目的应用网络药理学方法探究川芎-当归药对的主要活性成分、靶点和药理作用机制。方法研究时间为2020年9—12月。首先以“川芎”“当归”为关键词,在TCMSP 2.3数据库中检索药材的成分、靶点和对应疾病数据,构建“药物-成分靶点-疾病”网...目的应用网络药理学方法探究川芎-当归药对的主要活性成分、靶点和药理作用机制。方法研究时间为2020年9—12月。首先以“川芎”“当归”为关键词,在TCMSP 2.3数据库中检索药材的成分、靶点和对应疾病数据,构建“药物-成分靶点-疾病”网络,进行基因本体(gene ontology,GO)分类富集分析、京都基因和基因组百科全书(kyoto encyclopedia of genes and genomes,KEGG)通路富集分析,探究“川芎-当归”药对作用机制。结果“药物-成分-靶点-疾病”网络包含2个药物、10个活性成分,71个作用靶点,191种疾病。关键靶点涉及环氧化酶2(PTGS2)、过氧化物酶体增生激活受体γ(PPARG)、雌激素受体(ESR1)、β2肾上腺素能受体(ADRB2)、周期蛋白依赖激酶2(CDK2)、热休克蛋白90(HSP90)、促分裂原活化蛋白激酶14(MAPK14)、胆碱能受体2(CHRM2)、5羟色胺受体2A(HTR2A)、凝血因子Ⅱ受体(F2R)、盐皮质激素受体(NR3C2)、内皮型一氧化氮合酶(NOS3)等,关键疾病涉及疼痛、心血管疾病、乳腺癌、阿尔茨海默病、炎症、癌症、焦虑症、精神分裂症、前列腺癌、实体肿瘤、脑损伤等。GO富集分析得到237个条目,包括生物过程178个,分子功能26个,细胞组成33个。通路富集分析包含66条通路,主要涉及神经活性配体-受体相互作用、钙离子信号通道、癌症通路、5-羟色胺能突触、大肠癌、雌激素信号通路、心肌细胞的肾上腺素能信号、甲状腺激素信号通路、cAMP信号通路、血管内皮生长因子信号通路等。结论“川芎-当归”药对中多个成分作用于多个靶点和通路,对疼痛、心血管疾病、乳腺癌、阿尔茨海默病、炎症、癌症等多种疾病均一定的治疗作用。展开更多
Objective To investigate the expressions of cyclin E, cyclin dependent kinase 2(CDK-2)and cyclin-dependent kinase inhibitor p57 KIP2 in human gastric cancer, and to evaluate the relationships between protein level...Objective To investigate the expressions of cyclin E, cyclin dependent kinase 2(CDK-2)and cyclin-dependent kinase inhibitor p57 KIP2 in human gastric cancer, and to evaluate the relationships between protein levels and clinicopathological parameters. Methods Western blot was used to measure the expressions of cyclin E, CDK-2 and p57 KIP2 proteins in the surgically resected gastric carcinoma, adjacent normal mucosa and metastatic lymph nodes from 36 patients. Results Cyclin E and CDK-2 protein levels were higher in gastric cancer tissues in comparison with normal tissues (P<0.05). Overexpression of cyclin E was correlated with lymph node involvement, poor histological grade and serosa invasion (P<0.05). Overexpression of CDK-2 was correlated with lymph nodes involvement (P<0.05). No statistically significant difference between cyclin E and CDK-2 expression was found when samples were stratified according to tumor size (P>0.05). Expression of cyclin E and CDK-2 showed a positive linear correlation (r=0.451, P=0.01). Protein levels of p57 KIP2 were lower in gastric cancer tissues than in the normal mucosa (P<0.05). Decreased expression of p57 KIP2 was correlated with lymph node involvement (P<0.05). No statistically significant difference in p57 KIP2 expression was found when sample were stratified according to tumor size, histological grade or serosa invasion (P>0.05). In metastatic lymph nodes, expression of cyclin E was increased and the expression of p57 KIP2 decreased. Conclusion Overexpressions of cyclin E, CDK-2 and downregulated expression of p57 KIP2 may play important roles in tumorigenesis and metastatic potential of gastric cancer.展开更多
Background:The cell cycle is at the center of cellular activities and is orchestrated by complex regulatory mechanisms,among which transcriptional regulation is one of the most important components.Alternative splicin...Background:The cell cycle is at the center of cellular activities and is orchestrated by complex regulatory mechanisms,among which transcriptional regulation is one of the most important components.Alternative splicing dramatically expands the regulatory network by producing transcript isoforms of genes to exquisitely control the cell cycle.However,the patterns of transcript isoform expression in the cell cycle are unclear.Therapies targeting cell cycle checkpoints are commonly used as anticancer therapies,but none of them have been designed or evaluated at the alternative splicing transcript level.The utility of these transcripts as markers of cell cycle-related drug sensitivity is still unknown,and studies on the expression patterns of cell cycle-targeting drug-related transcripts are also rare.Methods:To explore alternative splicing patterns during cell cycle progression,we performed sequential transcriptomic assays following cell cycle synchronization in colon cancer HCT116 and breast cancer MDA-MB-231 cell lines,using flow cytometry and reference cell cycle transcripts to confirm the cell cycle phases of samples,and we developed a new algorithm to describe the periodic patterns of transcripts fluctuating during the cell cycle.Genomics of Drug Sensitivity in Cancer(GDSC)drug sensitivity datasets and Cancer Cell Line Encyclopedia(CCLE)transcript datasets were used to assess the correlation of genes and their transcript isoforms with drug sensitivity.We identified transcripts associated with typical drugs targeting cell cycle by determining correlation coefficients.Cytotoxicity assays were used to confirm the effect of ENST00000257904 against cyclin dependent kinase 4/6(CDK4/6)inhibitors.Finally,alternative splicing transcripts associated with mitotic(M)phase arrest were analyzed using an RNA synthesis inhibition assay and transcriptome analysis.Results:We established high-resolution transcriptome datasets of synchronized cell cycle samples from colon cancer HCT116 and breast cancer MDA-MB-231 cells.The results of the cell cycle assessment showed that 43,326,41,578 and 29,244 transcripts were found to be periodically expressed in HeLa,HCT116 and MDA-MB-231 cells,respectively,among which 1280 transcripts showed this expression pattern in all three cancer cell lines.Drug sensitivity assessments showed that a large number of these transcripts displayed a higher correlation with drug sensitivity than their corresponding genes.Cell cycle-related drug screening showed that the level of the CDK4 transcript ENST00000547281 was more significantly associated with the resistance of cells to CDK4/6 inhibitors than the level of the CDK4 reference transcript ENST00000257904.The transcriptional inhibition assay following M phase arrest further confirmed the M-phase-specific expression of the splicing transcripts.Combined with the cell cycle-related drug screening,the results also showed that a set of periodic transcripts,for example,ENST00000314392(a dolichylphosphate mannosyltransferase polypeptide 2 isoform transcript),was more associated with drug sensitivity than the levels of their corresponding gene transcripts.Conclusions:In summary,we identified a panel of cell cycle-related periodic transcripts and found that the levels of transcripts of drug target genes showed different values for predicting drug sensitivity,providing novel insights into alternative splicing-related drug development and evaluation.展开更多
目的:主要研究乙肝病毒(hepatitis B virus,HBV)感染肝细胞后,细胞周期激酶2(cyclin-dependent kinase 2,CDK2)调控宿主限制性因子SAMHD1(sterile alpha motif and histidine/aspartic acid domain-containing protein 1)磷酸化的分子...目的:主要研究乙肝病毒(hepatitis B virus,HBV)感染肝细胞后,细胞周期激酶2(cyclin-dependent kinase 2,CDK2)调控宿主限制性因子SAMHD1(sterile alpha motif and histidine/aspartic acid domain-containing protein 1)磷酸化的分子机制。方法:利用si RNA干扰技术,特异性处理肝癌细胞Huh7.0的对照组、干扰CDK1组和干扰CDK2组,分别用Southern blot检测这3组中乙肝病毒复制的变化,Western blot检测这3组中SAMHD1磷酸化水平的变化,流式细胞仪检测这3组中细胞周期的变化;进一步通过免疫共沉淀技术鉴定肝癌细胞中CDK2激酶和SAMHD1的相互作用。结果:在肝癌细胞Huh7.0中,与对照组相比,干扰CDK1组和干扰CDK2组的细胞周期明显有差异,分别停滞在G_2期(P=0.001)或G1期(P=0.001)。Western blot结果表明,干扰CDK2后,宿主限制性因子SAMHD1磷酸化水平下降48%,Southern blot结果表明病毒复制水平降低57%(P=0.003),而干扰CDK1后病毒复制水平没有明显变化(P=0.325)进一步通过免疫共沉淀发现在肝癌细胞Huh7.0中,CDK2激酶可与SAMHD1发生相互作用,并且相互作用发生在细胞核内。结论:HBV感染肝细胞后,募集CDK2调控宿主限制性因子SAMHD1的磷酸化,拮抗其抗病毒作用。展开更多
文摘目的应用网络药理学方法探究川芎-当归药对的主要活性成分、靶点和药理作用机制。方法研究时间为2020年9—12月。首先以“川芎”“当归”为关键词,在TCMSP 2.3数据库中检索药材的成分、靶点和对应疾病数据,构建“药物-成分靶点-疾病”网络,进行基因本体(gene ontology,GO)分类富集分析、京都基因和基因组百科全书(kyoto encyclopedia of genes and genomes,KEGG)通路富集分析,探究“川芎-当归”药对作用机制。结果“药物-成分-靶点-疾病”网络包含2个药物、10个活性成分,71个作用靶点,191种疾病。关键靶点涉及环氧化酶2(PTGS2)、过氧化物酶体增生激活受体γ(PPARG)、雌激素受体(ESR1)、β2肾上腺素能受体(ADRB2)、周期蛋白依赖激酶2(CDK2)、热休克蛋白90(HSP90)、促分裂原活化蛋白激酶14(MAPK14)、胆碱能受体2(CHRM2)、5羟色胺受体2A(HTR2A)、凝血因子Ⅱ受体(F2R)、盐皮质激素受体(NR3C2)、内皮型一氧化氮合酶(NOS3)等,关键疾病涉及疼痛、心血管疾病、乳腺癌、阿尔茨海默病、炎症、癌症、焦虑症、精神分裂症、前列腺癌、实体肿瘤、脑损伤等。GO富集分析得到237个条目,包括生物过程178个,分子功能26个,细胞组成33个。通路富集分析包含66条通路,主要涉及神经活性配体-受体相互作用、钙离子信号通道、癌症通路、5-羟色胺能突触、大肠癌、雌激素信号通路、心肌细胞的肾上腺素能信号、甲状腺激素信号通路、cAMP信号通路、血管内皮生长因子信号通路等。结论“川芎-当归”药对中多个成分作用于多个靶点和通路,对疼痛、心血管疾病、乳腺癌、阿尔茨海默病、炎症、癌症等多种疾病均一定的治疗作用。
文摘Objective To investigate the expressions of cyclin E, cyclin dependent kinase 2(CDK-2)and cyclin-dependent kinase inhibitor p57 KIP2 in human gastric cancer, and to evaluate the relationships between protein levels and clinicopathological parameters. Methods Western blot was used to measure the expressions of cyclin E, CDK-2 and p57 KIP2 proteins in the surgically resected gastric carcinoma, adjacent normal mucosa and metastatic lymph nodes from 36 patients. Results Cyclin E and CDK-2 protein levels were higher in gastric cancer tissues in comparison with normal tissues (P<0.05). Overexpression of cyclin E was correlated with lymph node involvement, poor histological grade and serosa invasion (P<0.05). Overexpression of CDK-2 was correlated with lymph nodes involvement (P<0.05). No statistically significant difference between cyclin E and CDK-2 expression was found when samples were stratified according to tumor size (P>0.05). Expression of cyclin E and CDK-2 showed a positive linear correlation (r=0.451, P=0.01). Protein levels of p57 KIP2 were lower in gastric cancer tissues than in the normal mucosa (P<0.05). Decreased expression of p57 KIP2 was correlated with lymph node involvement (P<0.05). No statistically significant difference in p57 KIP2 expression was found when sample were stratified according to tumor size, histological grade or serosa invasion (P>0.05). In metastatic lymph nodes, expression of cyclin E was increased and the expression of p57 KIP2 decreased. Conclusion Overexpressions of cyclin E, CDK-2 and downregulated expression of p57 KIP2 may play important roles in tumorigenesis and metastatic potential of gastric cancer.
基金supported by grants from the National Key Research and Development Program of China(2021YFF1201300)the National Natural Science Foundation of China(81872280,82073094)+2 种基金the CAMS Innovation Fund for Medical Sciences(CIFMS)(2021-I2M-1-014)the Open Issue of State Key Laboratory of Molecular Oncology(SKL-KF-2021-16)the Independent Issue of State Key Laboratory of Molecular Oncology(SKL-2021-16).
文摘Background:The cell cycle is at the center of cellular activities and is orchestrated by complex regulatory mechanisms,among which transcriptional regulation is one of the most important components.Alternative splicing dramatically expands the regulatory network by producing transcript isoforms of genes to exquisitely control the cell cycle.However,the patterns of transcript isoform expression in the cell cycle are unclear.Therapies targeting cell cycle checkpoints are commonly used as anticancer therapies,but none of them have been designed or evaluated at the alternative splicing transcript level.The utility of these transcripts as markers of cell cycle-related drug sensitivity is still unknown,and studies on the expression patterns of cell cycle-targeting drug-related transcripts are also rare.Methods:To explore alternative splicing patterns during cell cycle progression,we performed sequential transcriptomic assays following cell cycle synchronization in colon cancer HCT116 and breast cancer MDA-MB-231 cell lines,using flow cytometry and reference cell cycle transcripts to confirm the cell cycle phases of samples,and we developed a new algorithm to describe the periodic patterns of transcripts fluctuating during the cell cycle.Genomics of Drug Sensitivity in Cancer(GDSC)drug sensitivity datasets and Cancer Cell Line Encyclopedia(CCLE)transcript datasets were used to assess the correlation of genes and their transcript isoforms with drug sensitivity.We identified transcripts associated with typical drugs targeting cell cycle by determining correlation coefficients.Cytotoxicity assays were used to confirm the effect of ENST00000257904 against cyclin dependent kinase 4/6(CDK4/6)inhibitors.Finally,alternative splicing transcripts associated with mitotic(M)phase arrest were analyzed using an RNA synthesis inhibition assay and transcriptome analysis.Results:We established high-resolution transcriptome datasets of synchronized cell cycle samples from colon cancer HCT116 and breast cancer MDA-MB-231 cells.The results of the cell cycle assessment showed that 43,326,41,578 and 29,244 transcripts were found to be periodically expressed in HeLa,HCT116 and MDA-MB-231 cells,respectively,among which 1280 transcripts showed this expression pattern in all three cancer cell lines.Drug sensitivity assessments showed that a large number of these transcripts displayed a higher correlation with drug sensitivity than their corresponding genes.Cell cycle-related drug screening showed that the level of the CDK4 transcript ENST00000547281 was more significantly associated with the resistance of cells to CDK4/6 inhibitors than the level of the CDK4 reference transcript ENST00000257904.The transcriptional inhibition assay following M phase arrest further confirmed the M-phase-specific expression of the splicing transcripts.Combined with the cell cycle-related drug screening,the results also showed that a set of periodic transcripts,for example,ENST00000314392(a dolichylphosphate mannosyltransferase polypeptide 2 isoform transcript),was more associated with drug sensitivity than the levels of their corresponding gene transcripts.Conclusions:In summary,we identified a panel of cell cycle-related periodic transcripts and found that the levels of transcripts of drug target genes showed different values for predicting drug sensitivity,providing novel insights into alternative splicing-related drug development and evaluation.
