A framework for querying a database for structural information on 3D images of macromolecules:: A Web-based query-by-content prototype on the BioImage macromolecular server
A framework for querying a database for structural information on 3D images of macromolecules:: A Web-based query-by-content prototype on the BioImage macromolecular server
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DOI：
10.1006/jsbi.1999.4102
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发表时间：
1999-04-01
影响因子：
3
通讯作者：
Carazo, JM
中科院分区：
文献类型：
--
作者：
de Alarcón, PA;Gupta, A;Carazo, JM
如今，我们可以通过Web访问的数据库数量正在显著增加。然而，在某些情况下，例如，在BioImage的情况下，这些信息不是文本性质的，因此对处理这些数据的工具的设计提出了新的挑战。在这项工作中，我们专注于开发新机制，旨在通过这些复杂数据集的数据库的内在内容而不是仅仅通过它们的文本注释来“查询”这些数据库。我们将精力集中在包含生物大分子的3D图像(体积)的BioImage子集上，实现了第一个按内容查询系统的原型。在复杂数据类型的数据库中，术语按内容查询指的是那些数据建模技术，在这些技术中，用户定义的函数旨在(在某种程度上)“理解”数据集的信息内容。在这些系统中，由用户引入的匹配标准与涉及3D图像本身的固有特征相关，因此，仅通过文本关键字来补充传统查询。在将3D图像存储在数据库中之前，需要有效的计算算法来“提取”3D图像的结构信息。此外，还应实现易于使用的界面，以便从专家那里获得反馈。我们的按内容查询原型被用来构建一个具体的查询，利用基本的结构特征，然后在一组生物大分子的三维图像上进行评估。这一试验性实施可通过马德里的生物图像服务器访问，网址为：http://www.bioimage.org/qbc/index.html.(C)1999年学术出版社。
Nowadays we are experiencing a remarkable growth in the number of databases that have become accessible over the Web. However, in a certain number of cases, for example, in the case of BioImage, this information is not of a textual nature, thus posing new challenges in the design of tools to handle these data. In this work, are concentrate on the development of new mechanisms aimed at "querying" these databases of complex data sets by their intrinsic content, rather than by their textual annotations only. We concentrate our efforts on a subset of BioImage containing 3D images (volumes) of biological macromolecules, implementing a first prototype of a "query-by-content" system. In the context of databases of complex data types the term query-by-content makes reference to those data modeling techniques in which user-defined functions aim at "understanding" (to some extent) the informational content of the data sets. In these systems the matching criteria introduced by the user are related to intrinsic features concerning the 3D images themselves, hence, complementing traditional queries by textual key words only. Efficient computational algorithms are required in order to "extract" structural information of the 3D images prior to storing them in the database. Also, easy-to-use interfaces should be implemented in order to obtain feedback from the expert. Our query-by-content prototype is used to construct a concrete query, making use of basic structural features, which are then evaluated over a set of three-dimensional images of biological macromolecules. This experimental implementation can be accessed via the Web at the BioImage server in Madrid, at http://www.bioimage.org/qbc/index.html. (C) 1999 Academic Press.