The Expression Patterns of BECN1, LAMP2, and PINK1 Genes in Colorectal Cancer Are Potentially Regulated by Micrornas and CpG Islands: An In Silico Study

Bednarczyk, Martyna; Fatyga, Edyta; Dzięgielewska-Gęsiak, Sylwia; Waniczek, Dariusz; Grabarek, Beniamin Oskar; Zmarzły, Nikola; Janikowska, Grażyna; Muc-Wierzgoń, Małgorzata

doi:10.3390/jcm9124020

Cited by 6 publications

(4 citation statements)

References 61 publications

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“…Our findings were consistent with those of previous reports and showed that LAMP2 could serve as a biomarker to promote the development and progression of ESCA ( 40 ). Similarly, studies have confirmed that LAMP2 can promote cell migration and invasion in some types of cancers, including LUAD ( 13 ), LIHC ( 14 ), COAD ( 15 ), and PRAD ( 16 , 17 ). However, no previous studies have evaluated the significance of LAMP2 on a pan-cancer basis.…”

Section: Discussionmentioning

confidence: 78%

LAMP2 as a Biomarker Related to Prognosis and Immune Infiltration in Esophageal Cancer and Other Cancers: A Comprehensive Pan-Cancer Analysis

Liu

et al. 2022

Front. Oncol.

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Esophageal cancer (ESCA) is a common malignant tumor with poor prognosis. Accumulating evidence indicates an important role of lysosomal-associated membrane protein 2 (LAMP2) in the progression and development of various cancers. In this study, we obtained RNA-sequencing raw count data and the corresponding clinical information for ESCA samples from The Cancer Genome Atlas and Gene Expression Omnibus databases. We comprehensively investigated the expression and prognostic significance of LAMP2 and relationships between LAMP2 expression and prognosis, different clinicopathological parameters, and immune cell infiltration in ESCA. We also obtained the differentially expressed genes between the high LAMP2 expression and low LAMP2 expression groups in ESCA and performed a functional enrichment analysis of the 250 linked genes most positively related to LAMP2 expression. Moreover, we performed the pan-cancer analysis of LAMP2 to further analyze the role of LAMP2 in 25 commonly occurring types of human cancer. We also verified and compared the expression of LAMP2 in 40 samples of human ESCA tissue and adjacent tissues. The results indicated that LAMP2 expression was significantly upregulated in ESCA and various human cancers. In addition, LAMP2 expression was associated with certain clinicopathological parameters, prognosis, and immune infiltration in ESCA and the other types of cancer. Our study represents a comprehensive pan-cancer analysis of LAMP2 and supports the potential use of the modulation of LAMP2 in the management of ESCA and various cancers.

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Section: Discussionmentioning

confidence: 78%

LAMP2 as a Biomarker Related to Prognosis and Immune Infiltration in Esophageal Cancer and Other Cancers: A Comprehensive Pan-Cancer Analysis

Liu

et al. 2022

Front. Oncol.

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“…These studies suggested that mutations in ATG genes may contribute to cancer development by deregulating the autophagy process [ 40 ]. Others have identified changes in the expression and/or epigenetic regulation of ATG genes, such as: PINK1 (involved in mitophagy) [ 33 ], BECN1 (involved in macroautophagy) and LAMP2 (involved in chaperone-dependent autophagy) depending on the stage of CRC [ 41 ]. This recent study showed results on the role of miRNAs regulating three of the ATG genes mentioned above, and these are BECN1 -49 mRNA, LAMP2 -62 mRNA and PINK1 -6 mRNA.…”

Section: Autophagy In Colorectal Cancer—clinical Implicationsmentioning

confidence: 99%

“…This recent study showed results on the role of miRNAs regulating three of the ATG genes mentioned above, and these are BECN1 -49 mRNA, LAMP2 -62 mRNA and PINK1 -6 mRNA. Promoter regions containing at least one CpG region have been detected and described [ 41 ].…”

Section: Autophagy In Colorectal Cancer—clinical Implicationsmentioning

confidence: 99%

Autophagy and the Insulin-like Growth Factor (IGF) System in Colonic Cells: Implications for Colorectal Neoplasia

Kasprzak

2023

IJMS

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Colorectal cancer (CRC) is one of the most common human malignancies worldwide. Along with apoptosis and inflammation, autophagy is one of three important mechanisms in CRC. The presence of autophagy/mitophagy in most normal mature intestinal epithelial cells has been confirmed, where it has mainly protective functions against reactive oxygen species (ROS)-induced DNA and protein damage. Autophagy regulates cell proliferation, metabolism, differentiation, secretion of mucins and/or anti-microbial peptides. Abnormal autophagy in intestinal epithelial cells leads to dysbiosis, a decline in local immunity and a decrease in cell secretory function. The insulin-like growth factor (IGF) signaling pathway plays an important role in colorectal carcinogenesis. This is evidenced by the biological activities of IGFs (IGF-1 and IGF-2), IGF-1 receptor type 1 (IGF-1R) and IGF-binding proteins (IGF BPs), which have been reported to regulate cell survival, proliferation, differentiation and apoptosis. Defects in autophagy are found in patients with metabolic syndrome (MetS), inflammatory bowel diseases (IBD) and CRC. In neoplastic cells, the IGF system modulates the autophagy process bidirectionally. In the current era of improving CRC therapies, it seems important to investigate the exact mechanisms not only of apoptosis, but also of autophagy in different populations of tumor microenvironment (TME) cells. The role of the IGF system in autophagy in normal as well as transformed colorectal cells still seems poorly understood. Hence, the aim of the review was to summarize the latest knowledge on the role of the IGF system in the molecular mechanisms of autophagy in the normal colon mucosa and in CRC, taking into account the cellular heterogeneity of the colonic and rectal epithelium.

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“…Autophagy is a doubleedged sword. It can be used as a tumour suppressor that selectively inhibits protein degradation and destroys organelles, and it can also be used as a cell survival promoter that promotes tumour growth [8][9][10]. Studies have shown that autophagy-related genes are frequently mutated in endometrial cancer, and that autophagy disorders are closely related to the occurrence and development of endometrial cancer [11][12][13].…”

Section: Introductionmentioning

confidence: 99%

Identification of autophagy-related long non-coding RNAs in endometrial cancer via comprehensive bioinformatics analysis

Liu

Cheng

2022

BMC Women's Health

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Background Endometrial cancer is a common gynaecological malignancy with an increasing incidence. It is of great importance and value to uncover its effective and accurate prognostic indicators of disease outcomes. Methods The sequencing data and clinical information of endometrial cancer patients in the TCGA database were downloaded, and autophagy-related genes in the human autophagy database were downloaded. R software was used to perform a Pearson correlation analysis on autophagy-related genes and long non-coding RNAs (lncRNAs) to screen autophagy-related lncRNAs. Next, univariate and multivariate Cox regression analyses were performed to select autophagy-related lncRNAs and construct the prognostic model. Finally, the accuracy of the prognostic prediction of the model was evaluated, the lncRNA–mRNA network was constructed and visualized by Cytoscape, and the gene expression profile of endometrial cancer patients was analysed by GSEA. Results A total of 10 autophagy-related lncRNAs were screened to construct the prognostic model. The risk factors were AC084117.1, SOS1-IT1, AC019080.5, FIRRE and MCCC1-AS, and the protective factors were AC034236.2, POC1B-AS1, AC137630.1, AC083799.1 and AL133243.2. This prognostic model could independently predict the prognosis of endometrial cancer patients and had better predictive performance than that of using age and tumour grade. In addition, after classifying patients as high-risk or low-risk based on the prognostic model, we found that the enrichment of the JAK-STAT and MAPK pathways was significantly higher in the high-risk group than that in the low-risk group. Conclusions The 10 autophagy-related lncRNAs are potential prognostic biomarkers. Compared with using age and tumour grade, this prognostic model is more predictive for the prognosis of endometrial cancer patients.

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The Expression Patterns of BECN1, LAMP2, and PINK1 Genes in Colorectal Cancer Are Potentially Regulated by Micrornas and CpG Islands: An In Silico Study

Cited by 6 publications

References 61 publications

LAMP2 as a Biomarker Related to Prognosis and Immune Infiltration in Esophageal Cancer and Other Cancers: A Comprehensive Pan-Cancer Analysis

LAMP2 as a Biomarker Related to Prognosis and Immune Infiltration in Esophageal Cancer and Other Cancers: A Comprehensive Pan-Cancer Analysis

Autophagy and the Insulin-like Growth Factor (IGF) System in Colonic Cells: Implications for Colorectal Neoplasia

Identification of autophagy-related long non-coding RNAs in endometrial cancer via comprehensive bioinformatics analysis

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