Prognostication of Pancreatic Cancer Using The Cancer Genome Atlas Based Ferroptosis-Related Long Non-Coding RNAs

Li, Jiayu; Zhang, Jinghui; Tao, Shuiliang; Hong, Jiaze; Zhang, Yuyan; Chen, Weiyan

doi:10.3389/fgene.2022.838021

Cited by 8 publications

(7 citation statements)

References 57 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…e mechanism of cell death varies. Apoptosis [18], pyroptosis [19], necrosis [20], and ferroptosis [21][22][23] are the most commonly observed. Recently, Tsvetkov et al found a copper-based mechanism that was completely different from the known mechanisms of cell death, and they named it "cuproptosis" [7].…”

Section: Discussionmentioning

confidence: 99%

A Noval Established Cuproptosis-Associated LncRNA Signature for Prognosis Prediction in Primary Hepatic Carcinoma

Luo

Huang

et al. 2022

Evidence-Based Complementary and Alternative Medicine

View full text Add to dashboard Cite

The copper ion content in the body maintains homeostasis, and when dysregulated, it can produce cytotoxicity and induce cell death through a variety of pathways. Cuproptosis refers to copper ions combining directly with acylated molecules, leading to the accumulation of oligomerization of lipoylated protein and subsequent downregulation of iron-sulfur cluster proteins; this induces proteotoxic stress and cell death. This study on the relationship between cuproptosis-related lncRNAs (CRLns) and the prognosis of primary hepatic carcinoma (PHC) has important clinical guiding significance for the diagnosis and treatment of PHC. Prognosis-related CRLRs were identified via rank-sum tests, correlational analyses, and univariate Cox regression, and a CRLR risk-scoring model (CRLRSM) was constructed using LASSO Cox regression. Patients were divided into high-risk and low-risk groups based on the median CRLRSM scores. Variance analysis for cuproptosis-related genes, gene set enrichment analysis, and correlational analysis for risk and immunity were performed using boxplots. Quantitative polymerase chain reactions were used to verify the CRLR levels in PHC cell lines. The study results showed that patients in the CRLRSM high-risk group had worse survival rates than those in the low-risk group. The PHC stage and risk score were independent prognostic factors for hepatocellular carcinoma. There were 7 CRLRs (MIR210HG, AC099850.3, AL031985.3, AC012073.1, MKLN1-AS, KDM4A-AS1, and PLBD1-AS1) associated with PHC prognosis, primarily through cellular metabolism, growth, proliferation, apoptosis, and immunity. In conclusion, the overexpression of 7 CRLRs in patients with PHC indicates a poor prognosis.

show abstract

Section: Discussionmentioning

confidence: 99%

A Noval Established Cuproptosis-Associated LncRNA Signature for Prognosis Prediction in Primary Hepatic Carcinoma

Luo

Huang

et al. 2022

Evidence-Based Complementary and Alternative Medicine

View full text Add to dashboard Cite

show abstract

“…Notably, the expression levels of MIR193BHG and HOOK3 showed significant differences between the two groups. Previous studies have identified MIR193BHG as a prognostic marker in pancreatic, ovarian, and head and neck squamous cell carcinoma (48)(49)(50). Additionally, MIR193BHG might play a pivotal role in preeclampsia related to blood pressure and urine protein and could be a potential prognostic biomarker in early-onset preeclampsia (51,52).…”

Section: Discussionmentioning

confidence: 98%

Transcriptome analysis identification of A-to-I RNA editing in granulosa cells associated with PCOS

Kong

Zhou

et al. 2023

Front. Endocrinol.

View full text Add to dashboard Cite

BackgroundPolycystic ovary syndrome (PCOS) is a complex, multifactor disorder in women of reproductive age worldwide. Although RNA editing may contribute to a variety of diseases, its role in PCOS remains unclear.MethodsA discovery RNA-Seq dataset was obtained from the NCBI Gene Expression Omnibus database of granulosa cells from women with PCOS and women without PCOS (controls). A validation RNA-Seq dataset downloaded from the European Nucleotide Archive Databank was used to validate differential editing. Transcriptome-wide investigation was conducted to analyze adenosine-to-inosine (A-to-I) RNA editing in PCOS and control samples.ResultsA total of 17,395 high-confidence A-to-I RNA editing sites were identified in 3,644 genes in all GC samples. As for differential RNA editing, there were 545 differential RNA editing (DRE) sites in 259 genes with Nucleoporin 43 (NUP43), Retinoblastoma Binding Protein 4 (RBBP4), and leckstrin homology-like domain family A member 1 (PHLDA) showing the most significant three 3′-untranslated region (3′UTR) editing. Furthermore, we identified 20 DRE sites that demonstrated a significant correlation between editing levels and gene expression levels. Notably, MIR193b-365a Host Gene (MIR193BHG) and Hook Microtubule Tethering Protein 3 (HOOK3) exhibited significant differential expression between PCOS and controls. Functional enrichment analysis showed that these 259 differentially edited genes were mainly related to apoptosis and necroptosis pathways. RNA binding protein (RBP) analysis revealed that RNA Binding Motif Protein 45 (RBM45) was predicted as the most frequent RBP binding with RNA editing sites. Additionally, we observed a correlation between editing levels of differential editing sites and the expression level of the RNA editing enzyme Adenosine Deaminase RNA Specific B1 (ADARB1). Moreover, the existence of 55 common differentially edited genes and nine differential editing sites were confirmed in the validation dataset.ConclusionOur current study highlighted the potential role of RNA editing in the pathophysiology of PCOS as an epigenetic process. These findings could provide valuable insights into the development of more targeted and effective treatment options for PCOS.

show abstract

“…were identi ed as lncRNAs associated with cuproptosis, pyroptosis, and ferroptosis, respectively, and showed promising prognostic evaluation characteristics [29][30][31]. Previous research has shown that TDRKH-AS1 promotes tumorigenesis by activating the Wnt pathway in colorectal cancer, and its high expression is associated with poor prognosis in colorectal cancer patients [32].…”

Section: Discussionmentioning

confidence: 99%

A Novel Aging-Related lncRNAs Signature-Based Model for Prognosis Prediction in Pancreatic Cancer

李,

wang,

Zhang

et al. 2023

Preprint

View full text Add to dashboard Cite

Objective To identify aging-related long non-coding RNAs (ARLs) with prognostic significance and construct a prognostic model for pancreatic cancer (PC) patients. Methods Transcriptome information from PC samples and normal samples was obtained from the Cancer Genome Atlas Database (TCGA) and the Genotypic Tissue Expression Database (GTEx). Aging-related genes (ARGs) were obtained from the Human Aging Genome Resources (HAGR) and GeneCards. Correlation analysis was performed to screen out ARLs. Univariate regression, lasso regression, and multivariate regression were used to identify the target ARLs and construct the prognostic model for aging-related PC. Results A total of 1109 ARLs were identified, and 9 target ARLs were obtained to construct the risk score prognostic model. These target ARLs include AC245041.2, AC244153.1, AC091057.1, MIR3142HG, AL137779.2, AC145207.5, TDRKH-AS1, AC068620.2, and AC127024.6. The model showed an area under the curve (AUC) of 0.798 on the receiver operating curve (ROC) curve, indicating its effectiveness in predicting prognosis. Kaplan-Meier analysis demonstrated a significant difference in overall survival (OS) between the two groups based on the median risk (P＜0.001). To further assess prognosis, the risk score was combined with clinicopathological features to construct a nomogram for PC. Additionally, gene enrichment analysis (GSEA) and immunological correlation analysis revealed differences in gene enrichment level, immune infiltration, and the expression of immune checkpoint genes between the two groups. Conclusion The constructed prognostic model based on nine ARLs provides valuable insights for the prognosis management of PC patients and the development of promising biomarkers in the diagnosis and treatment of PC.

show abstract

Prognostication of Pancreatic Cancer Using The Cancer Genome Atlas Based Ferroptosis-Related Long Non-Coding RNAs

Cited by 8 publications

References 57 publications

A Noval Established Cuproptosis-Associated LncRNA Signature for Prognosis Prediction in Primary Hepatic Carcinoma

A Noval Established Cuproptosis-Associated LncRNA Signature for Prognosis Prediction in Primary Hepatic Carcinoma

Transcriptome analysis identification of A-to-I RNA editing in granulosa cells associated with PCOS

A Novel Aging-Related lncRNAs Signature-Based Model for Prognosis Prediction in Pancreatic Cancer

Contact Info

Product

Resources

About