胰腺癌“炎-癌”转化关键基因筛选及干预中药的预测分析

目的 通过生物信息学技术筛选胰腺癌（pancreatic cancer）与慢性胰腺炎（chronic pancreatitis,CP）组织的差异基因，预测能够干预胰腺癌“炎-癌”转化进程的中药及其潜在治疗靶点及机制。方法 从基因表达数据库（Gene Expression Omnibus,GEO）获取GSE151945、GSE30134基因芯片，应用R软件进行数据标准化、差异表达基因（differentially expressed genes,DEGs）筛选，并进行基因本体论（gene ontology,GO）和京都基因与基因组百科全书（Kyoto encyclopedia of genes and genomes,KEGG）富集分析；通过STRING数据库构建蛋白-蛋白互作网络，应用Cytoscape构建蛋白互作网络图，应用CytoHubba插件筛选关键基因；使用R软件对关键基因进行生存分析，筛选显著影响胰腺癌预后的基因，通过Kaplan-Meier曲线进行可视化展示；将上述基因与Coremine Medical数据库相互映射，预测潜在治疗作用的中药。从TCMSP和TCMID数据库获...     

Natural variants of human adenovirus type 3 provide evidence for relative genome stability across time and geographic space

Human adenovirus type 3 (HAdV-B3) has an apparently stable genome yet remains a major circulating and problematic respiratory pathogen. Comparisons of the prototype genome to genomes from three current field strains, including two isolated from epidemics, and a laboratory strain, yielded small-scale nucleotide variations across 50 years of time and space (U.S. and China). This is in contrast to the recombination events that have been reported recently for HAdV genomes. Recombinant genomes have been identified in emergent HAdV pathogens and is a pathway for the molecular evolution of types. These two contrasting views of HAdV genome stability have repercussions in the development and use of vaccines for countering HAdV-B3, as well as in the continued effectiveness of vaccines developed against earlier and current circulating types of HAdV.     

IGF作用机理的研究进展及其与生物信息学的联系

类胰岛素生长因子(insulin-like growth factor,IGF)是一类多功能的细胞增殖调控因子,它在肿瘸细胞增殖、肌肉生长、胎儿发育等方面具有重要的调控作用。随着基因组计划的启动,生物信息学作为一门计算机处理生物数据的交叉学科发展起来了。本文介绍了类胰岛素生长因子的研究进展,以及与生物信息学的关系。     

相思豆毒素中毒小鼠分子毒理的肝脏蛋白质组学研究

目的 利用蛋白质组学技术研究相思豆毒素中毒小鼠肝脏差异表达蛋白.方法 采用二维凝胶电泳分离肝脏蛋白样品,以飞行时间质谱、生物信息学分析等方法鉴定各差异表达蛋白.结果 小鼠相思豆毒素中毒后共鉴定出11个明显变化的肝脏差异表达蛋白,其中6个蛋白表达明显上调,分别为半胱氨酸蛋白酶-3、G-蛋白β亚基、乙酰辅酶A脱氢酶、胞浆天冬氨酸氨基转移酶、核转录因子抑制剂IKK-A及p53-结合蛋白Mdm4;表达明显下调的5个蛋白分别是H＋-三磷酸腺苷（H＋-ATP）合酶、微粒体核糖体蛋白L39、细胞核酸结合样蛋白、成纤维细胞生长因子-12及硫代硫酸硫转移酶.结论 小鼠相思豆毒素中毒后,发生变化的肝脏蛋白多数为具有凋亡诱导、能量代谢、增殖和分化等作用的功能性蛋白,其分子毒理涉及复杂的网络信号传导机制.     

生物信息学分析寒证海量数据的探索

生物信息学是这几年发展起来的新兴学科,它通常借助计算机技术来分析诸如基因组碱基测序等的海量数据,从而探索生命现象的本质。中医证候-基因组研究即是借用了生物信息学的方法来探索中医证候的生物学本质。在寒证的转录组学研究过程中,积累了大量数据,但却面临"数据堆积"的困境,生物信息学方法的引入必然为中医寒证-基因组研究予以新的技术支撑。     

健康人肝组织麦胚凝集素亲和型糖蛋白表达谱分析

目的分析健康人肝组织麦胚凝集素(wheatgermagglutinin,WGA)亲和型糖蛋白表达谱。方法从30例健康人肝组织混合样本的总蛋白中用WGA凝集素亲和层析分离纯化糖蛋白,再利用双向电泳结合SYPRO Ruby荧光染色进一步分离WGA亲和型糖蛋白。目的蛋白质点经质谱鉴定后对其进行生物信息学分析及功能分类。结果初步建立WGA亲和型糖蛋白的双向电泳图谱,图谱均点数为(650±50)个,质谱鉴定并去冗余共获116个蛋白。经生物信息学分析104个蛋白具有不同程度的N糖基化位点,最后按Gene Ontology的分类原则进行功能分类。结论凝集素亲和层析结合双向电泳荧光染色、质谱鉴定是一种高通量的检测方法,WGA亲和型糖蛋白表达谱的初步构建为后续研究奠定了基础。     

运用噬菌体展示随机肽库筛选与内毒素结合的高亲和性多肽

目的 从噬菌体展示随机肽库中筛选与内毒素结合的多肽序列,并进行鉴定.方法 以内毒素脂多糖(lipopolysaccharide,LPS)为靶分子对噬菌体展示随机十二肽库进行4轮亲和筛选,获得与LPS结合的噬菌体克隆,应用结合实验和克隆斑抑制实验进一步确证.挑选结合力强的克隆进行DNA测序,推导出呈现的多肽序列,应用生物信息学软件进行多肽序列分析和同源性分析.结果 经4轮亲和筛选从噬菌体展示随机十二肽库中筛选获得了86个克隆,挑选12个结合力强的克隆进行DNA序列测序及生物信息学分析,结合本项目组的噬菌体展示随机七肽库筛选结果推导出呈现的多肽序列为HWQWPHWSPPP(命名为P11肽).检索相关数据库发现此肽序列未被申请专利,体内约908种蛋白与其结构相匹配,其中包含有与LPS相互作用的位点.结论 通过对噬菌体展示随机肽库的淘选,获得与LPS结合的高亲和性多肽,为进一步以这些多肽为先导物进行定向进化研究提供了实验依据和结构基础.     

Expression and bioinformatic analysis of lymphoma-associated novel gene KIAA0372

The purpose of this study was to explore the differentially expressed genes in lymph-node cells (LNC) of lymphomas and reactive lymph node hyperplasia, and to perform an initial bioinformatic analysis on a novel gene, KIAA0372, which is highly expressed in the LNC of lymphomas. mRNA extracted from LNC of lymphomas and reactive lymph node hyperplasia were respectively marked with biotin and hybridized with Gene Expression Chips, resulting in differentially expressed genes. Initial bioinformatic analysis was then performed on a novel gene named KIAA0372, whose function has not yet been explored. Its structure and genomic location, its product’s physical and chemical properties, subcellular localization and functional domains, were also predicted. Further, a systematic evolution analysis was performed on similar proteins from among several species. Using Gene Expression Chips, many differentially expressed genes were uncovered. Efficient bioinformatic analysis has fundamentally determined that KIAA0372 is an extracellular protein which may be involved in TGF-β signaling. Microarray is an efficient and high throughput strategy for detection of differentially expressed genes. And KIAA0372 is thought to be a potential target for tumor research using bioinformatic analysis.