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Dissecting conserved cis-regulatory modules of Glu-1 promoters which confer the highly active endosperm-specific expression via stable wheat transformation 被引量:4
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作者 Jihu Li Ke Wang +7 位作者 Genying Li Yulian Li Yong Zhang Zhiyong Liu Xingguo Ye Xianchun Xia Zhonghu He Shuanghe Cao 《The Crop Journal》 SCIE CAS CSCD 2019年第1期8-18,共11页
Wheat high-molecular-weight glutenin subunits(HMW-GS) determine dough elasticity and play an essential role in processing quality. HMW-GS are encoded by Glu-1 genes and controlled primarily at transcriptional level, i... Wheat high-molecular-weight glutenin subunits(HMW-GS) determine dough elasticity and play an essential role in processing quality. HMW-GS are encoded by Glu-1 genes and controlled primarily at transcriptional level, implemented through the interactions between cis-acting elements and trans-acting factors. However, transcriptional mechanism of Glu-1 genes remains elusive. Here we made a comprehensive analysis of cis-regulatory elements within 1-kb upstream of the Glu-1 start codon(-1000 to-1) and identified 30 conserved motifs. Based on motif distribution pattern, three conserved cis-regulatory modules(CCRMs), CCRM1(-300 to-101), CCRM2(-650 to-400), and CCRM3(-950 to-750), were defined, and their functions were characterized in wheat stable transgenic lines transformed with progressive 5′ deletion promoter::GUS fusion constructs. GUS staining, qP CR and enzyme activity assays indicated that CCRM2 and CCRM3 could enhance the expression level of Glu-1, whereas the 300-bp promoter(-300 to-1), spanning CCRM1 and core region(-100 to-1), was enough to ensure accurate Glu-1 initiation at 7 days after flowering(DAF) and shape its spatiotemporal expression pattern during seed development. Further transgenic assays demonstrated that CCRM1-2(-300 to-209) containing Complete HMW Enhancer(-246 to-209) was important for expression level but had no effect on expression specificity in the endosperm. In contrast, CCRM1-1(-208 to-101) was critical for both expression specificity and level of Glu-1. Our findings not only provide new insights to uncover Glu-1 transcription regulatory machinery but also lay foundations for modifying Glu-1 expression. 展开更多
关键词 CONSERVED cis-regulatory modules GLU-1 Transcriptional regulation Transgenic wheat TRITICUM AESTIVUM
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Construction of miRNA-mRNA regulatory network and drug prediction for ulcerative colitis associated colorectal cancer
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作者 Qing-Song Liu Shuang-Lan Chen +3 位作者 Yi Zhang Bin Li Zi-Yan Xie Shuai Xiong 《Medical Data Mining》 2021年第4期26-32,共7页
Objective:To construct the miRNA-mRNA regulatory network,andidentify more reliable therapeutic targets and potential drugs in ulcerative colitis associated colorectal cancer.Methods:Two datasets were downloaded from t... Objective:To construct the miRNA-mRNA regulatory network,andidentify more reliable therapeutic targets and potential drugs in ulcerative colitis associated colorectal cancer.Methods:Two datasets were downloaded from the GEO,and the differently expressed analysis were conducted by R software limma package.Functional enrichment analysis was performed using R software.The targets of differently expressed miRNAs were predicted by FunRich software,and the miRNA-mRNA regulatory network was constructed by Cytoscape software.The cMAP and TCMSP databases were used to predict small molecule drugs and traditional Chinese medicine respectively.Results:A total of 79 differently expressed miRNAs and 8865 differently expressed mRNAs were identified.Then the miRNA-mRNA regulatory network was constructed.Among DE miRNAs in the network,hsa-miR-520e,hsa-miR-199b-5p,hsa-miR-140-5p may be the most significant due to their large number of connecting nodes in ulcerative colitis associated colorectal cancer.The integrated differently genes were mainly concentrated in protein processing in endoplasmic reticulum,ferroptosis and other signalingpathways.In addition,10 kinds of small molecule drugs and 6 kinds of traditional Chinese medicine were screened as therapeutic agents for ulcerative colitis associated colorectal cancer.Conclusion:hsa-miR-520e,hsa-miR-199b-5p,hsa-miR-140-5p can be used as therapeutic targets forulcerative colitis associated colorectal cancer.The pathogenesis of ulcerative colitis associated colorectal cancer may be related to the protein processing in endoplasmic reticulum/ferroptosis signaling pathway,and it is predicted that 10 kinds of small molecule drugs,such asIsoflupredone,and 4 traditional Chinese medicines,such as Baiqucai(Celandine),Guanhuangbai(Cortex phellodendri amurensis),Huangbai(Phellodendron amurense)and Bajiaolian(Dysosma Versipellis),can be used as therapeutic drugs forulcerative colitis associated colorectal cancer. 展开更多
关键词 Ulcerative colitis associated colorectal cancer mirna-mrna regulatory network Small molecule drugs traditional Chinese medicine
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基于LDA主题模型的功能性miRNA-mRNA调控模块识别 被引量:2
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作者 张俊鹏 贺建峰 《数据采集与处理》 CSCD 北大核心 2015年第1期155-163,共9页
借助mRNAs分析MicroRNAs(miRNAs)的研究已经用于阐述miRNAs调控机理,但是它们大部分的准确功能仍然处于未知状态。基于此,本文提出了一种基于LDA(Latent Dirichlet allocation)主题模型来识别特定生物条件下miRNAs和靶标mRNAs之间的调... 借助mRNAs分析MicroRNAs(miRNAs)的研究已经用于阐述miRNAs调控机理,但是它们大部分的准确功能仍然处于未知状态。基于此,本文提出了一种基于LDA(Latent Dirichlet allocation)主题模型来识别特定生物条件下miRNAs和靶标mRNAs之间的调控模块。该模型首先利用Welch′s t-检验挖掘具有差异表达的miRNAs和mRNAs,然后采用折叠Gibbs抽样法进行参数估计。在上皮细胞-间充质细胞转型(Epithelial to Mesenchymal transition,EMT)数据集中的结果表明,所识别出的功能性miRNA-mRNA调控模块(FMRMs)能够构造不同生物条件下miRNAs与mRNAs之间的调控关系,从而为了解EMT生物过程和miRNA靶标治疗提供新的视角。与基于K-means聚类算法比较,LDA主题模型比K-means聚类在挖掘FMRMs上更加有效。 展开更多
关键词 LDA主题模型 MIRNA mirna-mrna调控模块 上皮细胞-间充质细胞转型 K-MEANS聚类
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Construction of miRNA-mRNA network reveals crucial miRNAs and genes in acute myocardial infarction 被引量:5
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作者 Kai Wang Zhongming Li +7 位作者 Wenjie Ma Yan Sun Xianling Liu Lijun Qian Jian Hong Dasheng Lu Jing Zhang Di Xu 《The Journal of Biomedical Research》 CAS CSCD 2021年第6期425-435,共11页
Acute myocardial infarction(AMI)is a severe cardiovascular disease.This study aimed to identify crucial microRNAs(miRNAs)and mRNAs in AMI by establishing a miRNA-mRNA network.The microarray datasets GSE31568,GSE148153... Acute myocardial infarction(AMI)is a severe cardiovascular disease.This study aimed to identify crucial microRNAs(miRNAs)and mRNAs in AMI by establishing a miRNA-mRNA network.The microarray datasets GSE31568,GSE148153,and GSE66360 were downloaded from the Gene Expression Omnibus(GEO)database.We identified differentially expressed miRNAs(DE-miRNAs)and mRNAs(DE-mRNAs)in AMI samples compared with normal control samples.The consistently changing miRNAs in both GSE31568 and GSE148153 datasets were selected as candidate DE-miRNAs.The interactions between the candidate DE-miRNAs and DE-mRNAs were analyzed,and a miRNA-mRNA network and a protein-protein interaction network were constructed,along with functional enrichment and pathway analyses.A total of 209 DE-miRNAs in the GSE31568 dataset,857 DE-miRNAs in the GSE148153 dataset,and 351 DE-mRNAs in the GSE66360 dataset were identified.Eighteen candidate DE-miRNAs were selected from both the GSE31568 and GSE148153 datasets.Furthermore,miR-646,miR-127-5p,miR-509-5p,miR-509-3-5p,and miR-767-5p were shown to have a higher degree in the miRNA-mRNA network.THBS-1 as well as FOS was a hub gene in the miRNA-mRNA network and the protein-protein interaction(PPI)network,respectively.CDKN1A was important in both miRNA-mRNA network and PPI network.We established a miRNA-mRNA network in AMI and identified five miRNAs and three genes,which might be used as biomarkers and potential therapeutic targets for patients with AMI. 展开更多
关键词 acute myocardial infarction MIRNAS MRNAS mirna-mrna regulatory network
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Effects of estrogen on CD4^+ CD25^+ regulatory T cell in peripheral blood during pregnancy 被引量:9
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作者 Yuan-Huan Xiong Zhen Yuan Li He 《Asian Pacific Journal of Tropical Medicine》 SCIE CAS 2013年第9期748-752,共5页
Objective To investigate the effects of estrogen(E_2)level on regulatory T cells(Treg)in peripheral blood during pregnancy.Methods:A total of 30 healthy non-pregnant women were selected as control group,90 pregnant wo... Objective To investigate the effects of estrogen(E_2)level on regulatory T cells(Treg)in peripheral blood during pregnancy.Methods:A total of 30 healthy non-pregnant women were selected as control group,90 pregnant women of early,middle and late pregnancy and 30 postpartum women at 1 month after parturition were selected as experimental groups including early pregnancy group,middle pregnancy group and late pregnancy group;the proportions of CD4^+CD25^+Treg and CD4^+CD25^+CD127^-Treg among CD4 T cells were detected by flow cytometry;the serum estrogen content in peripheral blood was detected by electrochemical immune luminescence method.Results:E_2 level was coincident with the change of Tregs number during pregnancy.The estrogen content in peripheral blood increased gradually from early pregnancy to late pregnancy,then decreased significantly after parturition,and the level at 1 month after parturition down to the level in non-pregnancy group(P>0.05);the level of E_2 in pregnancy groups were significantly higher than those in non-pregnancy group(P<0.01);and there were significant differences among early pregnancy group,middle pregnancy group and late pregnancy group(P<0.05).The proportions of CD4^+CD25^+Treg and CD4^+CD25^+CD127^-Treg in pregnancy groups were significantly higher than those in non-pregnancy group(P<0.05),but decreased significantly after parturition,and there was no significant difference between non-pregnancy group and postpartum women group(P>0.05):the proportions in middle and late pregnancy groups were significantly higher than those in early pregnancy group(P<0.05).but decreased slightly in late pregnancy group,there was no significant difference between late pregnancy group and middle pregnancy group(P>0.05).There was correlation between Tregs number with estrogen level during pregnancy.The proportion of CD4^+CD25^+Treg and CD4^+CD25^+CD 127^-Treg were positively correlated with estrogen level.Conclusions:High proportion of CD4^+CD25^+Trcg and CD4^+CD25^+CD127^-Treg is closely related to the high level of E,during pregnancy.It suggested that high level of estrogen may induce an increase of CD4^+CD25^+Treg in peripheral blood.and then influence the immune function of pregnant women.The results of this experiment might play an important role of estrogen in immune-modulation during pregnancy. 展开更多
关键词 ESTROGEN CD4^+CD25^+regulatory T CELL CD4^+ CD25^+ CD 127^-regulatory T CELL PREGNANCY Immuno-modulation
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Therapeutic Administration of <i>Mycobacterium bovis</i>BCG Killed by Extended Freeze-Drying Modulates Airway Inflammation in a Chronic Murine Model of Asthma
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作者 Micheline Lagranderie Jeroen Alfons Juliette Vanoirbeek +3 位作者 Bernardo Boris Vargaftig Pierre-Marie Guyonvarc’h Gilles Marchal Xavier Roux 《Open Journal of Respiratory Diseases》 2013年第2期79-88,共10页
Background: We previously showed that treatment with Mycobacterium bovis BCG killed by extended freeze-drying (EFD BCG) modulates inflammation through regulatory T cells (Tregs) in an acute asthma model. In this study... Background: We previously showed that treatment with Mycobacterium bovis BCG killed by extended freeze-drying (EFD BCG) modulates inflammation through regulatory T cells (Tregs) in an acute asthma model. In this study, we investigated the kinetics of Treg induction as well as their long-term homing in spleen and lungs correlating with reduced airway hyperresponsiveness (AHR) in a murine model of acute allergic asthma. We then evaluated the therapeutic implication of EFD BCG in a chronic asthma model. Methods: Tregs expressing Foxp3 were analyzed in various organs shortly and long-term after EFD BCG, live- and Heat Killed-(HK-) BCG treatments in an acute model of asthma. We further studied EFD BCG treatment on airway inflammation using a chronic model of asthma in mice. Results: Foxp3 expression peaked in the inguinal draining lymph-nodes (iDLNs) 2-4 days after EFD BCG treatment whereas it was long-term observed in spleen (days 7 to 90). This increase in Foxp3 expression was also found in lungs upon intranasal ovalbumin (OVA) challenge in OVA-sensitized mice. The loss of protection 4 months after EFD BCG treatment was correlated with the end of this phenomenon. Moreover, major lung inflammation hallmarks of severe asthma after multiple allergen challenges promoting chronic airway inflammation in OVA sensitized mice were reduced by EFD BCG treatment: AHR, eosinophils and neutrophils in bronchoalveolar lavage (BAL), mucus metaplasia, Th2 as well as Th17 cytokine levels in BAL and sera. EFD BCG treatment also enhances PPAR-γ expression and regulates NF-κBp65 translocation in lung extracts in this model of chronic asthma. Conclusions: EFD BCG treatment induced long-term protective effect associated to Foxp3 Tregs in the spleen and lungs in an acute model of asthma and inhibits AHR in a chronic model of asthma. EFD BCG could be a new and promising immuno-modulatory alternative treatment to corticoids in severe human asthma. 展开更多
关键词 ASTHMA Foxp3 Killed BCG modulation regulatory T Cells
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钾离子通道Eag1在肿瘤中的研究进展
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作者 王徐朝 王博畅 +3 位作者 陈娅斐 展永 刘文欣 安海龙 《中国药理学通报》 CAS CSCD 北大核心 2024年第5期823-828,共6页
Eag1(ether-à-go-go-1,又称Kv10.1、KCNH1)是电压门控钾离子(potassium,K+)通道KCNH基因家族成员,主要在中枢神经系统以及多种恶性肿瘤中表达,并在肿瘤的发生发展过程中起到重要的作用。研究Eag1的分布和作用机制对揭示其生理功能... Eag1(ether-à-go-go-1,又称Kv10.1、KCNH1)是电压门控钾离子(potassium,K+)通道KCNH基因家族成员,主要在中枢神经系统以及多种恶性肿瘤中表达,并在肿瘤的发生发展过程中起到重要的作用。研究Eag1的分布和作用机制对揭示其生理功能以及与病理机制具有十分重要的意义。该文综述了目前Eag1的生理和病理特性,Eag1与肿瘤发展演化的关系以及Eag1调节剂抗肿瘤应用的研究进展。 展开更多
关键词 Eag1 离子通道 生理特征 肿瘤 调控机制 调节剂
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Expression analysis of the R2R3-MYB gene family in upland cotton and functional study of GhMYB3D5 in regulating Verticillium wilt resistance
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作者 Jie Liu Zhicheng Wang +15 位作者 Bin Chen Guoning Wang Huifeng Ke Jin Zhang Mengjia Jiao Yan Wang Meixia Xie Yanbin Li Dongmei Zhang Xingyi Wang Qishen Gu Zhengwen Sun Liqiang Wu Xingfen Wang Zhiying Ma Yan Zhang 《Journal of Integrative Agriculture》 SCIE CAS CSCD 2024年第10期3294-3310,共17页
Improving plant resistance to Verticillium wilt(VW),which causes massive losses in Gossypium hirsutum,is a global challenge.Crop plants need to efficiently allocate their limited energy resources to maintain a balance... Improving plant resistance to Verticillium wilt(VW),which causes massive losses in Gossypium hirsutum,is a global challenge.Crop plants need to efficiently allocate their limited energy resources to maintain a balance between growth and defense.However,few transcriptional regulators specifically respond to Verticillium dahliae and the underlying mechanism has not been identified in cotton.In this study,we found that the that expression of most R2R3-MYB members in cotton is significantly changed by V.dahliae infection relative to the other MYB types.One novel R2R3-MYB transcription factor(TF)that specifically responds to V.dahliae,GhMYB3D5,was identified.GhMYB3D5 was not expressed in 15 cotton tissues under normal conditions,but it was dramatically induced by V.dahliae stress.We functionally characterized its positive role and underlying mechanism in VW resistance.Upon V.dahliae infection,the up-regulated GhMYB3D5 bound to the GhADH1 promoter and activated GhADH1expression.In addition,GhMYB3D5 physically interacted with GhADH1 and further enhanced the transcriptional activation of GhADH1.Consequently,the transcriptional regulatory module GhMYB3D5-GhADH1 then promoted lignin accumulation by improving the transcriptional levels of genes related to lignin biosynthesis(GhPAL,GhC4H,Gh4CL,and GhPOD/GhLAC)in cotton,thereby enhancing cotton VW resistance.Our results demonstrated that the GhMYB3D5 promotes defense-induced lignin accumulation,which can be regarded as an effective way to orchestrate plant immunity and growth. 展开更多
关键词 COTTON Verticillium wilt resistance GhMYB3D5 GhADH1 transcriptional regulatory module
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The abscisic acid-responsive transcriptional regulatory module CsERF110-CsERF53 orchestrates citrus fruit coloration
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作者 Quan Sun Zhengchen He +8 位作者 Di Feng Ranran Wei Yingzi Zhang Junli Ye Lijun Chai Juan Xu Yunjiang Cheng Qiang Xu Xiuxin Deng 《Plant Communications》 SCIE CSCD 2024年第11期157-172,共16页
Carotenoid biosynthesis is closely associated with abscisic acid(ABA)during the ripening process of non-climacteric fruits,but the regulatory mechanism that links ABA signaling to carotenoid metabolism remains largely... Carotenoid biosynthesis is closely associated with abscisic acid(ABA)during the ripening process of non-climacteric fruits,but the regulatory mechanism that links ABA signaling to carotenoid metabolism remains largely unclear.Here,we identified two master regulators of ABA-mediated citrus fruit coloration,CsERF110 and CsERF53,which activate the expression of carotenoid metabolism genes(CsGGPPS,CsPSY,CsPDS,CsCRTISO,CsLCYB2,CsLCYE,CsHYD,CsZEP,and CsNCED2)to facilitate carotenoid accumulation.Further investigations showed that CsERF110 not only activates the expression of CsERF53 by binding to its promoter but also interacts with CsERF53 to form the transcriptional regulatory module CsERF110-CsERF53.We also discovered a positive feedback regulatory loop between the ABA signal and carotenoid metabolism regulated by the transcriptional regulatory module CsERF110-CsERF53.Our results reveal that the CsERF110-CsERF53 module responds to ABA signaling,thereby orchestrating citrus fruit coloration.Considering the importance of carotenoid content for citrus and many other carotenoid-rich crops,the revelation of molecular mechanisms that underlie ABA-mediated carotenoid biosynthesis in plants will facilitate the development of transgenic/gene-editing approaches,further contributing to improving the quality of citrus and other carotenoid-rich crops. 展开更多
关键词 citrus abscisic acid ABA fruit coloration carotenoid metabolism ethylene responsive factor ERF transcriptional regulatory module
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中医五脏调控系统与神经内分泌免疫调节网络的关系 被引量:18
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作者 张焱 回世洋 张庆荣 《中华中医药学刊》 CAS 2009年第1期188-189,共2页
五脏调控系统是中医学有关人体稳态理论的核心,神经内分泌免疫调节网络是整体性地维护机体稳态的重要物质体系。通过分析五脏调控系统与神经内分泌免疫调节网络的关系认为,二者在某种程度上存在着相似之处,NIM网络理论将为从微观分析的... 五脏调控系统是中医学有关人体稳态理论的核心,神经内分泌免疫调节网络是整体性地维护机体稳态的重要物质体系。通过分析五脏调控系统与神经内分泌免疫调节网络的关系认为,二者在某种程度上存在着相似之处,NIM网络理论将为从微观分析的基础上探讨五脏的结构、功能、病证特点及五脏调控的科学内涵提供可能。 展开更多
关键词 五脏调控系统 神经内分泌免疫调节网络 整体观念
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染料木素磺酸钠对脑缺血再灌注损伤的保护作用及DREAM和PSD95的表达变化 被引量:8
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作者 钟星明 黄志华 +3 位作者 龚衍 黎晓 李良东 曾靖 《中风与神经疾病杂志》 CAS CSCD 北大核心 2013年第8期697-699,共3页
目的研究染料木素磺酸钠(GSS)对脑缺血再灌注损伤的保护作用,并初步探讨转录抑制子DREAM及突触后致密区蛋白95(PSD95)表达的变化。方法以大鼠大脑中动脉栓塞制作局灶性脑缺血再灌注损伤模型,缺血后10min于舌下静脉给不同剂量的GSS。再灌... 目的研究染料木素磺酸钠(GSS)对脑缺血再灌注损伤的保护作用,并初步探讨转录抑制子DREAM及突触后致密区蛋白95(PSD95)表达的变化。方法以大鼠大脑中动脉栓塞制作局灶性脑缺血再灌注损伤模型,缺血后10min于舌下静脉给不同剂量的GSS。再灌注24h,行神经功能学评分。麻醉后,腹腔静脉取血并分离血清。取脑,一组前脑做TTC染色,测定脑梗死体积;另一组取损伤侧脑组织制成10%的脑组织匀浆,比色法测血清及脑组织匀浆LDH活性;另取半暗带区脑组织,Western blot方法检测脑组织DREAM蛋白的表达。结果模型组大鼠出现明显的脑梗死区及神经功能缺损,血清LDH活性升高(P<0.01),缺血侧脑组织LDH活性降低(P<0.05),皮层半暗带区脑组织DREAM蛋白表达降低(P<0.05),PSD95蛋白表达升高(P<0.001)。与模型组相比,1mg/kg及2mg/kg GSS治疗组脑梗死体积减小;神经功能评分降低(P<0.01,P<0.05),血清LDH活性降低(P<0.05),缺血侧脑组织LDH活性升高(P<0.05);2mg/kg GSS治疗组皮层半暗带区DREAM蛋白表达升高(P<0.01),PSD95蛋白表达降低(P<0.05)。结论 GSS对脑缺血再灌注损伤具有保护作用,其保护机制与GSS提高转录抑制子DREAM的表达,从而抑制NMDA受体介导的兴奋性毒性损伤有关。 展开更多
关键词 染料木素磺酸钠 脑缺血再灌注损伤 DREAM
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miRNA研究的计算机方法 被引量:2
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作者 张俊鹏 孙少平 +1 位作者 贺建峰 马磊 《计算机应用与软件》 CSCD 北大核心 2012年第1期159-163,共5页
MicroRNAs(miRNAs)是一类最新发现能够调控基因表达的非编码RNA,其内源长大约为21~23个核苷酸。miRNAs通过直接剪切靶基因mRNAs或者抑制翻译在后转录水平调控基因表达。一系列研究表明,他们在细胞分化、细胞生长、细胞迁移和细胞凋亡... MicroRNAs(miRNAs)是一类最新发现能够调控基因表达的非编码RNA,其内源长大约为21~23个核苷酸。miRNAs通过直接剪切靶基因mRNAs或者抑制翻译在后转录水平调控基因表达。一系列研究表明,他们在细胞分化、细胞生长、细胞迁移和细胞凋亡中发挥重要作用。由于miRNAs研究的实验方法耗时、耗材和效率低,所以计算机方法成为了miRNAs研究的替代方法。大部分与miRNA研究相关的计算机方法可以分为三类:miRNAs基因识别、miRNAs靶基因预测和miRNA-mRNA调控模块的预测。归纳miRNAs基因识别、miRNAs靶基因预测和miRNA-mRNA调控模块预测的原理,提供在这个领域已经提出来的特定计算机方法。 展开更多
关键词 MICRORNA 计算机方法 基因表达 mirna-mrna调控模块
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基因调控网络的模块化组织研究 被引量:2
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作者 王正华 刘齐军 朱云平 《遗传》 CAS CSCD 北大核心 2008年第1期20-27,共8页
基因调控网络表现的是大量基因受到转录因子的调控而最终转录翻译为蛋白质进而实现生物功能的复杂信息,是人们理解生物过程和基因功能的重要内容。为了理解基因调控网络中的调控机理,网络的拓扑结构及其组织方式是极其重要的研究内容之... 基因调控网络表现的是大量基因受到转录因子的调控而最终转录翻译为蛋白质进而实现生物功能的复杂信息,是人们理解生物过程和基因功能的重要内容。为了理解基因调控网络中的调控机理,网络的拓扑结构及其组织方式是极其重要的研究内容之一。它不仅能说明网络的局部特征,并且能揭示调控网络的构造方法,同时还能对调控信号通路进行全面系统的分析。调控网络可分为4层结构:调控元件、Motif、模块和整个网络。当前,这种层次结构受到人们越来越多的认可。文中重点讨论motif和模块两层,比较分析了近年来对网络组织结构的多方面研究内容,阐述了各个研究结果与结论具有的生物学意义,并指出了其中存在的问题。在此基础上,文中还针对这些问题提出了可能存在的研究方向,并展望了基因调控网络模块化组织的研究前景。 展开更多
关键词 基因调控网络 网络motif 网络模块 模块化组织
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初步建立真核基因调控元件模块的搜索方法 被引量:1
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作者 钟东 张振书 +5 位作者 刘宇虎 郑国清 刘小意 卢阳 赵贵军 徐安龙 《第一军医大学学报》 CSCD 北大核心 2004年第2期172-176,共5页
依据基因调控知识对现有方法进行了综合及改进:(1)在序列搜索方面,结合多序列低分值查询与多个保守片段搜索两种方法获得匹配序列,然后序列相互打分,最后进行聚类分析;(2)在位点搜索方面,综合应用位置权重矩阵、成对寡核苷酸及Smith-Wat... 依据基因调控知识对现有方法进行了综合及改进:(1)在序列搜索方面,结合多序列低分值查询与多个保守片段搜索两种方法获得匹配序列,然后序列相互打分,最后进行聚类分析;(2)在位点搜索方面,综合应用位置权重矩阵、成对寡核苷酸及Smith-Waterman等方法;(3)在分析系统方面,采用面向对象的程序设计方法建立跨平台、可扩展、基于数据库的分析系统。本方法对MHC基因家族的初步分析结果表明,能较准确地找到一些基因调控元件模块所在的区域。 展开更多
关键词 真核基因 基因调控 搜索方法 调控元件模块 数据库
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转录调控网络模块和模体识别算法研究进展 被引量:1
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作者 邹青宇 刘富 侯涛 《计算机应用研究》 CSCD 北大核心 2012年第11期4006-4010,4016,共6页
转录调控网络是生物体遗传信息传递的整体表示,是人们理解基因表达过程的重要内容。识别转录调控网络的模块和模体是分析网络拓扑结构和组织方式的重要方法,是揭示转录调控机制、生物发育与进化过程的重要环节之一。通过分析比较近年来... 转录调控网络是生物体遗传信息传递的整体表示,是人们理解基因表达过程的重要内容。识别转录调控网络的模块和模体是分析网络拓扑结构和组织方式的重要方法,是揭示转录调控机制、生物发育与进化过程的重要环节之一。通过分析比较近年来用于转录调控网络模块识别的三类典型算法,阐述了它们各自的优势和不足。介绍了一种被广泛使用的转录调控网络模体识别算法。以此为基础,提出了转录调控网络模块和模体识别算法未来的研究方向。 展开更多
关键词 转录调控网络 模块 模体 识别 算法
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慢病毒介导的DREAM沉默治疗在坐骨神经慢性压迫模型大鼠疼痛中的作用及其对GALR1的表达调控 被引量:2
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作者 潘冰冰 程智刚 +5 位作者 孔高茵 王云姣 肖丹 丁惠娟 赵媛 郭曲练 《中国现代医学杂志》 CAS CSCD 北大核心 2013年第32期7-12,共6页
目的甘丙肽受体1(galanin receptor 1,GALR1)信号通路在痛觉调节中发挥重要作用,该研究利用坐骨神经慢性压迫(chronic constriction injury of the sciatic nerve,CCI)大鼠模型,探索慢病毒介导的DREAM沉默治疗在CCI模型大鼠疼痛中的作... 目的甘丙肽受体1(galanin receptor 1,GALR1)信号通路在痛觉调节中发挥重要作用,该研究利用坐骨神经慢性压迫(chronic constriction injury of the sciatic nerve,CCI)大鼠模型,探索慢病毒介导的DREAM沉默治疗在CCI模型大鼠疼痛中的作用及其对GALR1的表达调控。方法选择健康雄性SD大鼠24只,随机分为4组(n=6):即RNA干扰组、空白载体组、单纯CCI组和正常对照组。鞘内置管前后分别测定基础痛阈,RNA干扰组和空白载体组于CCI后经微导管给予pKCSHR-Puro/GFP-DREAM慢病毒和空白载体,并测定腰段脊髓内下游调控元件拮抗分子(downstream regulatory element antagonist,DREAM)和GALR1的蛋白表达。结果大鼠痛阈的变化:手术同侧热痛阈和机械痛阈测定结果表明,CCI处理后,RNA干扰组、空白载体组及单纯CCI组在各个时间点热痛阈和机械痛阈较正常对照组均显著降低(P<0.01);RNA干扰组鞘内注射后较注射前痛阈显著升高,治疗后相同时间点RNA干扰组较空白载体组及单纯CCI组痛阈亦显著升高。Western blotting结果表明,与其他实验组对比,RNA干扰组的DREAM蛋白表达水平显著下调,而GALR1蛋白表达水平较空白载体组、单纯CCI组亦有显著下调。结论 DREAM可以调控GALR1的表达,提示甘丙肽受体1信号通路参与DREAM基因调节大鼠神经病理性疼痛。 展开更多
关键词 甘丙肽受体1(GALR1) 下游调控元件拮抗分子(DREAM) 坐骨神经慢性压迫 RNA干扰 神经痛
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p53正向凋亡调控因子在吉西他滨诱导胰腺癌细胞凋亡过程中的作用 被引量:1
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作者 严明总 张克君 黄淘 《肿瘤》 CAS CSCD 北大核心 2009年第11期1040-1044,共5页
目的:研究吉西他滨对人胰腺癌AsPC-1细胞体外生长的作用机制。方法:用脂质体转染法将含有p53正向凋亡调控因子(p53 upregulated modulator of apoptosis,PUMA)反义核酸的真核表达载体pcDNA3.1-PUMAAS和空载体pcDNA3.1导入AsPC-1细胞,G41... 目的:研究吉西他滨对人胰腺癌AsPC-1细胞体外生长的作用机制。方法:用脂质体转染法将含有p53正向凋亡调控因子(p53 upregulated modulator of apoptosis,PUMA)反义核酸的真核表达载体pcDNA3.1-PUMAAS和空载体pcDNA3.1导入AsPC-1细胞,G418筛选阳性细胞,获得稳定转染的阳性克隆。将转染载体的AsPC-1阳性克隆细胞和未转染载体的AsPC-1细胞分别暴露于浓度为1、5、10和15μmol/L的吉西他滨溶液中作用72h。RT-PCR和Western印迹法检测不同组细胞经吉西他滨作用72h后的PUMA表达水平,MTT检测细胞生长抑制情况,FCM、Hoechst 33258荧光染色和TUNEL法检测细胞凋亡情况。结果:吉西他滨促进AsPC-1细胞凋亡,抑制细胞生长,并有明显的剂量依赖性,在细胞凋亡的同时伴有PUMA表达的上调;当细胞转染PUMA反义核酸抑制PUMA表达后,受吉西他滨作用的细胞中PUMA蛋白表达明显降低,同时伴有细胞凋亡的抑制及细胞增殖明显增加。结论:吉西他滨促进体外AsPC-1细胞凋亡,并抑制细胞生长,其诱导细胞凋亡与上调PUMA表达有关。 展开更多
关键词 胰腺肿瘤 细胞凋亡 DNA 反义 吉西他滨 凋亡调节蛋白质类 p53正向凋亡调控因子
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枯草芽孢杆菌转录调控网络的连接结构及分解 被引量:1
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作者 刘杨 赵学明 马红武 《生物加工过程》 CAS CSCD 2007年第3期58-63,共6页
对枯草芽孢杆菌(Bacillus subtilis)转录调控网络的全局连接性质进行分析之后,基于一种自上而下的思路,将重点放在最大弱连通体,提出了基于距离的分解方法,并对得出的模块进行了明确的生物学功能定义。研究结果表明基于距离的分解方法... 对枯草芽孢杆菌(Bacillus subtilis)转录调控网络的全局连接性质进行分析之后,基于一种自上而下的思路,将重点放在最大弱连通体,提出了基于距离的分解方法,并对得出的模块进行了明确的生物学功能定义。研究结果表明基于距离的分解方法对于标识转录调控网络中的生物学功能模块十分有效。 展开更多
关键词 转录调控网络 连接结构 网络分解 功能模块 枯草芽孢杆菌
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预测转录调控模块的数学模型 被引量:1
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作者 胡俊 《中山大学学报(医学科学版)》 CAS CSCD 北大核心 2009年第A03期220-222,共3页
真核生物转录调控的一个重要特征是基因受多个转录因子的联合调控,在联合调控过程中多个位点结合在一起形成调控模块(module)。对调控模块的识别是真核基因转录调控机制研究的一个主要任务。利用系统生物学和数学建摸的方法是预测转录... 真核生物转录调控的一个重要特征是基因受多个转录因子的联合调控,在联合调控过程中多个位点结合在一起形成调控模块(module)。对调控模块的识别是真核基因转录调控机制研究的一个主要任务。利用系统生物学和数学建摸的方法是预测转录调控模块的一种策略,本文对预测转录调控模块中应用的一些数学模型作综述。 展开更多
关键词 调控模块 数学模型 联合调控
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非小细胞肺癌患者调强放疗后Treg/Th17平衡改变与放疗效果、预后的关系 被引量:8
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作者 孟宪宇 张萍 侯永杰 《实用癌症杂志》 2021年第10期1655-1658,1681,共5页
目的探究非小细胞肺癌(NSCLC)患者调强放疗(IMRT)后Treg/Th17平衡改变及相关细胞因子白介素-10(IL-10)、转化生长因子-β(TGF-β)、白介素-17(IL-17)、白介素-23(IL-23)水平变化与患者放疗效果、预后之间的关系。方法选取80例NSCLC患者... 目的探究非小细胞肺癌(NSCLC)患者调强放疗(IMRT)后Treg/Th17平衡改变及相关细胞因子白介素-10(IL-10)、转化生长因子-β(TGF-β)、白介素-17(IL-17)、白介素-23(IL-23)水平变化与患者放疗效果、预后之间的关系。方法选取80例NSCLC患者为研究组,另选取80例体检正常者为对照组。采用流式细胞术检测2组对象体内Treg/Th17细胞水平,ELISA法检测研究组和对照组血清中IL-10、TGF-β、IL-17、IL-23水平。结果研究组Th17、Treg细胞,IL-17、IL-23、TGF-β、IL-10水平及Treg/Th17比值显著高于对照组(P<0.001)。放疗后NSCLC患者Th17、Treg细胞,IL-17、IL-23、TGF-β、IL-10水平及Treg/Th17比值显著低于放疗前(P<0.001);接受IMRT治疗后CR组、PR组、SD组患者Th17、Treg细胞,IL-17、IL-23、TGF-β、IL-10水平及Treg/Th17比值显著低于PD组(P<0.01);预后较好的患者Th17、Treg细胞,IL-17、IL-23、TGF-β、IL-10水平及Treg/Th17比值显著低于预后不良患者(P<0.05)。结论NSCLC患者Treg/Th17平衡及细胞因子IL-10、TGF-β、IL-17、IL-23水平变化与患者放疗效果和预后相关。 展开更多
关键词 非小细胞肺癌 调强放疗 辅助性T细胞17 调节性T淋巴细胞 Treg/Th17平衡
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