, 2020 ). Another study on oral cancer finds that MIR600HG is positively correlated with the co-expression of ubiquitin-specific proteinase 30, which is a potential therapeutic target as an independent risk factor for oral cancer prognosis ( Jiang et al, 2021 ). Here, as a protective factor of PAAD, the expression of MIR600HG was decreased in PAAD.…”

Section: Discussionmentioning

confidence: 99%

Construction of a ceRNA Network and Analysis of Tumor Immune Infiltration in Pancreatic Adenocarcinoma

Xiao

et al. 2021

Front. Mol. Biosci.

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Pancreatic adenocarcinoma (PAAD) is characterized by high malignancy, frequent metastasis, and recurrence with an unfavorable prognosis. This study is aimed at constructing a prognostic model for tumor-infiltrating immune cells and a competing endogenous RNA (ceRNA) network in PAAD and analyzing susceptibilities of chemotherapy and immunotherapy of PAAD. Gene expression profiles and clinical information of PAAD were downloaded from The Cancer Genome Atlas (TCGA) database and divided into the tumor group and the normal group. A total of five PAAD survival-related key genes in the ceRNA network and three survival-related immune infiltrating cells were uncovered, and two survival risk models and nomograms were constructed. The efficiency and performance of the two models were verified using multi-index area under the curve analysis at different time points, decision curve analysis, and calibration curves. Co-expression analysis showed that LRRC1, MIR600HG, and RNF166 in the ceRNA network and tumor-infiltrating immune cells including CD8 T cells and M1 macrophages were likely related to the PAAD prognosis, and the expression of key ceRNA-related genes was experimently validated in tissues and cell lines by RT-qPCR. Patients with low risk scores for key genes in the ceRNA network displayed a positive response to anti-programmed death-1 (PD-1) treatment and greater sensitivity to chemotherapeutic drugs such as docetaxel, lapatinib, and paclitaxel. More importantly, our results suggested that the IC50 values of gemcitabine in PAAD were not significantly different between the high and low risk groups. The expression levels of immune checkpoints were significantly different in the high-risk and low-risk groups. The prognostic model, nomogram, and drug analysis may provide an essential reference for PAAD patient management in the clinic.

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Prognostic significance of an autophagy‑related long non‑coding RNA signature in patients with oral and oropharyngeal squamous cell carcinoma

Cited by 27 publications

References 47 publications

Construction of an Individualized Clinical Prognostic Index Based on Ubiquitination-Associated lncRNA in Clear Cell Renal Cell Carcinoma Patients

Construction of an Individualized Clinical Prognostic Index Based on Ubiquitination-Associated lncRNA in Clear Cell Renal Cell Carcinoma Patients

Identification of Autophagy- and Ferroptosis-Related lncRNAs Functioned through Immune-Related Pathways in Head and Neck Squamous Carcinoma

Construction of a ceRNA Network and Analysis of Tumor Immune Infiltration in Pancreatic Adenocarcinoma

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