scholarly journals Joint bioinformatics analysis of underlying potential functions of hsa-let-7b-5p and core genes in human glioma

2019 ◽  
Vol 17 (1) ◽  
Author(s):  
Xiaonan Xi ◽  
Yahui Chu ◽  
Ning Liu ◽  
Qianqian Wang ◽  
Zheng Yin ◽  
...  
Genomics ◽  
2021 ◽  
Vol 113 (4) ◽  
pp. 1647-1658
Author(s):  
Ismael Soltani ◽  
Wael Bahia ◽  
Ahlem Farrah ◽  
Abdelkarim Mahdhi ◽  
Salima Ferchichi ◽  
...  

Oncotarget ◽  
2017 ◽  
Vol 8 (41) ◽  
pp. 70271-70280 ◽  
Author(s):  
Chenhua Sun ◽  
Qi Yuan ◽  
Dongdong Wu ◽  
Xiaohu Meng ◽  
Baolin Wang

2019 ◽  
Vol 215 (7) ◽  
pp. 152436 ◽  
Author(s):  
Fei Liu ◽  
Yunyan Wu ◽  
Yunzhe Mi ◽  
Lina Gu ◽  
Meixiang Sang ◽  
...  

2020 ◽  
Vol 2020 ◽  
pp. 1-12
Author(s):  
Jianqiang Kou ◽  
Guoming Liu ◽  
Xiangyun Liu ◽  
Tianmi Li ◽  
Ying Wei ◽  
...  

Recent studies have reported that circular RNAs (circRNAs) play a crucial regulatory role in a variety of human diseases. However, the roles of circRNAs in ankylosing spondylitis (AS) remain unclear. In this study, we conducted circRNA expression profiling of the spinal ligament tissues of patients with AS by RNA sequencing (RNA-seq) and analyzed the potential functions of differentially expressed circRNA by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses to investigate the potential mechanisms associated with AS. The results showed that a total of 1,172 circRNAs were detected in the spinal ligament tissue samples, of which 123 circRNAs were significantly differentially expressed by a fold change≥1.5 and p value < 0.05. Among these, 57 circRNAs were upregulated, and 66 were downregulated. GO and KEGG analyses demonstrated that the differentially expressed circRNAs were mainly involved in the regulation of biological processes of peptidyl-serine phosphorylation and human immune system that may be related to AS. In addition, the circRNA/miRNA interaction networks were established to predict the potential roles of differentially expressed circRNAs by bioinformatics analysis. Taken together, these results revealed the expression profiles of circRNAs and the potential functions of the differentially expressed circRNAs in the spinal ligament tissue of patients with AS, which may provide new clues for understanding the mechanisms associated with AS, and proceed to identify novel potential molecular targets for the diagnoses and treatment of AS.


Medicine ◽  
2021 ◽  
Vol 100 (27) ◽  
pp. e26428
Author(s):  
Xiaojie Yang ◽  
Mengyue Tian ◽  
Weiguang Zhang ◽  
Tianci Chai ◽  
Zhimin Shen ◽  
...  

2021 ◽  
Vol 0 (0) ◽  
pp. 2109-2122
Author(s):  
Changjiang Shao ◽  
Rong Wang ◽  
Dandan Kong ◽  
Qian Gao ◽  
Chunfang Xu

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e12394
Author(s):  
Alice Charwudzi ◽  
Ye Meng ◽  
Linhui Hu ◽  
Chen Ding ◽  
Lianfang Pu ◽  
...  

Background Diffuse large B-cell lymphoma (DLBCL) is a highly heterogeneous malignancy with varied outcomes. However, the fundamental mechanisms remain to be fully defined. Aim We aimed to identify core differentially co-expressed hub genes and perturbed pathways relevant to the pathogenesis and prognosis of DLBCL. Methods We retrieved the raw gene expression profile and clinical information of GSE12453 from the Gene Expression Omnibus (GEO) database. We used integrated bioinformatics analysis to identify differentially co-expressed genes. The CIBERSORT analysis was also applied to predict tumor-infiltrating immune cells (TIICs) in the GSE12453 dataset. We performed survival and ssGSEA (single-sample Gene Set Enrichment Analysis) (for TIICs) analyses and validated the hub genes using GEPIA2 and an independent GSE31312 dataset. Results We identified 46 differentially co-expressed hub genes in the GSE12453 dataset. Gene expression levels and survival analysis found 15 differentially co-expressed core hub genes. The core genes prognostic values and expression levels were further validated in the GEPIA2 database and GSE31312 dataset to be reliable (p < 0.01). The core genes’ main KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway enrichments were Ribosome and Coronavirus disease-COVID-19. High expressions of the 15 core hub genes had prognostic value in DLBCL. The core genes showed significant predictive accuracy in distinguishing DLBCL cases from non-tumor controls, with the area under the curve (AUC) ranging from 0.992 to 1.00. Finally, CIBERSORT analysis on GSE12453 revealed immune cells, including activated memory CD4+ T cells and M0, M1, and M2-macrophages as the infiltrates in the DLBCL microenvironment. Conclusion Our study found differentially co-expressed core hub genes and relevant pathways involved in ribosome and COVID-19 disease that may be potential targets for prognosis and novel therapeutic intervention in DLBCL.


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