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随着深度测序和基因芯片技术的不断发展,基因组、转录组、表达谱数据大量积累。目前,至少有10多个昆虫的基因组已被测序,30多个昆虫的转录组数据被报道。显然,传统的生物统计学方法无法处理如此海量的生物数据。量变引发质变,生物数据的大量积累催生了一门新兴学科,生物信息学。生物信息学融合了统计学、信息科学和生物学等各学科的理论和研究内容,在医学、基础生物学、农业科学以及昆虫学等方面获得了广泛的应用。生物信息学的目标是存储数据、管理数据和数据挖掘。因此,建立维护生物学数据库、设计开发基于模式识别、机器学习、数据挖掘等方法的生物软件,以及运用上述工具进行深度的数据挖掘,是生物信息学的重要研究内容。本文首先简要介绍了生物信息学的历史、研究现状及其在昆虫学科中的应用,然后综述了昆虫基因组学和转录组学的研究进展,最后对生物信息学在昆虫学研究中的应用前景进行了展望。 相似文献
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《中国生物工程杂志》2005,25(4):28-28
生物信息学方法指南 S.米塞诺,S.A.克拉维茨著欧阳红生等译 2005年3月出版7-03-014465-1/Q.1498定价:58.00 计算机在管理生物学日益增长的海量数据方面起到了不可估量的作用,并推进了现代生物学的快速发展。本书详细 介绍了一些重要生物学软件和数据库的使用,同时提供了一些实用的技巧和最新研究进展。全书分为五部分,包括序列分 析软件包、分子生物学软件、网络信息资源、计算机和分子生物学的关系、生物信息学教学与最新文献跟踪。内容全面,实用 性较强,可帮助生物信息学人员对该学科有更深入地了解。本书可作为大专院校、科研机构的分子生物学、生物信息学等 相关专业的研究生、科研和教学人员的参考书。 相似文献
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《生物化学与生物物理进展》2005,32(5):448-448
生物信息学方法指南S.米塞诺,S.A.克拉维茨著欧阳红生等译2005年3月出版7-03-014465-1/Q.1498定价:58.00计算机在管理生物学日益增长的海量数据方面起到了不可估量的作用,并推进了现代生物学的快速发展.本书详细介绍了一些重要生物学软件和数据库的使用,同时提供了一些实用的技巧和最新研究进展.全书分为五部分,包括序列分析软件包、分子生物学软件、网络信息资源、计算机和分子生物学的关系、生物信息学教学与最新文献跟踪.内容全面,实用性较强,可帮助生物信息学人员对该学科有更深入地了解.本书可作为大专院校、科研机构的分子生物学、… 相似文献
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随着生物技术的进步,特别是以基因组、蛋白质组为标志的导致高通量实验数据产生的工作的开展,大量的实验数据在各个领域堆积拥塞,与领域内的知识的累计出现了极为不平衡的发展,因此,对这些数据的处理成为了学科发展的迫切需求。为了避免这些数据成为垃圾,数据库、统计学、信号处理、数据挖掘、知识管理、人工智能等多种技术被运用到医学生物学领域,使得医学生物信息学不再是医学、生物学和信息学、计算机科学的单纯交叉,而独立成为一门专业的学科,重点也由原来单纯的研究计算机信息技术在医学生物信息学中的延展和运用,转变到研究、发现、开发、创新适合医学生物学自身特点的新思想和新方法上来。本文对近年来心血管领域内医学生物信息发展和运用的情况进行了回顾和分析,并对该领域可能的发展方向做出判断。 相似文献
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随着生物信息学与生物技术的不断发展,生物信息数据库中数据呈指数增长,理解其中所包含的生物学知识,揭示生物内在规律将成为今后自然科学研究中的重要课题。对近几年来国外常用生物信息数据库的使用作了简介,同时也较为详细地描述了如何进行序列分析。 相似文献
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Post ‘omic’ era has resulted in the development of many primary, secondary and derived databases. Many analytical and
visualization bioinformatics tools have been developed to manage and analyze the data available through large sequencing
projects. Availability of heterogeneous databases and tools make it difficult for researchers to access information from varied
sources and run different bioinformatics tools to get desired analysis done. Building integrated bioinformatics platforms is one of
the most challenging tasks that bioinformatics community is facing. Integration of various databases, tools and algorithm is a
challenging problem to deal with. This article describes the bioinformatics analysis workflow management systems that are
developed in the area of gene sequence analysis and phylogeny. This article will be useful for biotechnologists, molecular
biologists, computer scientists and statisticians engaged in computational biology and bioinformatics research. 相似文献
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We have developed a new Internet service, which provides mobile access to bioinformatics databases and software tools. The BioWAP service facilitates access to basic bioinformatics databases and analysis tools from everywhere without a PC or a laptop computer. Both open source bioinformatics program suites and Internet services, which are not designed for mobile Internet access, were utilized in the BioWAP service. AVAILABILITY: The BioWAP service starting page can be browsed with any WAP terminal from http://bioinf.uta.fi/wml/welcome.wml. 相似文献
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随着蛋白质组学研究的不断深入,基于质谱的选择反应监测技术(SRM)已经成为以发现生物标志物为代表的定向蛋白质组学研究的重要手段.SRM技术根据假设信息,特异性地获取符合假设条件的质谱信号,去除不符合条件的离子信号干扰,从而得到特定蛋白质的定量信息.SRM技术具有更高的灵敏度和精确性、更大的动态范围等优势.该技术可分为实验设计、数据获取和数据分析三个步骤.在这几个步骤中,最重要的是利用生物信息学手段总结当前实验数据的结果,并用机器学习方法和总结的经验规则进行SRM实验的母离子和子离子对的预测.针对数据质控和定量的生物信息学方法研究在提高SRM数据可靠性方面具有重要作用.此外,为方便SRM的研究,本文还收集、汇总了SRM技术相关的软件、工具和数据库资源.随着质谱仪器的不断发展,新的SRM实验策略以及分析方法、计算工具也应运而生.结合更优化的实验策略、方法,采用更精准的生物信息学算法和工具,SRM在未来蛋白质组学的发展中将发挥更加重要的作用. 相似文献
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Quantitative trait locus (QTL) analysis is a powerful method for localizing disease genes, but identifying the causal gene remains difficult. Rodent models of disease facilitate QTL gene identification, and causal genes underlying rodent QTL are often associated with the corresponding human diseases. Recently developed bioinformatics methods, including comparative genomics, combined cross analysis, interval-specific and genome-wide haplotype analysis, followed by sequence and expression analysis, each facilitated by public databases, provide new tools for narrowing rodent QTLs. Here we discuss each tool, illustrate its application and generate a bioinformatics strategy for narrowing QTLs. Combining these bioinformatics tools with classical experimental methods should accelerate QTL gene identification. 相似文献
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Bioinformatics analysis plays an integrative role in genomics and functional genomics. The ability to conduct quality managed, hypothesis-driven bioinformatics analysis with the plethora of data available is mandatory. Biological interpretation of this data is dependent on versions of databases, programs and the parameters used. Thus, tracking and auditing the analyses process is important. This paper outlines what we term Bioinformatics Analysis Audit Trails (BAATs) and describes YABI, a bioinformatics environment that implements BAATs. YABI can incorporate most bioinformatics tools within the same environment, making it a valuable resource. 相似文献
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Attwood TK 《The international journal of biochemistry & cell biology》2000,32(2):139-155
In the wake of the numerous now-fruitful genome projects, we have witnessed a 'tsunami' of sequence data and with it the birth of the field of bioinformatics. Bioinformatics involves the application of information technology to the management and analysis of biological data. For many of us, this means that databases and their search tools have become an essential part of the research environment. However, the rate of sequence generation and the haphazard proliferation of databases have made it difficult to keep pace with developments, even for the cognoscenti. Moreover, increasing amounts of sequence information do not necessarily equate with an increase in knowledge, and in the panic to automate the route from raw data to biological insight, we may be generating and propagating innumerable errors in our precious databases. In the genome era upon us, researchers want rapid, easy-to-use, reliable tools for functional characterisation of newly determined sequences. For the pharmaceutical industry in particular, the Pandora's box of bioinformatics harbours an information-rich nugget, ripe with potential drug targets and possible new avenues for the development of therapeutic agents. This review outlines the current status of the major pattern databases now used routinely in the analysis of protein sequences. The review is divided into three main sections. In the first, commonly used terms are defined and the methods behind the databases are briefly described; in the second, the structure and content of the principal pattern databases are discussed; and in the final part, several alignment databases, which are frequently confused with pattern databases, are mentioned. For the new-comer, the array of resources, the range of methods behind them and the different tools required to search them can be confusing. The review therefore also briefly mentions a current international endeavour to integrate the diverse databases, which effort should facilitate sequence analysis in the future. This is particularly important for target-discovery programmes, where the challenge is to rationalise the enormous numbers of potential targets generated by sequence database searches. This problem may be addressed, at least in part, by reducing search outputs to the more focused and manageable subsets suggested by searches of integrated groups of family-specific pattern databases. 相似文献
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We have developed an integrated web-based relational database information system, which offers an extensive search functionality of validated entries containing available bioinformatics computing resources. This system, called MetaBasis, aims to provide the bioinformatics community, and especially newcomers to the field, with easy access to reliable bioinformatics databases and tools. MetaBasis is focused on non-commercial and open-source software tools. AVAILABILITY: http://metabasis.bioacademy.gr/ 相似文献
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Bioinformatics has blossomed in the past decades with the introductionof biological experiments that rapidly produce massive amountsof data (such as the multiple genome projects, the large-scaleanalysis of gene expression, the large-scale analysis of protein–proteininteractions and the large-scale analysis of genome-wide genotype-phenotypeassociations). The resulting bioinformatics tools mainly liein two groups. They may be databases 相似文献
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With the proliferation of high-throughput technologies, genome-level data analysis has become common in molecular biology. Bioinformaticians are developing extensive resources to annotate and mine biological features from high-throughput data. The underlying database management systems for most bioinformatics software are based on a relational model. Modern non-relational databases offer an alternative that has flexibility, scalability, and a non-rigid design schema. Moreover, with an accelerated development pace, non-relational databases like CouchDB can be ideal tools to construct bioinformatics utilities. We describe CouchDB by presenting three new bioinformatics resources: (a) geneSmash, which collates data from bioinformatics resources and provides automated gene-centric annotations, (b) drugBase, a database of drug-target interactions with a web interface powered by geneSmash, and (c) HapMap-CN, which provides a web interface to query copy number variations from three SNP-chip HapMap datasets. In addition to the web sites, all three systems can be accessed programmatically via web services. 相似文献