Paper Info
Title
Moby and Moby 2: Creatures of the Deep (Web).
Abstract
Facile and meaningful integration of data from disparate resources is the holy grail of bioinformatics. Some resources have begun to address this problem by providing their data using Semantic Web standards, specifically the Resource Description Framework (RDF) and the Web Ontology Language (OWL). Unfortunately, adoption of Semantic Web standards has been slow overall, and even in cases where the standards are being utilized, interconnectivity between resources is rare. In response, we have seen the emergence of centralized semantic warehouses that collect public data from third parties, integrate it, translate it into OWL/RDF and provide it to the community as a unified and queryable resource. One limitation of the warehouse approach is that queries are confined to the resources that have been selected for inclusion. A related problem, perhaps of greater concern, is that the majority of bioinformatics data exists in the Deep Webthat is, the data does not exist until an application or analytical tool is invoked, and therefore does not have a predictable Web address. The inability to utilize Uniform Resource Identifiers (URIs) to address this data is a barrier to its accessibility via URI-centric Semantic Web technologies. Here we examine The State of the Union for the adoption of Semantic Web standards in the health care and life sciences domain by key bioinformatics resources, explore the nature and connectivity of several community-driven semantic warehousing projects, and report on our own progress with the CardioSHARE/Moby-2 project, which aims to make the resources of the Deep Web transparently accessible through SPARQL queries.
Year
DOI
Venue
2009
10.1093/bib/bbn051
BRIEFINGS IN BIOINFORMATICS
Keywords
Field
DocType
Semantic Web,Semantic Web services,data integration,distributed SPARQL,OWL,RDF
Data mining,World Wide Web,Semantic Web Stack,Computer science,Web standards,Data Web,Linked data,Semantic Web,Semantic analytics,OWL-S,Social Semantic Web,Bioinformatics
Journal
Volume
Issue
ISSN
10
2
1467-5463
Citations 
PageRank 
References 
14
0.71
22
Authors
3
Name
Order
Citations
PageRank
Benjamin Vandervalk11219.60
E. Luke McCarthy21227.35
Mark D Wilkinson375975.21