ArticleBMC bioinformatics2009
Semantic web data warehousing for caGrid.
Article in BMC bioinformatics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
11 citing papers in PubMed.
- A digital repository with an extensible data model for biobanking and genomic analysis management.BMC genomics · 2014Article
- Developing a semantically rich ontology for the biobank-administration domain.Journal of biomedical semantics · 2013Article
- Cheminformatics and the Semantic Web: adding value with linked data and enhanced provenance.Wiley interdisciplinary reviews. Computational molecular science · 2013Article
- Article
- Interfaces to PeptideAtlas: a case study of standard data access systems.Briefings in bioinformatics · 2012Article
- Federated ontology-based queries over cancer data.BMC bioinformatics · 2012Article
- A semantic web framework to integrate cancer omics data with biological knowledge.BMC bioinformatics · 2012Article
- Nanoinformatics: a new area of research in nanomedicine.International journal of nanomedicine · 2012Article
- Applications of the pipeline environment for visual informatics and genomics computations.BMC bioinformatics · 2011Article
- IGRhCellID: integrated genomic resources of human cell lines for identification.Nucleic acids research · 2011Article
- Exposing the cancer genome atlas as a SPARQL endpoint.Journal of biomedical informatics · 2010Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The National Cancer Institute (NCI) is developing caGrid as a means for sharing cancer-related data and services. As more data sets become available on caGrid, we need effective ways of accessing and integrating this information. Although the data models exposed on caGrid are semantically well annotated, it is currently up to the caGrid client to infer relationships between the different models and their classes. In this paper, we present a Semantic Web-based data warehouse (Corvus) for creating relationships among caGrid models. This is accomplished through the transformation of semantically-annotated caBIG Unified Modeling Language (UML) information models into Web Ontology Language (OWL) ontologies that preserve those semantics. We demonstrate the validity of the approach by Semantic Extraction, Transformation and Loading (SETL) of data from two caGrid data sources, caTissue and caArray, as well as alignment and query of those sources in Corvus. We argue that semantic integration is necessary for integration of data from distributed web services and that Corvus is a useful way of accomplishing this. Our approach is generalizable and of broad utility to researchers facing similar integration challenges.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.