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A novel immune-related LncRNA prognostic signature for cutaneous melanoma
Hu Nan,Huang Cancan,He Yancheng,Li Shuyang,Yuan Jingyi,Zhong Guishu,Chen Yan 대한독성 유전단백체 학회 2024 Molecular & cellular toxicology Vol.20 No.2
Backgrounds Among tumor microenvironment, the immune components in it have an important influence on gene expression and clinical efficacy. We aim to find out the role of those in skin cutaneous melanoma (SKCM). Objectives Gene expression profile and homologous clinical information of SKCM patients were obtained by TCGA (The Cancer Genome Atlas) and UCSC Toil. SsGSEA method was used to evaluate the immune cell infiltration of 468 TCGA-SKCM samples divided into high immune cell infiltration group (HICI) and low immune cell infiltration group (LICI). We used the Edger packet to conduct difference analysis on normal samples (GTEx) and cancer samples (TCGA), and combined it with the difference of the HICI group and LICI group, to find out the common differential expression of lncRNA in both groups. The prognostic value of immune-related lncRNAs was studied by univariate Cox, Lasso-Cox and multivariate Cox regression analysis, and a prognostic model was established. C index and calibration diagram were used to judge the accuracy of the model, and DCA was used to judge the net benefit. Results Six prognostic markers of immune-related lncRNA genes were established, which could be used as independent prognostic factors. The net benefit and prediction accuracy are significantly higher than TNM Stage. Conclusion The prognostic model identified in this study is a reliable biomarker for SKCM. The Nomogram survival prediction model based on it is a reliable way to predict the median survival time of patients, which may lay the foundation for future treatment of this disease. Backgrounds Among tumor microenvironment, the immune components in it have an important influence on gene expression and clinical efficacy. We aim to find out the role of those in skin cutaneous melanoma (SKCM). Objectives Gene expression profile and homologous clinical information of SKCM patients were obtained by TCGA (The Cancer Genome Atlas) and UCSC Toil. SsGSEA method was used to evaluate the immune cell infiltration of 468 TCGA-SKCM samples divided into high immune cell infiltration group (HICI) and low immune cell infiltration group (LICI). We used the Edger packet to conduct difference analysis on normal samples (GTEx) and cancer samples (TCGA), and combined it with the difference of the HICI group and LICI group, to find out the common differential expression of lncRNA in both groups. The prognostic value of immune-related lncRNAs was studied by univariate Cox, Lasso-Cox and multivariate Cox regression analysis, and a prognostic model was established. C index and calibration diagram were used to judge the accuracy of the model, and DCA was used to judge the net benefit. Results Six prognostic markers of immune-related lncRNA genes were established, which could be used as independent prognostic factors. The net benefit and prediction accuracy are significantly higher than TNM Stage. Conclusion The prognostic model identified in this study is a reliable biomarker for SKCM. The Nomogram survival prediction model based on it is a reliable way to predict the median survival time of patients, which may lay the foundation for future treatment of this disease.
He, Zhiguo,Zhong, Hui,Hu, Yuehua,Xiao, Shengmu,Liu, Jiarshe,Xu, Jin,Li, Guiyuen Korean Society for Biochemistry and Molecular Biol 2005 Journal of biochemistry and molecular biology Vol.38 No.5
Acidithiobacillus ferrooxidans is one of the most important bacterium used in bioleaching, and can utilize $Fe^{2+}$ or sulphide as energy source. Growth curves for Acidithiobacillus ferrooxidans under phosphate starvation and normal condition have been tested, showing lag, logarithmic, stationary and aging phases as seen in other bacteria. The logarithmic phases were from 10 to 32 hours for Acidithiobacillus ferrooxidans cultivated with normal cultivating condition and from 20 to 60 hrs for Acidithiobacillus ferrooxidans cultivated phosphate starvation. Differences of protein patterns of Acidithiobacillus ferrooxidans growing in case of normal or phosphate starvation were separately investigated after cultivation at $30^{\circ}C$ by the analysis of two-dimensional gel electrophoresis (2-DE), matrix-assisted laser desorption/ionization (MALDI)-Mass spectrometry. There were total 6 protein spots identified, which were Recombination protein recA, RNA helicase, AP2 domain-containing transcription factor, NADH dehydrogenase I chain D, Hyothetical protein PF1669, and Transaldolase STY3758. From the 6 identified protein spots, 3 proteins were found to be decreased in expression at the cultivating condition of phosphate starvation, while another three upregulated.
He, Zhi-guo,Hu, Yue-Hua,Zhong, Hui,Hu, Wei-Xin,Xu, Jin Korean Society for Biochemistry and Molecular Biol 2005 Journal of biochemistry and molecular biology Vol.38 No.3
Thiobacillus ferrooxidans is one of the most important bacterium used in bioleaching, and can utilize $Fe^{2+}$ or sulphide as energy source. Growth curves for Thiobacillus ferrooxidans have been tested, which show lag, logarithmic, stationary and aging phases as seen in other bacteria. The logarithmic phases were from 10 to 32 hours for Thiobacillus ferrooxidans cultivated with $Fe^{2+}$ and from 4 to 12 days for Thiobacillus ferrooxidans cultivated with elemental sulphur. Differences of protein patterns of Thiobacillus ferrooxidans growing on elemental sulphur and $Fe^{2+}$ separately were investigated after cultivation at $30^{\circ}C$ by the analysis of two-dimensional gel electrophoresis (2-DE), matrix-assisted laser desorption/ ionization (MALDI)-Mass spectrometry and ESI-MS/MS. From the 7 identified protein spots, 11 spots were found more abundant when growing on elemental sulphur. By contrast 6 protein spots were found decreased at elemental cultivation condition. Among the proteins identified, cytochrome C have been previously identified as necessary elements of electron-transfering pathway for Thiobacillus ferrooxidans to oxidize $Fe^{2+}$; ATP synthase alpha chain and beta are expressed increased when Thiobacillus ferrooxidans cultivated with $Fe^{2+}$ as energy source. ATP synthase Beta chain is the catalytic subunit, and ATP synthase alpha chain is a regulatory subunit. The function of ATPase produces ATP from ADP in the presence of a proton gradient across the membrane.
Improved photocatalytic performance of Pd-doped ZnO
Jun bo Zhong,Jian zhang Li,Xi yang He,Jun Zeng,Yan Lu,Wei Hu,Kun Lin 한국물리학회 2012 Current Applied Physics Vol.12 No.3
ZnO and Pd-doped ZnO photocatalysts with different molar ratio of Pd/Zn (1/100, 2/100, 3/100 and 4/100) were prepared by a solegel method. The photocatalysts prepared were characterized by BET surface area, X-ray diffraction (XRD), UV/vis diffuse reflectance (DRS) and surface photovoltage spectroscopy (SPS), respectively. The results show that doping Pd into ZnO decreases the BET surface area. The XRD spectra of the Pd-doped ZnO catalysts calcined at 773 K show only the characteristic peaks of wurtzite-type. Doping Pd into ZnO increases the absorbance of ZnO in visible region and enhances the photoinduced charge separation rate. The photocatalytic activity of Pd-doped ZnO photocatalysts for decolorization of methyl orange (MO) solution was evaluated, of all the photocatalysts prepared, the Pddoped ZnO with 3/100 possesses the best photocatalytic activity. The results of further experiments show that increased adsorption ability of light and high separation rate of photoinduced charge carriers all play an important role in promotion of photocatalytic activity of Pd-doped ZnO nanostructure.