首页 | 本学科首页   官方微博 | 高级检索  
相似文献
 共查询到20条相似文献,搜索用时 125 毫秒
1.
目的:整合现有前沿的大量而分散的精准医学知识以形成系统完整的知识数据库,为个体组学数据的临床应用提供依据,旨在最终实现基于组学特征的精准用药推荐。方法:采用MySQL数据库管理系统构建数据库,从FDA伴随诊断、NCCN指南、My Cancer Genome、GDSC四大权威医学资源中手动收集精准用药知识,并将原始数据标准化、结构化后以统一的格式存储。结果:成功设计并构建了肿瘤精准医学知识库,目前共收录1 940条精准用药指导,涵盖了基因突变等14种不同类型的组学特征。结论:精准医学知识数据库收录了肿瘤分子组学特征和治疗策略的关联信息,可为临床上个体化治疗方案的制订提供参考依据。数据库的建立为精准医疗临床决策支持系统的开发奠定了基础。  相似文献   

2.
基因表达谱微阵列数据库是一类可提供存储、查询、下载分析的在线网络数据库,在肿瘤相关领域的研究中提供了大量的数据来源。由于微阵列分析对于无生物/医学信息学专业背景的研究人员仍然有较多困难,致使该数据库的使用尚未普及。本文从数据查询、下载分析和使用方法等方面对常用基因表达谱微阵列数据库进行概述,并对现阶段基因表达微阵列数据库的应用策略进行总结,旨在帮助该领域研究的初学工作者了解数据库的基本知识并推动其在科研工作中的应用。  相似文献   

3.
生命科学数据库BIOSIS Previews信息资源的查询   总被引:3,自引:0,他引:3  
李梅 《生命科学》2005,17(2):189-191
生命科学数据库BIOSIS Previews是科技人员有效地利用Internet网络查找国外生命科学信息的世界著名数据库。本文对如何利用BIOSIS Previews查询生命科学相关学术文献作了介绍。  相似文献   

4.
Internet上生物学数据库和软件资源的利用   总被引:3,自引:0,他引:3  
代宁 《生物学通报》2002,37(7):27-29
着重介绍了Interne上一些常用的生物学数据库和生物学软件,并就其站点、获取方式、功能和使用技巧作了简要的阐述。  相似文献   

5.
目的:随着基础和临床研究的深入开展,拥有完整基因信息的组织标本成为了肿瘤研究工作的基础.建立电子信息化管理的乳腺肿瘤组织标本库和数据库,为临床和科研收集、保存和管理标本资源.方法:标准化收集手术切除的乳腺肿瘤组织、正常腺体组织,以及患者血液标本,预处理后保存于-80℃冰箱中.每3个月从标本库中随机抽取5例标本,提取标本的总RNA,琼脂糖凝胶电泳验证总RNA质量;运用免疫组织化学法(Immunohistochemistry,IHC)检测标本中人表皮生长因子-2(Human epidermal growth factor receptor,HER-2 or c-erbB-2)和Ki67的表达,并与术后免疫组化结果进行比较.同时利用Epidata软件管理乳腺肿瘤组织标本库.结果:收集恶性肿瘤507例,良性肿瘤212例,血液标本9347份,并建立了一套高效的信息化管理系统.总RNA电泳结果显示28 S和18S亚基条带清晰明亮,5S条带很弱,表明标本中的RNA质量较高,无降解.免疫组化结果显示标本中的HER-2和Ki67的表达与术后免疫组化结果情况吻合,存储的标本质量良好.结论:建立的实验标本收集、储存流程是有效可行的,收集的标本质量是可靠的,管理方法是高效实用的,为乳腺肿瘤基础和临床研究提供质量可靠的标本来源,可为乳腺肿瘤研究提供良好的服务平台.  相似文献   

6.
利用δ声波场和近红外光实现乳腺肿瘤的精确定位   总被引:1,自引:0,他引:1  
本文提出一种利用δ声波场和近红外光漫射理论实现球形乳腺肿瘤精确定位的新颖思路。通过构建一个δ波形的声波场,作用到乳腺组织中从而改变组织内某一点的光学特性参数,这种改变对组织表面光分布的影响可以视为微扰,通过控制其作用点在深度上扫描,测得一系列乳腺组织表面一级微扰光分布,从中提取肿瘤与正常组织的差异特性,实现乳腺肿瘤的精确定位和大小测定。该方法具有广泛的临床医学应用前景,为乳腺癌的早期检测提供一种全新思路。  相似文献   

7.
李梅  吴娴波   《微生物学通报》2005,32(2):146-148
为了帮助国内科技人员有效地利用Internet网络查找微生物学的相关信息,对世界著名的生命科学数字化信息资源数据库BIOSISPreviews的基本情况、界面结构及使用方法等进行介绍。  相似文献   

8.
Oncomine 是目前世界上最大的癌基因芯片数据库和综合数据挖掘平台之一,该数据库整合了GEO、TCGA和已发表文献来源的RNA和DNA-seq数据。数据库目前含有715个基因表达数据集(datasheet)、86 733个人体肿瘤组织和正常组织样本的信息,且有新的数据不断更新。Oncomine 数据库囊括的肿瘤类型有19种,包括:膀胱癌、脑/中枢神经系统肿瘤、乳腺癌、宫颈癌、结直肠癌、食管癌、胃癌、头/颈肿瘤、肾癌、白血病、肝癌、肺癌、淋巴瘤、黑色素瘤、骨髓瘤、卵巢癌、胰腺癌、前列腺癌、肉瘤。本文就如何利用Oncomine数据库,进行肿瘤组织中癌基因表达差异性分析以及基因共表达分析、癌基因在肿瘤组织中的表达及拷贝数分析、多组研究数据集的荟萃分析(meta analysis)、以及癌基因表达与患者生存率关系等进行分析。通过该数据库可以对肿瘤癌基因进行研究前的筛查,有利于发现新的肿瘤生物标记物或治疗靶点,为临床科学研究奠定一定的理论基础。  相似文献   

9.
螺旋藻藻种数据库管理系统的设计与实现   总被引:1,自引:2,他引:1  
螺旋藻属蓝藻门 ( Cyanophyta)、段殖体目 ( Hormogonales)、颤藻科 ( Oscilatoria-ceae)、螺旋藻属 ( Spirulina) [1 ] ,是一种新型的蛋白质资源 ,其蛋白质含量高 ,含有人体必需的氨基酸和丰富的维生素、微量元素及多种活性物质 ,是举世公认的最佳天然营养保健品和 2 1世纪人类最理想的食品之一 [2 ]。目前已知该属有 36个种 ,其中绝大多数为淡水藻类 ,用于工业生产的主要有钝顶螺旋藻 ( Spirulina platensis)和极大螺旋藻 ( Spirulinamaxima) 2种[1 ,3] 。自 1 990年以来 ,国内螺旋藻产业突飞猛进 ,获得了长足发展。要上一个螺旋藻养殖…  相似文献   

10.
利用VBA查找核酸数据库DNA保守序列   总被引:1,自引:0,他引:1  
采用VBA编写了查找核酸数据库保守序列的四个相关程序,“导入DNA序列”程序可以将Fasta格式的DNA序列文本文件存放到Excel Sheetl的A列中,保留每个序列的Gi号,删除多余的注释部分;“整理DNA序列”程序可以将DNA序列Gi号存放到A列中,B列为对应Gi号的完整序列;“DNA随机序列”程序可以产生DNA随机序列;“发现DNA保守序列”程序可以将随机序列与下载的DNA序列比对,查找每一种随机序列的出现频率.以大豆基因组序列为实例,说明了这些程序的应用方法.该程序弥补了流行序列比对软件的不足,为PCR设计引物、分析基因功能以及种质资源鉴定等方面提供新的工具.  相似文献   

11.
Special methods are required for computing information on biological objects under complex research. The DBASE3-PLUS system offers vast possibilities for working with large quantity of different sets of information in multi-aspect statistical analysis. Usefulness of this system for creation of and operation with the data on distribution of genetic and non-genetic traits in a population was shown by means of the special set of applied programs in the dBase language. An example presented is aimed at distinguishing those genetic markers which probably can influence common individual health of the members of population. Special regression procedure was suggested to divide the population sample into subgroups with different health levels. Significant differences in distribution of some genetic markers were demonstrated between healthy persons and those who were suffering from chronic diseases.  相似文献   

12.
In pursuit of a better updated source including 'omics' information for breast cancer, Breast Cancer Database (BCDB) has been developed to provide the researcher with the quick overview of the Breast cancer disease and other relevant information. This database comprises of myriad of information about genes involved in breast cancer, its functions and drug molecules which are currently being used in the treatment of breast cancer. The data available in BCDB is retrieved from the biomedical research literature. It facilitates the user to search information on gene, its location in chromosome, functions and its importance in cancer diseases. Broadly, this can be queried by giving gene name, protein name and drug name. This database is platform independent, user friendly and freely accessible through internet. The data present in BCDB is directly linked to other on-line resources such as NCBI, PDB and PubMed. Hence, it can act as a complete web resource comprising gene sequences, drug structures and literature information related to breast cancer, which is not available in any other breast cancer database. AVAILABILITY: The database is freely available at http://122.165.25.137/bioinfo/breastcancerdb/  相似文献   

13.
Jo S  Kim T  Im W 《PloS one》2007,2(9):e880
Molecular dynamics simulations of membrane proteins have provided deeper insights into their functions and interactions with surrounding environments at the atomic level. However, compared to solvation of globular proteins, building a realistic protein/membrane complex is still challenging and requires considerable experience with simulation software. Membrane Builder in the CHARMM-GUI website (http://www.charmm-gui.org) helps users to build such a complex system using a web browser with a graphical user interface. Through a generalized and automated building process including system size determination as well as generation of lipid bilayer, pore water, bulk water, and ions, a realistic membrane system with virtually any kinds and shapes of membrane proteins can be generated in 5 minutes to 2 hours depending on the system size. Default values that were elaborated and tested extensively are given in each step to provide reasonable options and starting points for both non-expert and expert users. The efficacy of Membrane Builder is illustrated by its applications to 12 transmembrane and 3 interfacial membrane proteins, whose fully equilibrated systems with three different types of lipid molecules (DMPC, DPPC, and POPC) and two types of system shapes (rectangular and hexagonal) are freely available on the CHARMM-GUI website. One of the most significant advantages of using the web environment is that, if a problem is found, users can go back and re-generate the whole system again before quitting the browser. Therefore, Membrane Builder provides the intuitive and easy way to build and simulate the biologically important membrane system.  相似文献   

14.

Introduction  

Osteoarthritis (OA) is the most common bone and joint disease influenced by genetic and environmental factors. Recent association studies have uncovered the genetic factors behind OA, its susceptibility genes, which would enable us to predict disease occurrence based on genotype information. However, most previous studies have evaluated the effects of only a single susceptibility gene, and hence prediction based on such information is not as reliable. Here, we constructed OA-prediction models based on genotype information from a case-control association study and tested their predictability.  相似文献   

15.
The extensive germplasm resource collections that are now available for major crop plants and their wild relatives will increasingly provide valuable biological and bioinformatics resources for plant physiologists and geneticists to dissect the molecular basis of key traits and to develop highly adapted plant material to sustain future breeding programs. A key to the efficient deployment of these resources is the development of information systems that will enable the collection and storage of biological information for these plant lines to be integrated with the molecular information that is now becoming available through the use of high-throughput genomics and post-genomics technologies. The GERMINATE database has been designed to hold a diverse variety of data types, ranging from molecular to phenotypic, and to allow querying between such data for any plant species. Data are stored in GERMINATE in a technology-independent manner, such that new technologies can be accommodated in the database as they emerge, without modification of the underlying schema. Users can access data in GERMINATE databases either via a lightweight Perl-CGI Web interface or by the more complex Genomic Diversity and Phenotype Connection software. GERMINATE is released under the GNU General Public License and is available at http://germinate.scri.sari.ac.uk/germinate/.  相似文献   

16.
ABSTRACT: BACKGROUND: Contact network models have become increasingly common in epidemiology, but we lack a flexible programming framework for the generation and analysis of epidemiological contact networks and for the simulation of disease transmission through such networks. RESULTS: Here we present EpiFire, an applications programming interface and graphical user interface implemented in C++, which includes a fast and efficient library for generating, analyzing and manipulating networks. Network-based percolation and chain-binomial simulations of susceptible-infected-recovered disease transmission, as well as traditional non-network mass-action simulations, can be performed using EpiFire. CONCLUSIONS: EpiFire provides an open-source programming interface for the rapid development of network models with a focus in contact network epidemiology. EpiFire also provides a point-and-click interface for generating networks, conducting epidemic simulations, and creating figures. This interface is particularly useful as a pedagogical tool.  相似文献   

17.
Hodgkin's lymphoma (HL) is a heterogeneous hemopoietic malignancy. Previous studies have implicated a genetic etiology responsible for familial HL. We have estimated the heritability of HL and tested the hypothesis of genetic anticipation by using a high quality cancer database of the Swedish population. Heritability was estimated by employing a threshold-liability model. To test the hypothesis of anticipation, the usual T-test procedure was used to test whether there was a difference in cancer age-of-onset between parents and children who were affected with HL. A randomization test was carried out to test the validity of the P-values. Additional analyses were performed after stratifying the data based on birth cohorts. This data set revealed that there was a difference between the age-of-onset of parents and of offspring who were affected with HL. We also estimated the heritability of HL in the Swedish population to be approximately 28.4%. Both findings provide further evidence for a genetic basis for HL.  相似文献   

18.

Background

Ca2+-binding proteins are important for the transduction of Ca2+ signals into physiological outcomes. As in calmodulin many of the Ca2+-binding proteins bind Ca2+ through EF-hand motifs. Amongst the large number of EF-hand containing Ca2+-binding proteins are a subfamily expressed in neurons and retinal photoreceptors known as the CaBPs and the related calneuron proteins. These were suggested to be vertebrate specific but exactly which family members are expressed outside of mammalian species had not been examined.

Findings

We have carried out a bioinformatic analysis to determine when members of this family arose and the conserved aspects of the protein family. Sequences of human members of the family obtained from GenBank were used in Blast searches to identify corresponding proteins encoded in other species using searches of non-redundant proteins, genome sequences and mRNA sequences. Sequences were aligned and compared using ClustalW. Some families of Ca2+-binding proteins are known to show a progressive expansion in gene number as organisms increase in complexity. In contrast, the results for CaBPs and calneurons showed that a full complement of CaBPs and calneurons are present in the teleost fish Danio rerio and possibly in cartilaginous fish. These findings suggest that the entire family of genes may have arisen at the same time during vertebrate evolution. Certain members of the family (for example the short form of CaBP1 and calneuron 1) are highly conserved suggesting essential functional roles.

Conclusions

The findings support the designation of the calneurons as a distinct sub-family. While the gene number for CaBPs/calneurons does not increase, a distinctive evolutionary change in these proteins in vertebrates has been an increase in the number of splice variants present in mammals.  相似文献   

19.
Linkage between the CYP2C8 and CYP2C9 genetic polymorphisms   总被引:9,自引:0,他引:9  
Cytochrome P450 (CYP) 2C8 and 2C9 are polymorphic enzymes. The CYP2C8*3 and CYP2C9*2 are the major variant alleles in Caucasian populations. The enzymes encoded by these variant alleles have impaired function for the metabolism of several drug substrates. In the present study 1468 subjects that were used as population-based controls in the Stockholm Heart Epidemiology Program (SHEEP) were genotyped by allelic discrimination using a 5'-nuclease assay for CYP2C8*1, 2C8*3, 2C9*1, 2C9*2, and 2C9*3 variant alleles in which the frequencies appeared to be 0.91, 0.095, 0.83, 0.11, and 0.066, respectively. Approximately, 96% of the subjects with CYP2C8*3 allele also carried a CYP2C9*2 and 85% of the subjects that had CYP2C9*2 variant also carried a CYP2C8*3. The number of subjects carrying both of the CYP2C8*1*3 and CYP2C9*1*2 was 4.5-fold higher than expected. This strong association may be of importance especially for the metabolism of common substrates of CYP2C8 and CYP2C9 like arachidonic acid that produces physiologically active metabolites.  相似文献   

20.
BP-Species Identification (BPSI2.0) is a computer program that performs species identification by training a Back-Propagation Neural Network. A short DNA barcoding segment is used as input for training a three-layer BP network. The trained network can assign an unknown query sequence to a known species in the user's database, and provide the corresponding subvector value of the output vector as a relative probability value.  相似文献   

设为首页 | 免责声明 | 关于勤云 | 加入收藏

Copyright©北京勤云科技发展有限公司  京ICP备09084417号