1
|
Dong H, He Z, Wang H, Ding M, Huang Y, Li H, Shi H, Mao L, Hu C, Wang J. Identification of potential biomarkers for progression and prognosis of renal clear cell carcinoma by comprehensive bioinformatics analysis. Technol Health Care 2024; 32:897-914. [PMID: 37483037 DOI: 10.3233/thc-230282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/25/2023]
Abstract
BACKGROUND Clear cell renal cell carcinoma (ccRCC) is the most common pathological type of renal cell carcinoma (RCC), and effective biomarkers will improve diagnosis and treatment. OBJECTIVE This study investigated NPEPL1 expression in ccRCC through public databases and clinical samples and assessed its correlation with clinicopathological features and patient prognosis. METHOD Data from The Cancer Genome Atlas and clinical specimens were gathered, NPEPL1 expression levels were analyzed; a receiver operating characteristic (ROC) curve was used to evaluate the diagnostic value of NPEPL1; and clinicopathological data was used to study the correlations between expression and clinical parameters. NPEPL1's prognostic value was appraised using a Kaplan-Meier (K-M) survival curve, Cox regression analysis, and a nomogram model; Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis of differently expressed genes between tissues with high and low NPEPL1 expression were used to estimate the underlying mechanisms involved. RESULTS NPEPL1 was significantly higher-expressed in ccRCC tissue. ROC analysis showed that NPEPL1 had noteworthy diagnostic efficacy. NPEPL1 expression was closely related to clinicopathological parameters, such as T and M stage. K-M analysis showed that overall survival was significantly shortened with high NPEPL1 expression. Cox regression analysis showed that NPEPL1 expression was an independent risk factor predicting overall survival. The nomogram showed a significantly high clinical value in predicting the 1-, 3-, and 5-year survival probabilities in ccRCC. GO and KEGG enrichment analysis suggested that NPEPL1 may promote the occurrence and development of ccRCC via the Ras signaling and other pathways. CONCLUSION NPEPL1 expression in ccRCC was higher than that in normal kidney tissues and was significantly associated with advanced clinical stage and poor prognosis. Therefore, NPEPL1 is a promising prognostic biomarker.
Collapse
Affiliation(s)
- Haonan Dong
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Zexi He
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
- Department of Urology, The Second People's Hospital of Foshan, Foshan, Guangdong, China
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Haifeng Wang
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Mingxia Ding
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Yinglong Huang
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Haihao Li
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Hongjin Shi
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Lan Mao
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Chongzhi Hu
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| | - Jiansong Wang
- Department of Urology, The Second Affiliate Hospital of Kunming Medical University, Yunnan Institute of Urology, Kunming, Yunnan, China
| |
Collapse
|
2
|
Shen P, Qu L, Wang J, Ding Q, Zhou C, Xie R, Wang H, Ji G. LncRNA LINC00342 contributes to the growth and metastasis of colorectal cancer via targeting miR-19a-3p/ NPEPL1 axis. Cancer Cell Int 2021; 21:105. [PMID: 33588834 PMCID: PMC7885559 DOI: 10.1186/s12935-020-01705-x] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2020] [Accepted: 12/07/2020] [Indexed: 12/19/2022] Open
Abstract
Background Long intergenic non-protein coding RNA 00342 (LINC00342) has been identified as a novel oncogene. However, the functional role of LINC00342 in colorectal cancer (CRC) remains unclear. Methods The expression of LINC00342 is detected by real-time PCR (RT-PCR) analysis. Cell proliferation, migration and invasion and xenograft model are examined to analyze the biological functions of LINC00342 in vitro and in vivo using colony formation, would healing and transwell analyses. Dual-luciferase reporter and RNA immunoprecipitation (RIP) assays are used to identify the target interactions between LINC00342, miR-19a-3p and aminopeptidase like 1 (NPEPL1). Results LINC00342 was highly expressed in CRC. Down-regulation of LINC00342 inhibited cell proliferation and metastasis of CRC cells. Moreover, knocking down LINC00342 inhibited the tumor growth in vivo. Mechanistic investigation revealed that LINC00342 might sponge miR-19a-3p to regulate NPEPL1 expression. Further investigation indicated that the ontogenesis facilitated by LINC00342 was inhibited due to the depletion of NPEPL1. Conclusion LINC00342 promotes CRC progression by competitively binding miR-19a-3p with NPEPL1.
Collapse
Affiliation(s)
- Peng Shen
- The Second Affiliated Hospital of Nanjing Medical University, Nanjing, 210000, China
| | - Lili Qu
- The Second Affiliated Hospital of Nanjing Medical University, Nanjing, 210000, China
| | - Jingjing Wang
- The Second Affiliated Hospital of Nanjing Medical University, Nanjing, 210000, China
| | - Quchen Ding
- The Second Affiliated Hospital of Nanjing Medical University, Nanjing, 210000, China
| | - Chuanwen Zhou
- The Affiliated Huaian No.1 People's Hospital of Nanjing Medical University, Huai'an, 223300, China
| | - Rui Xie
- The Affiliated Huaian No.1 People's Hospital of Nanjing Medical University, Huai'an, 223300, China
| | - Honggang Wang
- The Affiliated Huaian No.1 People's Hospital of Nanjing Medical University, Huai'an, 223300, China
| | - Guozhong Ji
- The Second Affiliated Hospital of Nanjing Medical University, Nanjing, 210000, China.
| |
Collapse
|
3
|
Grumelli S, Pinto-Plata V, Celli B. Genetic Switches between Cancer and Emphysema Resolution of Cigarette-Smoke Induced Inflammation. EC Pulmonol Respir Med 2019; 8:https://www.ecronicon.com/ecprm/pdf/ECPRM-08-00502.pdf. [PMID: 38116482 PMCID: PMC10729994] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Indexed: 12/21/2023]
Abstract
Cigarette smoke initiates an inflammatory response that has aftermath long after quitting. We segregated former smokers, according to their lung function and their co-founding diseases, in 3 groups: Cancer, Emphysema and COPD. Then we searched for outlier genes in intersections of Venn diagrams where we identified 6 subsets and 23 genes that may be responsible for disease outcome. Genes expressed in the cancer patients with or without emphysema (PPA subset) were BHLH, FPRL2, CD49D, DEADH, NRs4A3, MBLL, GNS, BE675435, ISGF-3, and FLJ23462. Patients with emphysema as co-founding disease, with or without cancer (APP), had only ANXA2 in common. Genes expressed only in non-cancer patients (AAP subset) of COPD group were IL-1A, SOX13, RPP38; TBXA2R, NPEPL1, CFLAR, TFEB, PRKCBP1, IGF1R, DDX11, and KCNAB1. HIV-1Rev was the gene expressed in cancer patients with emphysema (APA subset). Then, we also looked at out-layers genes significantly expressed in all patients (PPP subset with 5066 genes), the down-regulated in Emphysema were MMP9, PLUNC, CEACAM5, and NR4A1 while the up-regulated were F2R, COL15A1, PDE4C, and BGN. We chose genes and checked them at the protein level on immune cells, this showed that neutrophils from Cancer group had increased expression of CD49d, and their total number was also increased in bronchial-alveolar lavage (154%). Macrophages in the lung of patients with emphysema were associated with a significant increase of adhesion molecule CD58 and to significant CD95 decrease, indicating they do not die. Besides, macrophages downregulated MMP9 in the lung compared to blood macrophages. Overall, we find that cancer progression requires a stickier and greater number of neutrophils in the lung while emphysema requires stickier and longevous macrophages to lead matrix destruction, and together with higher expression of SOX13 and RPP38, may promote autoimmunity. We also identified two genes, ANXA2 and HIV1-rev, that may be a pivot between cancer and emphysema outcome of inflammation.
Collapse
Affiliation(s)
- Sandra Grumelli
- Center of Investigation in Medicine of Respiration, (CIMeR), Cordoba, Argentina
- Saint Elizabeth Hospital associated to TUFT University, Boston, United States
| | - Victor Pinto-Plata
- Saint Elizabeth Hospital associated to TUFT University, Boston, United States
| | - Bartolome Celli
- Saint Elizabeth Hospital associated to TUFT University, Boston, United States
- Brigham and Woman's Hospital, Boston, United States
| |
Collapse
|