Prognostic value of prostaglandin I2 synthase and its correlation with tumor-infiltrating immune cells in lung cancer, ovarian cancer, and gastric cancer

Dai, De-Chang; Chen, Bin; Feng, Yanling; Wang, Weizhong; Jiang, Yanjun; Huang, He; Liu, Jihong

doi:10.18632/aging.103235

Cited by 40 publications

(31 citation statements)

References 56 publications

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“…The correlation module of TIMER (https://cistrome.shi nyapps.io/timer/) 19 was used for the correlation analysis between JAK expression and immune cell markers together with the Spearman's rho value and estimated statistical significance. The related gene markers of multiple immune cells were obtained from the related references [38][39][40] and the CellMarker database (http://biocc. hrbmu.edu.cn/CellMarker/).…”

Section: Correlation Analysis Between Jak Expression and Immune Cell mentioning

confidence: 99%

Identification of Prognostic Biomarkers and Molecular Targets Among JAK Family in Breast Cancer

Liu¹,

Wu²

2021

JIR

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Background: Janus kinases (JAKs) are a family of non-receptor tyrosine kinases involved in multiple malignancies. However, clinical values of JAKs as prognostic markers and potential mechanism as molecular targets in breast invasive carcinoma (BC) are not completely clarified. Methodology: TIMER, UALCAN and GEPIA were used to assess the expression and methylation levels of JAKs in BC. Kaplan-Meier Plotter, bc-GenExMiner, SurvExpress, TRGAted, MethSurv, and SurvivalMeth were used to assess the multilevel prognostic significance of JAKs in breast cancer patients. And cBioPortal, TIMER, STRING, GeneMANIA, NetworkAnalysis, LinkedOmics, DAVID 6.8, and Metascape were applied for multilayer networks and functional enrichment analyses. Correlations between immune cell infiltrates/their gene markers and JAKs were evaluated by TIMER. Results: We first explored the expression and methylation level of JAKs in breast cancer and found significantly reduced JAK1 and JAK2 expression at mRNA and protein levels, significantly higher JAK3 protein expression, and significantly increased TYK2 expression at mRNA level but decreased at protein level. In addition, hypermethylation of JAK3 and TYK2 and hypomethylation of JAK1 were found in tumor samples. In terms of prognostic values of JAKs in BC patients, low transcriptional levels of JAK1, JAK2, JAK3, and TYK2 indicated worse OS/DMFS/PPS/RFS/DFS, inferior DFS, worse RFS, and shorter OS/DMFS/ RFS, respectively. The mRNA signature analysis showed that high-risk group had unfavorable OS/RFS/MFS. Low JAK2 protein level indicated unfavorable DSS/PFS in BC patients. Five CpGs of JAK1, four CpGs of JAK2, 20 CpGs of JAK3, and 13 CpGs of TYK2 were significantly associated with prognosis in BC patients. The DNA methylation signature analysis also suggested worse prognosis in the high-risk group. For potential biological roles of JAKs, interaction analyses, functional enrichment analyses for biological process, cellular component, molecular function, and KEGG pathway analyses of JAKs and their neighbor genes in BC were conducted. Kinase targets, gene-miRNA interactions, and transcription factor-gene interactions of JAKs were also identified. Furthermore, JAKs were found to be significantly related to immune infiltrates as well as the expression levels of multiple immune markers in BC. Conclusion: JAKs showed multilevel prognostic value and important biological roles in BC. They might serve as promising prognostic markers and possible targets in breast cancer.

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Section: Correlation Analysis Between Jak Expression and Immune Cell mentioning

confidence: 99%

Identification of Prognostic Biomarkers and Molecular Targets Among JAK Family in Breast Cancer

Liu¹,

Wu²

2021

JIR

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“…A total of 182 differentially expressed mRNAs were identi ed, of which 117 mRNAs were lower expressed. TIMP1 [19,27], MMP9 [17,18], 3BHSD [20,28] and PTGIS [29], which are essential for follicular and ovarian developments, were included. Enrichments were performed and differentially expressed mRNAs were found to function in 43 GO terms and 193 pathways.…”

Section: Resultsmentioning

confidence: 99%

Whole Transcriptome Analysis: Implication to Estrous Cycle Regulation

Zhang

et al. 2021

Preprint

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BackgroundEstrous cycle is one of female characteristics after sexual maturity, including estrus (ES) and diestrus (DS) stages. Estrous cycle is important in female physiology and its disorder may lead to diseases. In the latest years, effects of non-coding RNAs and mRNA on estrous cycle start to arouse much concern, however, a whole transcriptome analysis among non-coding RNAs and mRNA has not been reported.ResultsHere we report a whole transcriptome analysis of goat ovary in estrus and diestrus periods. Estrus synchronization was conducted to induce the estrus phase and on day 32, the goats naturally shifted into diestrus stage. The ovary RNA of estrus and diestrus stages was respectively collected to perform RNA-sequencing. Then the circular RNA; microRNA; long non-coding RNA; mRNA databases of goat ovary were acquired, and the differentially expressions between estrus and diestrus stages were screened to construct circRNA-miRNA-mRNA/lncRNA and lncRNA-miRNA/mRNA networks, thus providing potential pathways that involved in the regulation of estrous cycle. Differentially expressed mRNAs, such as MMP9, TIMP1, 3BHSD and PTGIS, and differentially expressed microRNAs, such as miR-21-3p，miR-202-3p and miR-223-3p, which play key roles in estrous cycle regulation were extracted from the network.ConclusionsOur data provided the miRNA, circRNA, lncRNA and mRNA databases of goat ovary and each differentially expressed profile between ES and DS. Networks among differentially expressed miRNAs, circRNAs, lncRNAs and mRNAs were constructed to provide valuable resources for the study of estrous cycle and related diseases.

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“…The expression of BTNL9 in LUAD and its correlation with the six immune in ltration cells, namely B cells, CD4+ T cells, CD8+ T cells, macrophages, neutrophils, and dendritic cells, used as the Gene and Survival module. Gene_Corr module was used to analyze the correlation between BTNL9 expression and B and DC cells [20].…”

Section: Timer Database Analysismentioning

confidence: 99%

Butyrophilin-like 9 regulates immune infiltration and serves as a prognostic marker in lung adenocarcinoma

Liang

Zhang

et al. 2020

Preprint

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Background: Butyrophilin (BTN) and butyrophilin-like (BTLN) belong to immunoglobulin superfamily, and also pertain the B7 co-stimulatory molecules family, which has multiple roles in immune modulation. Whether the BTNL9 expression in lung adenocarcinoma (LUAD) correlates with outcome has not been evaluated.Materials and methods: Oncomine and GEPIA were used to analyze the BTNL9, while its mRNA expression in LUAD and corresponding adjacent tissues was investigated using TIMER. The clinical prognosis of BTNL9 was assessed in the GEPIA, Kaplan-Meier plotter, and OncoLnc. Besides, the correlation between BTNL9 and tumor-infiltrating immune cells (TILs) was analyzed using TIMER and GEPIA. The correlation between BTNL9 expression and drug response was analyzed using CARE.Results: BNL9 expression was significantly low in LUAD. Low BTNL9 expression was associated with poor OS, and its expression was found to be regulated by both epigenetic regulation and post-transcriptional modification. BTNL9 expression was significant positively correlated with ImmuneScore and ESTIMATEScore. Moreover, BTNL9 expression was positively correlated with infiltrating levels of B cells, CD4+T, and macrophages, but Kaplan-Meier analysis showed that BTNL9 expression in B cells and DCs was significantly associated with OS. Furthermore, BTNL9 expression has significant positive CARE scores. Conclusions: Low BTNL9 expression can prevent the infiltration of naïve B cells and DCs in the tumor microenvironment and worsen the outcome in LUAD patients. Besides, these findings also suggest the potential role of BTNL9 as a prognostic biomarker and a new immuno-target.

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Prognostic value of prostaglandin I2 synthase and its correlation with tumor-infiltrating immune cells in lung cancer, ovarian cancer, and gastric cancer

Cited by 40 publications

References 56 publications

Identification of Prognostic Biomarkers and Molecular Targets Among JAK Family in Breast Cancer

Identification of Prognostic Biomarkers and Molecular Targets Among JAK Family in Breast Cancer

Whole Transcriptome Analysis: Implication to Estrous Cycle Regulation

Butyrophilin-like 9 regulates immune infiltration and serves as a prognostic marker in lung adenocarcinoma

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