Characterization of Transcriptome Transition Associates Long Noncoding RNAs with Glioma Progression

Lin, Xiaoyu; Jiang, Tiantongfei; Bai, Jing; Li, Junyi; Wang, Tianshi; Xiao, Jun; Tian, Yi; Jin, Xiyun; Shao, Tingting; Xu, Juan; Chen, Lingchao; Wang, Lihua; Li, Yongsheng

doi:10.1016/j.omtn.2018.10.009

Cited by 34 publications

(35 citation statements)

References 54 publications

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“…Recent study demonstrates MIR155HG is highly expressed in mesenchymal GBM tissues and suppression of MIR155HG can decrease expression of mesenchymal transition-associated proteins, such as β-catenin, N-cadherin, suggesting a function as a regulator in mesenchymal transition progression [28]. Identical to our research, recent bioinformatics analysis reveals PWAR6 and LINC00641 are expression-dysregulated in glioma tissues [29][30][31]. Meanwhile, PWAR6 has also been considered as a modulator of tumor immunoreaction and epithelialmesenchymal transition (EMT) [29].…”

Section: Discussionsupporting

confidence: 77%

“…Identical to our research, recent bioinformatics analysis reveals PWAR6 and LINC00641 are expression-dysregulated in glioma tissues [29][30][31]. Meanwhile, PWAR6 has also been considered as a modulator of tumor immunoreaction and epithelialmesenchymal transition (EMT) [29]. However, the in-depth analysis of mechanisms of AC120036.4 and LINC00641 has not been identi ed in glioma.…”

Section: Discussionsupporting

confidence: 62%

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Identification and Validation of a Five-lncRNA Signature Related to Glioma Using Bioinformatics Analysis

Dao-feng¹,

Liu²,

Xu³

et al. 2020

Preprint

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BackgroundTo accurately predict the prognosis of glioma patients. Methods and ResultsA total of 541 samples from the TCGA cohort and 181 observations from the CGGA database were included in our study. By weighted gene co-expression network analysis (WGCNA), 14 long non-coding RNAs (lncRNAs) associated with glioma grade were identified. Using univariate and multivariate Cox analysis Five lncRNAs (CYTOR, MIR155HG, LINC00641, AC120036.4 and PWAR6) were selected to develop the prognostic signature. The Kaplan-Meier curve depicted that the patients in high risk group had poor prognosis in both cohorts. The areas under the receiver operating characteristic curve of the signature in predicting the survival of glioma patients at 1, 3, and 5 years were 0.84, 0.92, and 0.90 in the CGGA cohort and 0.8, 0.85 and 0.77 in the TCGA set. Multivariate Cox analysis demonstrated that the five-lncRNA signature was an independent prognostic indicator in both sets (HR = 2.002, p < 0.001; HR = 1.243, p = 0.007, respectively). A nomogram including the lncRNAs signature and clinical covariates was constructed and demonstrated high predictive accuracy in predicting 1-, 3- and 5-year survival probability of glioma patients. ConclusionWe established a five-lncRNA signature as a potentially reliable tool for survival prediction of glioma patients.

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Section: Discussionsupporting

confidence: 77%

Section: Discussionsupporting

confidence: 62%

Identification and Validation of a Five-lncRNA Signature Related to Glioma Using Bioinformatics Analysis

Dao-feng¹,

Liu²,

Xu³

et al. 2020

Preprint

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“…To improve the response rates, it is critical to identify more specific biomarkers and immune checkpoint inhibitors. LncRNAs are emerging as critical regulators of gene expression in the immune system and play critical roles in the development and progression of cancer [15,16]. However, only a few immune-related lncRNAs have been conducted in cancer so far [17][18][19].…”

Section: Introductionmentioning

confidence: 99%

MIR22HG acts as a tumor suppressor via TGFβ/SMAD signaling and facilitates immunotherapy in colorectal cancer

Shao

Song

et al. 2020

Mol Cancer

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Background: Long noncoding RNAs (lncRNAs) are emerging as critical regulatory elements and play fundamental roles in the biology of various cancers. However, we are still lack of knowledge about their expression patterns and functions in human colorectal cancer (CRC). Methods: Differentially expressed lncRNAs in CRC were identified by bioinformatics screen and the level of MIR22HG in CRC and control tissues were determined by qRT-PCR. Cell viability and migration capacities were examined by MTT and transwell assay. Mouse model was used to examine the function and rational immunotherapy of MIR22HG in vivo. Results:We systematically investigated the expression pattern of lncRNAs and revealed MIR22HG acts as a tumor suppressor in CRC. The expression of MIR22HG was significantly decreased in CRC, which was mainly driven by copy number deletion. Reduced expression of MIR22HG was significantly associated with poor overall survival. Silencing of MIR22HG promoted cell survival, proliferation and tumor metastasis in vitro and in vivo. Mechanistically, MIR22HG exerts its tumor suppressive activity by competitively interacting with SMAD2 and modulating the activity of TGFβ pathway. Decreased MIR22HG promoted the epithelial-mesenchymal transition in CRC. Importantly, we found that MIR22HG expression is significantly correlated with CD8A and overexpression of MIR22HG triggers T cell infiltration, enhancing the clinical benefits of immunotherapy. Conclusion: MIR22HG acts as a tumor suppressor in CRC. Our data provide mechanistic insights into the regulation of MIR22HG in TGFβ pathway and facilitates immunotherapy in cancer.

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“…37 CARD8-AS1 has recently been shown to be involved in the regulation of immune response and epithelial-mesenchymal transition. 38 HCP5, a hybrid HLA class I endogenous retroviral gene, is known for its functional roles in adaptive and innate immune responses, and newly is recognized as SMAD3-responsive lncRNA which can promote lung adenocarcinoma metastasis via miR-203/SNAI axis. 39 These published experimental efforts provide further evidence supporting the association between the TILSig and immune responses.…”

Section: Discussionmentioning

confidence: 99%

Identification of tumor immune infiltration-associated lncRNAs for improving prognosis and immunotherapy response of patients with non-small cell lung cancer

Sun

Zhang

Bao

et al. 2020

J Immunother Cancer

224

195

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BackgroundIncreasing evidence has demonstrated the functional relevance of long non-coding RNAs (lncRNAs) to immunity regulation and the tumor microenvironment in non-small cell lung cancer (NSCLC). However, tumor immune infiltration-associated lncRNAs and their value in improving clinical outcomes and immunotherapy remain largely unexplored.MethodsWe developed a computational approach to identify an lncRNA signature (TILSig) as an indicator of immune cell infiltration in patients with NSCLC through integrative analysis for lncRNA, immune and clinical profiles of 115 immune cell lines, 187 NSCLC cell lines and 1533 patients with NSCLC. Then the influence of the TILSig on the prognosis and immunotherapy in NSCLC was comprehensively investigated.ResultsComputational immune and lncRNA profiling analysis identified an lncRNA signature (TILSig) consisting of seven lncRNAs associated with tumor immune infiltration. The TILSig significantly stratified patients into the immune-cold group and immune-hot group in both training and validation cohorts. These immune-hot patients exhibit significantly improved survival outcome and greater immune cell infiltration compared with immune-cold patients. Multivariate analysis revealed that the TILSig is an independent predictive factor after adjusting for other clinical factors. Further analysis accounting for TILSig and immune checkpoint gene revealed that the TILSig has a discriminatory power in patients with similar expression levels of immune checkpoint genes and significantly prolonged survival was observed for patients with low TILSig and low immune checkpoint gene expression implying a better response to immune checkpoint inhibitor (ICI) immunotherapy.ConclusionsOur finding demonstrated the importance and value of lncRNAs in evaluating the immune infiltrate of the tumor and highlighted the potential of lncRNA coupled with specific immune checkpoint factors as predictive biomarkers of ICI response to enable a more precise selection of patients.

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Characterization of Transcriptome Transition Associates Long Noncoding RNAs with Glioma Progression

Cited by 34 publications

References 54 publications

Identification and Validation of a Five-lncRNA Signature Related to Glioma Using Bioinformatics Analysis

Identification and Validation of a Five-lncRNA Signature Related to Glioma Using Bioinformatics Analysis

MIR22HG acts as a tumor suppressor via TGFβ/SMAD signaling and facilitates immunotherapy in colorectal cancer

Identification of tumor immune infiltration-associated lncRNAs for improving prognosis and immunotherapy response of patients with non-small cell lung cancer

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