Glycolysis Define Two Prognostic Subgroups of Lung Adenocarcinoma With Different Mutation Characteristics and Immune Infiltration Signatures

Chen, Huo; Zhang, Mengyu; Li, Rui; Liu, Tingting; Li, Jianping; Qu, Yi-Qing

doi:10.3389/fcell.2021.645482

Cited by 3 publications

(2 citation statements)

References 36 publications

(36 reference statements)

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“…Hsa-miR-543 promotes tumorigenesis and angiogenesis in non-small cell lung cancer [ 59 ]. Hsa-miR-331-3p is associated with prognostic value in lung adenocarcinoma [ 60 ]. This suggested that LINC02126 may play important roles in the development of lung adenocarcinoma by regulating the expression of DCN, COX7A1, PLAC9, LUM and MFAP4.…”

Section: Discussionmentioning

confidence: 99%

LINC02126 is a potential diagnostic, prognostic and immunotherapeutic target for lung adenocarcinoma

et al. 2022

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Background Adenocarcinoma has long been an independent histological class of lung cancer, which leads to high morbidity and mortality. We aimed to investigate the contribution of LINC02126 in lung adenocarcinoma. Methods RNA sequencing data and clinical information were downloaded. Diagnostic efficiency and survival analysis of LINC02126 were performed, followed by functional analysis of genes co-expressed with LINC02126 and differentially expressed genes (DEGs) in different LINC02126 expression groups. Tumor immune microenvironment (TIME) cell infiltration and correlation analysis of tumor mutation burden were performed in different LINC02126 expression groups. Results In lung adenocarcinoma, the expression level of LINC02126 was significantly decreased. Significant expression differences of LINC02126 were found in some clinical variables, including T staging, M staging, sex, stage, and EGFR mutation. LINC02126 had potential diagnostic and prognostic value for patients. In the low LINC02126 expression group, the infiltration degree of most immune cells was significantly lower than that in the high LINC02126 expression group. Tumor mutation burden level and frequency of somatic mutation in patients with low LINC02126 expression group were significantly higher than in patients with high LINC02126 expression group. Conclusions LINC02126 could be considered as a diagnostic, prognostic and immunotherapeutic target for lung adenocarcinoma.

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Section: Discussionmentioning

confidence: 99%

LINC02126 is a potential diagnostic, prognostic and immunotherapeutic target for lung adenocarcinoma

et al. 2022

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“…The molecular signature dataset (MSigDB, http://www.broad.mit.edu/gsea/msigdb/) is a repository of annotated gene sets for Gene Set Enrichment Analysis. Four glycolysis-associated gene sets were extracted, containing KEGG GLYCOLYSIS GLUCONEOGENESIS, BIOCARTA GLYCOLYSIS PATHWAY, HALLMARK GLYCOLYSIS, and REACTOME GLYCOLYSIS [13] (Supplementary Table S1, Supplemental Digital Content, http://links.lww.com/MD/I688). An aggregate of 255 glycolysis-associated genes was retrieved from MSigDB, which offers gene annotations in great depth.…”

Section: Methodsmentioning

confidence: 99%

A novel prognostic index based on the analysis of glycolysis-related genes in idiopathic pulmonary fibrosis

Liu

Deng

2023

Medicine

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Idiopathic pulmonary fibrosis (IPF) is a lung disease that is both chronic and progressive and is characterized by glycolysis. However, glycolysis’s function and its clinical significance in IPF are still not well understood. We accessed the Gene Expression Omnibus database to retrieve mRNA expression information for lung tissue and other samples. We identified genes associated with glycolysis that had differential expression levels between IPF and controls. In this work, we conducted a comprehensive bioinformatic analysis to systematically examine the glycolysis-associated genes with differential expression and subsequently investigated the possible prognostic significance of these genes. Additionally, the expression profiles of the associated prognostic genes were further investigated via quantitative real-time polymerase chain reaction in our cohort. In this investigation, we found that the expression of 16 genes involved in glycolysis was differentially expressed. Among them, 12 were upregulated and 4 were downregulated. We found that 3 glycolysis-related genes (stanniocalcin 2, transketolase like 1, artemin) might serve as hub genes for anticipating patient prognosis. The data from these genes were used to generate the prognostic models. The findings confirmed that high-risk IPF patients recorded a shorter overall survival relative to low-risk patients. This prognostic model yielded 1-, 2-, and 3-year survival rates of 0.666, 0.651, and 0.717, correspondingly, based on the area under the curve of the survival-dependent receiver operating characteristic. The GSE27957 and GSE70866 cohorts validated these findings, indicating the model has a good predictive performance. All 3 glycolysis-associated genes were validated to be expressed in our cohort. Finally, we used mRNA levels from 3 genes to produce a nomogram to quantitatively predict the prognosis of IPF individuals. As possible indicators for the prognosis of IPF, the glycolysis-related genes stanniocalcin 2, transketolase like 1, and artemin were shown to be promising candidate markers.

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Identification of the potential regulatory interactions in rheumatoid arthritis through a comprehensive analysis of lncRNA-related ceRNA networks

Yang,

Su,

Zheng

et al. 2023

BMC Musculoskelet Disord

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Objective This study aimed at constructing a network of competing endogenous RNA (ceRNA) in the synovial tissues of rheumatoid arthritis (RA). It seeks to discern potential biomarkers and explore the long non-coding RNA (lncRNA)-microRNA (miRNA)-messenger RNA (mRNA) axes that are intricately linked to the pathophysiological mechanisms underpinning RA, and providing a scientific basis for the pathogenesis and treatment of RA. Methods Microarray data pertaining to RA synovial tissue, GSE103578, GSE128813, and GSE83147, were acquired from the Gene Expression Omnibus (GEO) database (http://www.ncbi.nlm.nih.gov/geo). Conducted to discern both differentially expressed lncRNAs (DELncRNAs) and differentially expressed genes (DEGs). A ceRNA network was obtained through key lncRNAs, key miRNAs, and key genes. Further investigations involved co-expression analyses to uncover the lncRNA-miRNA-mRNA axes contributing to the pathogenesis of RA. To delineate the immune-relevant facets of this axis, we conducted an assessment of key genes, emphasizing those with the most substantial immunological correlations, employing the GeneCards database. Finally, gene set enrichment analysis (GSEA) was executed on the identified key lncRNAs to elucidate their functional implications in RA. Results The 2 key lncRNAs, 7 key miRNAs and 6 key genes related to the pathogenesis of RA were obtained, as well as 2 key lncRNA-miRNA-mRNA axes (KRTAP5-AS1-hsa-miR-30b-5p-PNN, XIST-hsa-miR-511-3p/hsa-miR-1277-5p-F2RL1). GSEA of two key lncRNAs obtained biological processes and signaling pathways related to RA synovial lesions. Conclusion The findings of this investigation hold promise in furnishing a foundational framework and guiding future research endeavors aimed at comprehending the etiology and therapeutic interventions for RA.

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Glycolysis Define Two Prognostic Subgroups of Lung Adenocarcinoma With Different Mutation Characteristics and Immune Infiltration Signatures

Cited by 3 publications

References 36 publications

LINC02126 is a potential diagnostic, prognostic and immunotherapeutic target for lung adenocarcinoma

LINC02126 is a potential diagnostic, prognostic and immunotherapeutic target for lung adenocarcinoma

A novel prognostic index based on the analysis of glycolysis-related genes in idiopathic pulmonary fibrosis

Identification of the potential regulatory interactions in rheumatoid arthritis through a comprehensive analysis of lncRNA-related ceRNA networks

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