Circular RNA Signature in Lung Adenocarcinoma: A MiOncoCirc Database-Based Study and Literature Review

Zhao, Shikang; Li, Shuo; Liu, Wei; Wang, Yanye; Li, Xiongfei; Zhu, Shuai; Liu, Xi; Xu, Song

doi:10.3389/fonc.2020.523342

Cited by 12 publications

(9 citation statements)

References 66 publications

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“…Assessment of the biosignature for OS in the three sets by ROC curve exhibited well predictive value. [45]. The examples we have cited are only the tip of the iceberg, and the relationship between lncRNA, ferroptosis, and LAUD has also been well demonstrated in this study from a new perspective.…”

Section: Discussionsupporting

confidence: 67%

Identification of a nine ferroptosis-related lncRNA prognostic signature for lung adenocarcinoma

Tong¹,

Zhang

Yang

et al. 2021

Preprint

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Background Recently, mounting of studies has shown that lncRNA affects tumor progression through the regulation of ferroptosis. The current study aims to construct a robust ferroptosis-related lncRNAs signature to increase the predicted value of lung adenocarcinoma (LUAD) by bioinformatics analysis. Methods The transcriptome data were abstracted from The Cancer Genome Atlas (TCGA). Differentially expressed lncRNAs were screened by comparing 535 LAUD tissues with 59 adjacent non-LAUD tissues. Univariate Cox regression, lasso regression, multivariate Cox regression were conducted to design a ferroptosis-related lncRNA signature. This signature’s prognosis was verified by the log-rank test of Kaplan-Meier curve and the area under curve (AUC) of receiver operating characteristic (ROC) in train set, test set, and entire set. Furthermore, univariate and multivariate Cox regression were used to analyze its independent prognostic ability. The relationship of the ferroptosis-linked lncRNAs' expression and clinical variables was demonstrated by Wilcoxon rank-sum test and Kruskal-Wallis test. Gene set enrichment analysis (GSEA) was performed to signaling pathways it may involve. Results 1224 differentially expressed lncRNAs were idendified, of which 195 are ferroptosis-related lncRNAs. A nine ferroptosis-related lncRNAs (AC099850.3, NAALADL2-AS2, AL844908.1, AL365181.2, SMIM25, FAM83A-AS1, LINC01116, AL049836.1, C20orf197) prognostic signature was constucted. This model's prognosis in the high-risk group is obviously worse than that of the low-risk group in train set, test set, and entire set. The AUC of ROC predicting the three years survival in the train set, test set, and entire set was 0.754, 0.716, and 0.738, respectively. Moreover, the designed molecular signature was found to be an independent prognostic variable. The expression of these lncRNAs and the lncRNA signature are related to clinical stage, T stage, Lymph-node status, distant metastasis. Finally, GSEA analysis results show that the signature is involved in eight tumor-related and metabolism-related signaling pathways Conclusion The current study constructed, validated, and evaluated a nine ferroptosis-related lncRNA signature which can independently be used to predict the prognosis of LAUD patients, and may become a new therapeutic target.

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Section: Discussionsupporting

confidence: 67%

Identification of a nine ferroptosis-related lncRNA prognostic signature for lung adenocarcinoma

Tong¹,

Zhang

Yang

et al. 2021

Preprint

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“…It not only adds to the most recent catalog of circRNAs but also offers a complete examination of the expression of both previously known and newly discovered circRNAs http://circnet.mbc.nctu.edu.tw/ Liu et al 2015a , b circRNABase The interaction database of circRNA-miRNA. The organism involved in this database is human, mouse, and worm http://web.archive.org/web/20130922084530/starbase.sysu.edu.cn/mirCircRNA.php Li et al 2014 MiOncoCirc Using exome capture sequencing, 2093 clinical human cancer samples were found to contain circRNA https://nguyenjoshvo.github.io/ Zhao et al 2020a , b CSCD A database that reports anticipated cellular location, RBP locations, and ORFs focuses on differentiating cancer-specific circRNAs from noncancerous circRNAs http://gb.whu.edu.cn/CSCD Xia et al 2018 CircRiC This study characterizes circRNAs in cancer cell lines and investigates potential circRNA biogenesis mechanisms and their therapeutic relevance. We also offer a data portal to help with related biomedical research https://hanlab.uth.edu/cRic Ruan et al 2019 circMine In order to view, search, analyze, and download data freely and to submit new data for further integration, circMine offers user-friendly web interfaces.…”

Section: Tools and Methodsmentioning

confidence: 99%

Non-coding RNAs in human health and disease: potential function as biomarkers and therapeutic targets

Loganathan

2023

Funct Integr Genomics

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Human diseases have been a critical threat from the beginning of human history. Knowing the origin, course of action and treatment of any disease state is essential. A microscopic approach to the molecular field is a more coherent and accurate way to explore the mechanism, progression, and therapy with the introduction and evolution of technology than a macroscopic approach. Non-coding RNAs (ncRNAs) play increasingly important roles in detecting, developing, and treating all abnormalities related to physiology, pathology, genetics, epigenetics, cancer, and developmental diseases. Noncoding RNAs are becoming increasingly crucial as powerful, multipurpose regulators of all biological processes. Parallel to this, a rising amount of scientific information has revealed links between abnormal noncoding RNA expression and human disorders. Numerous non-coding transcripts with unknown functions have been found in addition to advancements in RNA-sequencing methods. Non-coding linear RNAs come in a variety of forms, including circular RNAs with a continuous closed loop (circRNA), long non-coding RNAs (lncRNA), and microRNAs (miRNA). This comprises specific information on their biogenesis, mode of action, physiological function, and significance concerning disease (such as cancer or cardiovascular diseases and others). This study review focuses on non-coding RNA as specific biomarkers and novel therapeutic targets.

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“…The MiOncoCirc database is the first circRNA database based on clinical tumor samples, containing circRNA expression information from more than 2000 clinical tumor samples, collecting the circRNA expression data of in situ and metastatic cancers, etc. 136 .…”

Section: Introduction To Common Databases For M6a Modification and Circrna Studiesmentioning

confidence: 99%

The functional roles, cross-talk and clinical implications of m6A modification and circRNA in hepatocellular carcinoma

Qin¹,

Mao²,

Xue³

et al. 2021

Int. J. Biol. Sci.

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Hepatocellular carcinoma (HCC) is one of the leading causes of cancer-related deaths worldwide. HCC has high rates of death and recurrence, as well as very low survival rates. N6-methyladenosine (m6A) is the most abundant modification in eukaryotic RNAs, and circRNAs are a class of circular noncoding RNAs that are generated by back-splicing and they modulate multiple functions in a variety of cellular processes. Although the carcinogenesis of HCC is complex, emerging evidence has indicated that m6A modification and circRNA play vital roles in HCC development and progression. However, the underlying mechanisms governing HCC, their cross-talk, and clinical implications have not been fully elucidated. Therefore, in this paper, we elucidated the biological functions and molecular mechanisms of m6A modification in the carcinogenesis of HCC by illustrating three different regulatory factors ("writer", "eraser", and "reader") of the m6A modification process. Additionally, we dissected the functional roles of circRNAs in various malignant behaviors of HCC, thereby contributing to HCC initiation, progression and relapse. Furthermore, we demonstrated the cross-talk and interplay between m6A modification and circRNA by revealing the effects of the collaboration of circRNA and m6A modification on HCC progression. Finally, we proposed the clinical potential and implications of m6A modifiers and circRNAs as diagnostic biomarkers and therapeutic targets for HCC diagnosis, treatment and prognosis evaluation.

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Circular RNA Signature in Lung Adenocarcinoma: A MiOncoCirc Database-Based Study and Literature Review

Cited by 12 publications

References 66 publications

Identification of a nine ferroptosis-related lncRNA prognostic signature for lung adenocarcinoma

Identification of a nine ferroptosis-related lncRNA prognostic signature for lung adenocarcinoma

Non-coding RNAs in human health and disease: potential function as biomarkers and therapeutic targets

The functional roles, cross-talk and clinical implications of m6A modification and circRNA in hepatocellular carcinoma

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