Browse ORBilu by Open Access
- What it is and what it isn't
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ORBilu is a project developed by
   OnTheFly 2.0: a tool for automatic annotation of files and biological information extraction.; ; Satagopam, Venkata  et alPoster (2013) Retrieving all of the necessary information from databases about bioentities mentioned in an article is not a trivial or an easy task. Following the daily literature about a specific biological topic and ... [more ▼] Retrieving all of the necessary information from databases about bioentities mentioned in an article is not a trivial or an easy task. Following the daily literature about a specific biological topic and collecting all the necessary information about the bioentities mentioned in the literature manually is tedious and time consuming. OnTheFly 2.0 is a web application mainly designed for non-computer experts which aims to automate data collection and knowledge extraction from biological literature in a user friendly and efficient way. OnTheFly 2.0 is able to extract bioentities from individual articles such as text, Microsoft Word, Excel and PDF files. With a simple drag-and-drop motion, the text of a document is extensively parsed for bioentities such as protein/gene names and chemical compound names. Utilizing high quality data integration platforms, OnTheFly allows the generation of informative summaries, interaction networks and at-a-glance popup windows containing knowledge related to the bioentities found in documents. OnTheFly 2.0 provides a concise application to automate the extraction of bioentities hidden in various documents and is offered as a web based application. [less ▲] Detailed reference viewed: 150 (1 UL) Reflect: A practical approach to web semantics; ; et al in Journal of Web Semantics (2010), 8(2-3), 182-189 To date, adding semantic capabilities to web content usually requires considerable server-side re-engineering, thus only a tiny fraction of all web content currently has semantic annotations. Recently, we ... [more ▼] To date, adding semantic capabilities to web content usually requires considerable server-side re-engineering, thus only a tiny fraction of all web content currently has semantic annotations. Recently, we announced Reflect (http://reflect.ws), a free service that takes a more practical approach: Reflect uses augmented browsing to allow end-users to add systematic semantic annotations to any web-page in real-time, typically within seconds. In this paper we describe the tagging process in detail and show how further entity types can be added to Reflect; we also describe how publishers and content providers can access Reflect programmatically using SOAP, REST (HTTP post), and JavaScript. Usage of Reflect has grown rapidly within the life sciences, and while currently only genes, protein and small molecule names are tagged, we plan to soon expand the scope to include a much broader range of terms (e. g., Wikipedia entries). The popularity of Reflect demonstrates the use and feasibility of letting end-users decide how and when to add semantic annotations. Ultimately, 'semantics is in the eye of the end-user', hence we believe end-user approaches such as Reflect will become increasingly important in semantic web technologies. [less ▲] Detailed reference viewed: 179 (5 UL)Reflect: augmented browsing for the life scientist; ; et al in Nature Biotechnology (2009), 27(6), 508-510 Detailed reference viewed: 142 (6 UL) |
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