Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved]
There is an ongoing challenge as to how best manage and understand ‘big data’ in precision medicine settings. This paper describes the potential for a Linked Data approach, using a Resource Description Framework (RDF) model, to combine multiple datasets with temporal and spatial elements of varying...
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
F1000 Research Ltd
2019-03-01
|
| Series: | HRB Open Research |
| Online Access: | https://hrbopenresearch.org/articles/1-20/v2 |
| _version_ | 1818870100061585408 |
|---|---|
| author | Brian P Reddy Brett Houlding Lucy Hederman Mark Canney Christophe Debruyne Ciaran O'Brien Alan Meehan Declan O'Sullivan Mark A Little |
| author_facet | Brian P Reddy Brett Houlding Lucy Hederman Mark Canney Christophe Debruyne Ciaran O'Brien Alan Meehan Declan O'Sullivan Mark A Little |
| author_sort | Brian P Reddy |
| collection | DOAJ |
| description | There is an ongoing challenge as to how best manage and understand ‘big data’ in precision medicine settings. This paper describes the potential for a Linked Data approach, using a Resource Description Framework (RDF) model, to combine multiple datasets with temporal and spatial elements of varying dimensionality. This “AVERT model” provides a framework for converting multiple standalone files of various formats, from both clinical and environmental settings, into a single data source. This data source can thereafter be queried effectively, shared with outside parties, more easily understood by multiple stakeholders using standardized vocabularies, incorporating provenance metadata and supporting temporo-spatial reasoning. The approach has further advantages in terms of data sharing, security and subsequent analysis. We use a case study relating to anti-Glomerular Basement Membrane (GBM) disease, a rare autoimmune condition, to illustrate a technical proof of concept for the AVERT model. |
| first_indexed | 2024-12-19T12:01:39Z |
| format | Article |
| id | doaj.art-42acc242eff84a408fc6009300f35628 |
| institution | Directory Open Access Journal |
| issn | 2515-4826 |
| language | English |
| last_indexed | 2024-12-19T12:01:39Z |
| publishDate | 2019-03-01 |
| publisher | F1000 Research Ltd |
| record_format | Article |
| series | HRB Open Research |
| spelling | doaj.art-42acc242eff84a408fc6009300f356282022-12-21T20:22:27ZengF1000 Research LtdHRB Open Research2515-48262019-03-01110.12688/hrbopenres.12851.213974Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved]Brian P Reddy0Brett Houlding1Lucy Hederman2Mark Canney3Christophe Debruyne4Ciaran O'Brien5Alan Meehan6Declan O'Sullivan7Mark A Little8Trinity Health Kidney Centre, Tallaght Hospital, Dublin, IrelandSchool of Computer Science and Statistics, University of Dublin, Dublin, IrelandADAPT Centre for Digital Content, University of Dublin, Dublin, IrelandTrinity Health Kidney Centre, Tallaght Hospital, Dublin, IrelandADAPT Centre for Digital Content, University of Dublin, Dublin, IrelandADAPT Centre for Digital Content, University of Dublin, Dublin, IrelandADAPT Centre for Digital Content, University of Dublin, Dublin, IrelandADAPT Centre for Digital Content, University of Dublin, Dublin, IrelandIrish Centre for Vascular Biology, University of Dublin, Dublin, IrelandThere is an ongoing challenge as to how best manage and understand ‘big data’ in precision medicine settings. This paper describes the potential for a Linked Data approach, using a Resource Description Framework (RDF) model, to combine multiple datasets with temporal and spatial elements of varying dimensionality. This “AVERT model” provides a framework for converting multiple standalone files of various formats, from both clinical and environmental settings, into a single data source. This data source can thereafter be queried effectively, shared with outside parties, more easily understood by multiple stakeholders using standardized vocabularies, incorporating provenance metadata and supporting temporo-spatial reasoning. The approach has further advantages in terms of data sharing, security and subsequent analysis. We use a case study relating to anti-Glomerular Basement Membrane (GBM) disease, a rare autoimmune condition, to illustrate a technical proof of concept for the AVERT model.https://hrbopenresearch.org/articles/1-20/v2 |
| spellingShingle | Brian P Reddy Brett Houlding Lucy Hederman Mark Canney Christophe Debruyne Ciaran O'Brien Alan Meehan Declan O'Sullivan Mark A Little Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved] HRB Open Research |
| title | Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved] |
| title_full | Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved] |
| title_fullStr | Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved] |
| title_full_unstemmed | Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved] |
| title_short | Data linkage in medical science using the resource description framework: the AVERT model [version 2; peer review: 2 approved] |
| title_sort | data linkage in medical science using the resource description framework the avert model version 2 peer review 2 approved |
| url | https://hrbopenresearch.org/articles/1-20/v2 |
| work_keys_str_mv | AT brianpreddy datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT bretthoulding datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT lucyhederman datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT markcanney datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT christophedebruyne datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT ciaranobrien datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT alanmeehan datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT declanosullivan datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved AT markalittle datalinkageinmedicalscienceusingtheresourcedescriptionframeworktheavertmodelversion2peerreview2approved |