Identification of immune-related biomarkers associated with tumorigenesis and prognosis in cutaneous melanoma patients

Huang, Biao; Han, Wei; Sheng, Zu-Feng; Shen, Ge

doi:10.1186/s12935-020-01271-2

Cited by 66 publications

(48 citation statements)

References 42 publications

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“…In addition, the expressions of CXCL9, CXCL10, CXCL13, CCL4 and CCL5 were positively correlated with infiltration of six immune cells and 28 types of tumor infiltrating lymphocytes. 12 Our results also showed that CXCL9 and CXCL10 expressed highly, in the lung metastasis microenvironment, Wumei decoction could decrease the expression of both. Wumei decoction, however, whether to reduce the number of tumor cells in the tumor microenvironment also needs further research.…”

Section: Discussionsupporting

confidence: 63%

Effect of Wumei Decoction on Core Signal Transduction Molecules of Microenvironment in Lung Metastasis of Breast Cancer

wang

et al. 2020

Preprint

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Background The influence of traditional Chinese medicine on the tumor microenvironment is one of the mechanisms of its overall conditioning effect. In this study, we observed the influence of Wumei decoction,a traditional Chinese medicine classic prescription, on the core signal transduction molecules of the lung metastasis microenvironment in the model of lung metastasis of breast cancer in mice. Methods A breast cancer animal model established by inoculating the second pair of mammary fat pads of SPF grade Balb/c female mice with mouse breast cancer 4T1 cells, stably transduced luciferase. Model animals were divided into drug observation group, drug control group and blank control group. Bioluminescence imaging technique in vivo was used to observe the growth and metastasis of breast cancer in situ and lung. The gene expression in the lung metastasis microenvironment of the drug observation group and the blank control group was detected by Agilent expression profiling chip, and the differential genes were screened. And STRING (https://string-db.org/) online analysis system was used to obtain the signal transduction network, and then the MCODE plug-in of Cytosacpe software was used to obtain the core signal transduction molecule. Finally, the expression of these signal transduction molecules was detected by RT-PCR, immunohistochemistry and Western blot. Results Observed from the bioluminescence imaging technology in vivo, the fluorescent area of the breast cancer in inoculation area of each group mice gradually increased over time, indicating that the tumor volume is continuously increasing. The fluorescence distribution of the blank control group was dispersed on the 30th day, which had exceeded the vicinity of the original inoculation focus, indicating that the tumor had obvious metastasis. However, the drug observation group and the drug control group did not show such obvious transfer. Transcription expression profile chip results showed that there were 123 differentially expressed genes in the drug observation group and the blank control group, of which 64 genes were up-regulated and 59 genes were down-regulated. The signal transduction network of the 123 differentially expressed genes was obtained. The core genes recommended were AGT, CCL20, CXCL9, CXCL10, and HTR1B. RT-PCR results showed that the expression of AGT, CCL20, CXCL9, CXCL10, and HTR1B in the drug observation group were reduced compared with the blank control group, and the difference was statistically significant, p < 0.01. The results of immunohistochemistry showed that the core genes of the drug observation group showed a low expression trend, and the difference of CCL20 and CXCL10 was statistically significant, p < 0.01. Western blotting results also showed that each core gene protein in the drug observation group, compared with the blank control group, showed a downward trend. The difference of AGT and CCL20 was statistically significant, p < 0.01, and the difference of CXCL10 was also statistically significant, p < 0.05 . Conclusions Wumei decoction,a traditional Chinese medicine classic prescription, can inhibit lung metastasis of breast cancer to a certain extent. Inhibiting the expression of AGT, CCL20, CXCL9, CXCL10, HTR1B and other core signal transduction molecules in the lung metastasis microenvironment is one of its mechanisms.

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Section: Discussionsupporting

confidence: 63%

Effect of Wumei Decoction on Core Signal Transduction Molecules of Microenvironment in Lung Metastasis of Breast Cancer

wang

et al. 2020

Preprint

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“…Tumor purity was defined as the proportion of malignant cells in tumor tissue, which was closely correlated with prognosis (Yoshihara et al, 2013;Aran et al, 2015;Li et al, 2017). Previously, Hong et al (2020) and Zhang et al (2020) have demonstrated that high immune score and low tumor purity were linked with poor prognosis in osteosarcoma. Therefore, we applied ESTIMATE to determinate the TIME of the two subgroups.…”

Section: Discussionmentioning

confidence: 99%

Expression of Lipid-Metabolism Genes Is Correlated With Immune Microenvironment and Predicts Prognosis in Osteosarcoma

Lei

et al. 2021

Front. Cell Dev. Biol.

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ObjectivesOsteosarcoma was the most popular primary malignant tumor in children and adolescent, and the 5-year survival of osteosarcoma patients gained no substantial improvement over the past 35 years. This study aims to explore the role of lipid metabolism in the development and diagnosis of osteosarcoma.MethodsClinical information and corresponding RNA data of osteosarcoma patients were downloaded from TRGET and GEO databases. Consensus clustering was performed to identify new molecular subgroups. ESTIMATE, TIMER and ssGSEA analyses were applied to determinate the tumor immune microenvironment (TIME) and immune status of the identified subgroups. Functional analyses including GO, KEGG, GSVA and GSEA analyses were conducted to elucidate the underlying mechanisms. Prognostic risk model was constructed using LASSO algorithm and multivariate Cox regression analysis.ResultsTwo molecular subgroups with significantly different survival were identified. Better prognosis was associated with high immune score, low tumor purity, high abundance of immune infiltrating cells and relatively high immune status. GO and KEGG analyses revealed that the DEGs between the two subgroups were mainly enriched in immune- and bone remodeling-associated pathways. GSVA and GSEA analyses indicated that, lipid catabolism downregulation and lipid hydroxylation upregulation may impede the bone remodeling and development of immune system. Risk model based on lipid metabolism related genes (LMRGs) showed potent potential for survival prediction in osteosarcoma. Nomogram integrating risk model and clinical characteristics could predict the prognosis of osteosarcoma patients accurately.ConclusionExpression of lipid-metabolism genes is correlated with immune microenvironment of osteosarcoma patients and could be applied to predict the prognosis of in osteosarcoma accurately.

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“…The other hub genes were associated with the function of immune, differentiation, proliferation, survival, and apoptosis. Combing with the results of GO and KEGG enrichment, the function of hub genes was centered around B cell function ( Hu et al, 2018 ; Gazon et al, 2018 ; Karin and Razon, 2018 ; Tokunaga et al, 2018 ; Xiao et al, 2019 ; Huang et al, 2020 ; Yang et al, 2020 ). Considering fold change of qPCR was easier to detect in practical production and the gene function of B cell receptor signal pathway, SMC3 , JUN and CXCL10 could be suggested as molecular markers in transportation stress.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome Characterization of Short Distance Transport Stress in Beef Cattle Blood

Zhao

Tang

et al. 2021

Front. Genet.

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The transportation is a crucial phase in beef cattle industry, and the annual losses caused by beef cattle transport stress are substantial. Several studies have described the effect of long distance transportation stress on animal health, such as disorder in nervous, endocrine, immune, and metabolic system. However, molecular mechanisms underlying short distance transportation stress is still poorly understood. Present study aims to investigate the effect of short distance transportation by measuring the hematological indices and transcriptomic analysis. In this study, a total 10 Qinchuan cattle were used to compare the molecular characteristics of blood before and after transportation. We have found that a stress-related marker “white blood cell count (WBC)” increased significantly after transportation. The decrease in triglyceride (TG), cholestenone (CHO), high-density lipoprotein (HDL), and low-density lipoprotein (LDL) showed that energy expenditure was increased after transportation, but not enough to activate fatty decomposition. Intriguingly, the decrease of malondialdehyde (MDA) showed that cattle were more resilience to oxidative stress. The RNA-seq showed that 1,092 differentially expressed genes (DEGs) were found (329 up-regulated and 763 down-regulated) between group before and group after. The GO and KEGG enrichment showed that the metabolic pathway and B cell function related pathways were enriched. Furthermore, median absolute deviation (MAD) top 5,000 genes were used to construct a co-expression network by weighted correlation network analysis (WGCNA), and 11 independent modules were identified. Combing with protein-protein interaction (PPI) analysis, the verification of quantitative real-time PCR (qPCR) and the correlation of B cell function, structural maintenance of chromosomes 3 (SMC3), jun proto-oncogene (JUN), and C-X-C motif chemokine ligand 10 (CXCL10) were suggested as potential molecular markers in identification of short distance transportation. Collectively, the blood RNA-seq analysis and WGCNA indicated that the disorder of B cell differentiation, proliferation, survival, and apoptosis were the potential molecular mechanism in short distance transportation stress. In conclusion, our results provide the novel insight about potential biomarkers for short distance transportation stress, which may serve as for diagnosing and preventing this condition in beef industry.

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Identification of immune-related biomarkers associated with tumorigenesis and prognosis in cutaneous melanoma patients

Cited by 66 publications

References 42 publications

Effect of Wumei Decoction on Core Signal Transduction Molecules of Microenvironment in Lung Metastasis of Breast Cancer

Effect of Wumei Decoction on Core Signal Transduction Molecules of Microenvironment in Lung Metastasis of Breast Cancer

Expression of Lipid-Metabolism Genes Is Correlated With Immune Microenvironment and Predicts Prognosis in Osteosarcoma

Transcriptome Characterization of Short Distance Transport Stress in Beef Cattle Blood

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