In silico evidence of high frequency of miRNA‐related SNPs in Esophageal Squamous Cell Carcinoma

Rafieenia, Fatemeh; Abbaszadegan, Mohammad Reza; Poursheikhani, Arash; Razavi, Seyedeh Mahya Shariat; Jebelli, Amir; Molaei, Fatemeh; Aghaee‐Bakhtiari, Seyed Hamid

doi:10.1002/jcp.29012

Cited by 5 publications

(4 citation statements)

References 120 publications

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“…Genetic variants, specifically the single nucleotide polymorphisms (SNPs), located in lncRNAs genes have the potential to make a crucial impact on lncRNA expression levels, processing or on the secondary structure of lncRNAs, which results in cancer development and progression as well as the alteration of drug responses. [131][132][133][134] Dysregulation in lncRNAs expression profile has been demonstrated with high throughput analysis in many tumor cells. [135][136][137] For instance, H19…”

Section: Lncrna Polymorphism In Crcmentioning

confidence: 99%

Mechanisms of long non‐coding RNA function in colorectal cancer tumorigenesis

Poursheikhani

Abbaszadegan

Kerachian

2020

Asia-Pac J Clncl Oncology

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Colorectal cancer (CRC) is one of the most common cancers globally. Although a variety of CRC screening methods have been developed, many patients are diagnosed at advanced stages of CRC with tumor invasion and distance metastasis. Several studies have suggested the long noncoding RNAs (lncRNAs) as one of the main contributors in CRC tumorigenesis, although the exact underlying mechanism of lncRNAs in CRC is still unknown. Numerous studies have indicated aberrant expression of lncRNAs in CRC through different modes of action such as cell proliferation, apoptosis, cell cycle, DNA repair response, drug‐resistance, migration, and metastasis. Furthermore, lncRNA polymorphisms can influence the risk of CRC development. Accordingly, lncRNAs can be served as promising diagnostic or prognostic biomarkers and also desired therapeutic targets affecting the outcome of patients with CRC. In this review, we summarized the updated and novel evidence that identifies different roles of lncRNAs in the tumorigenesis of CRC.

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Section: Lncrna Polymorphism In Crcmentioning

confidence: 99%

Mechanisms of long non‐coding RNA function in colorectal cancer tumorigenesis

Poursheikhani

Abbaszadegan

Kerachian

2020

Asia-Pac J Clncl Oncology

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“…Recently, a large body of investigations reported diverse roles of non-coding RNA, particularly long non-coding RNA (lncRNA), in biological processes of different sorts of cancer [ 11 – 13 ]. LncRNAs are a group of non-coding RNAs with more than 200 nt in length and with no or little capability of coding proteins [ 14 – 16 ].…”

Section: Introductionmentioning

confidence: 99%

Long non-coding RNA AC087388.1 as a novel biomarker in colorectal cancer

2022

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Background Several investigations have reported diverse roles of long non-coding RNA (lncRNA) in biological processes, tumor development, and progression of colorectal cancer (CRC). In this study, we investigated the lncRNA AC087388.1 tumorigenic role in CRC cells. Methods The CRC tissues were collected at the Reza Radiotherapy and Oncology Center, Mashhad, Iran. The human SW-48 and HT-29 CRC cell lines were obtained from the national cell bank of Iran. The cells were cultured according to ATCC (the American Type Culture Collection) recommendations. Quantitative real-time PCR was applied to assess the RNA expression. ShRNA transfection was done to downregulate the target gene. MTT and apoptosis assays were conducted to evaluate cell proliferation and viability, respectively. Colony formation assay, wound healing assay, and invasion assay were applied to determine growth, motility, and invasion of the cells, respectively. ENCORI online tool was used as downstream enrichment analysis. Results Forty CRC patients were encompassed in this study. The results demonstrated that the lncRNA SLC16A1-AS1, AC087388.1, and ELFN1-AS1 were significantly overexpressed in the CRC tissues in comparison to their normal counterpart margins. All the lncRNAs have shown significant Area Under Curve (AUC) values in the patients. Downregulation of lncRNA AC087388.1 remarkably decreased the cell proliferation and viability of the CRC cells. In addition, the data demonstrated that the downregulation of lncRNA AC087388.1 significantly suppressed cell growth and colony formation capability in the cells. Also, downregulation of lncRNA AC087388.1 attenuated motility and invasion of CRC cells, and significantly decreased the expression of invasion genes. In-silico functional enrichment analysis indicated that the lncRNA AC087388.1 has contributed to crucial signaling pathways in tumorigenesis such as the p53 and Wnt signaling pathways, apoptosis, and cell cycle. Conclusions Altogether, we showed that lncRNA AC087388.1 has an oncogenic role in tumorigenesis of CRC, and it can be considered as a novel diagnostic and prognostic biomarker in CRC.

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“…The data demonstrated that the lncRNA WDFY3-AS2, AC108449.2,DLEU2, AC007128.1,and AP003356.1 as potential diagnostic and prognostic biomarker in the ESCApatients (Figure6).Esophageal cancer is one of the most aggressive types of cancer with an increasing rate of death and dismal prognosis. Previous investigations highlighted non-coding RNA particularly lncRNA's roles in cancer development, progression, and clinicopathological features of the patients(13)(14)(15). A large body of studies considered lncRNAs as a major contributor to ESCA development and showed the lncRNAs prognosticand diagnostic values for the ESCA patients (16).…”

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Long Non-Coding RNAs Roles in Tumorigenesis of Esophageal Carcinoma

Talebi

Kargar

Jafarinia

et al. 2022

Preprint

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Background:Esophageal carcinoma (ESCA) is one of the most common types of cancer. ESCA is accounted for the sixth leading cause of cancer-related deaths globally. The majority of the patients are diagnosed at late stages of ESCA, with distance metastasis and/or chemoresistance, which lead to a poor prognosis. Previous studies demonstrated lncRNA presentation and roles in ESCA cells and patients tissue. It has been proposed that lncRNAs can be considered as a new prognostic and diagnostic biomarker in ESCA. This study comprehensively explored the interaction of lncRNAs with miRNAs and mRNAs of TCGA database and proposed novel promising biomarker with favorable diagnostic and prognostic values. Methods: The public data of RNA-seq, miR-seq and related clinical data were downloaded from TCGA database. Differential expression analysis was conducted by “limma” in R. GO and KEGG signaling pathway were used for enrichments. STRING database was used for PPI analysis. CE-network was constructed by STAR database in R. Kaplan-Meier survival analysis (log-rank test) and ROC curve analysis to indicate the biomarkers' diagnostic and prognostic values.Results: Differentially expressed data illustrated that 1332 mRNA including 610 upregulated and 722 down-regulated were differentially expressed in ESCA.The GO and KEGG pathway analysis showed that the differentially expressed mRNAs were enriched in critical biological processes. The PPI showed that IGFBP5, ACAN, ADAMTS12, MMP13, and CDH2 were the important PPI hubs. The ceRNA network data demonstrated critical lncRNAs including TMEM16B-AS1, AC093010.3, SNHG3, and PVT1 which have an essential role in ESCA development.The data revealed that the lncRNA WDFY3-AS2, AC108449.2,DLEU2, AC007128.1, and AP003356.1 are potential diagnostic prognostic biomarker in the ESCA patients. Conclusion: Altogether, in our study, we demonstrated lncRNA, miRNA, and mRNA interaction and mentioned regulatory networks, which can be considered as a therapeutic option in ESCA. In addition, we proposed potential diagnostic and prognostic biomarkers for the patients.

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In silico evidence of high frequency of miRNA‐related SNPs in Esophageal Squamous Cell Carcinoma

Cited by 5 publications

References 120 publications

Mechanisms of long non‐coding RNA function in colorectal cancer tumorigenesis

Mechanisms of long non‐coding RNA function in colorectal cancer tumorigenesis

Long non-coding RNA AC087388.1 as a novel biomarker in colorectal cancer

Long Non-Coding RNAs Roles in Tumorigenesis of Esophageal Carcinoma

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