Using functionality, we introduce the implementation of the flavonoid database in Results section. The basic function and flexibility of MediaWiki are introduced in Methods section from a computer-science perspective. We demonstrate our idea with the molecular information on flavonoid, the major category of plant secondary metabolites. Here we propose an extension of MediaWiki that can emulate traditional database operations. As most Wiki systems only provide a collection of independent pages with weak query functions, we tested the possibility of installing a flexible query mechanism on a Wiki-based system. Ideally, a bio-database needs to serve as a searchable, digital laboratory notebook where users can efficiently organize and query data. Currently, many biologists prefer using a spreadsheet such as Excel (Microsoft Corp., Seattle, WA, USA) or a simple text to organize their experimental results, and biology databases only provide full-text searches to access large-scale, unstructured text data. It has been the gold standard for data management for decades but the model requires fixation of database schema prior to data input.
This is not compatible with the relational model proposed by E. Biological data and their formats often co-evolve the definition of data type in a repository requires frequent, major updates. In the rapidly evolving frontiers of biology research, the development of flexible and systematic query mechanisms has not been pursued actively. Still unsupported is flexibility in query mechanisms and presentation such as displaying customized statistics in a user-friendly way. Its English version now boasts over 2 million articles followed by 0.7 and 0.6 million in German and French.
#Idatabase wiki free
The Wikipedia, a web-based free encyclopaedia, for example, continues its rapid growth despite criticism by experts of 'lack of quality control' and 'vulnerability to website vandals'. The effort required for the first two activities can be significantly reduced by introducing a Wiki-based system. How can we promote the development and maintenance of high-quality databases? The key processes in data handling are the input, management, and query of data. Input, management, and query are the keys Without doubt, data collection and management are important activities in scientific research. Their significance is clear from the success of major data-servicing institutes such as the National Center for Biotechnology Information (NCBI USA) or the European Bioinformatics Institute (EBI UK). However, most bioinformatics research requires high-quality databases. In many research fields, building or maintaining a database system is not a sought-after task and researchers tend to avoid the chore because: 1) the inputting and checking of data are routine and tedious, 2) novel findings are rarely based on a collection of old data, 3) database developers often do not receive deserved credit especially when data are distributed for free, and 4) it is difficult to evaluate the quality and value of data. Why is database maintenance unappreciated? MediaWiki supports multi-user environments for document management, and the cost for database maintenance is alleviated. This scheme benefits from both the free-formatted Wiki style and the concise and structured relational-database style. All modifications are open-source and publicly available. The system was written in PHP language as the extension of MediaWiki. Structured part is subject to text-string searches to realize relational operations. Registered users can describe any information in an arbitrary format.
As proof of principle, a database of flavonoid with 6902 molecular structures from over 1687 plant species was implemented on MediaWiki, the background system of Wikipedia. To overcome this disadvantage, we propose embeddable string-search commands on a Wiki-based system and designed a half-formatted database. a protein pair do and do not interact, or unknown parameters) in a positive sense, the flexibility of the data format sacrifices a systematic query mechanism equivalent to the widely used SQL. Although such bio-databases may describe conflicts or ambiguities (e.g. On the other hand, in the area of biology the word 'database' often refers to loosely formatted, very large text files. In computer science, database systems are based on the relational model founded by Edgar Codd in 1970.
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