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Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’
PubAtlas (www.pubatlas.org) is a web service and standalone program providing literature maps for the biomedical research literature. It accepts user-defined sets of terms (PubMed queries) as input, and permits ‘BLASTing’ of one set against another: for all terms x and y in these sets, deriving the...
Autores principales: | , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
American Medical Informatics Association
2009
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3041555/ https://www.ncbi.nlm.nih.gov/pubmed/21347177 |
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author | Parker, D.S. Chu, W.W. Sabb, F.W. Toga, A.W. Bilder, R.M. |
author_facet | Parker, D.S. Chu, W.W. Sabb, F.W. Toga, A.W. Bilder, R.M. |
author_sort | Parker, D.S. |
collection | PubMed |
description | PubAtlas (www.pubatlas.org) is a web service and standalone program providing literature maps for the biomedical research literature. It accepts user-defined sets of terms (PubMed queries) as input, and permits ‘BLASTing’ of one set against another: for all terms x and y in these sets, deriving the results of the pairwise intersections x AND y. This all vs. all capability extends PubMed with a literature analysis interface. Correspondingly, the basic form of literature map that PubAtlas provides for exploring associations among sets of terms is an interactive tabular display, in heatmap/microarray format. PubAtlas supports development of specialized lexica -- hierarchies of controlled terminology that can represent sets of related concepts or a ‘user-defined query language’. PubAtlas also provides historical perspectives on the literature, with temporal query features that highlight historical patterns. Generally, it is a framework for extending the PubMed interface, and an extensible platform for producing interactive literature maps. |
format | Text |
id | pubmed-3041555 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2009 |
publisher | American Medical Informatics Association |
record_format | MEDLINE/PubMed |
spelling | pubmed-30415552011-02-23 Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’ Parker, D.S. Chu, W.W. Sabb, F.W. Toga, A.W. Bilder, R.M. Summit on Translat Bioinforma Articles PubAtlas (www.pubatlas.org) is a web service and standalone program providing literature maps for the biomedical research literature. It accepts user-defined sets of terms (PubMed queries) as input, and permits ‘BLASTing’ of one set against another: for all terms x and y in these sets, deriving the results of the pairwise intersections x AND y. This all vs. all capability extends PubMed with a literature analysis interface. Correspondingly, the basic form of literature map that PubAtlas provides for exploring associations among sets of terms is an interactive tabular display, in heatmap/microarray format. PubAtlas supports development of specialized lexica -- hierarchies of controlled terminology that can represent sets of related concepts or a ‘user-defined query language’. PubAtlas also provides historical perspectives on the literature, with temporal query features that highlight historical patterns. Generally, it is a framework for extending the PubMed interface, and an extensible platform for producing interactive literature maps. American Medical Informatics Association 2009-03-01 /pmc/articles/PMC3041555/ /pubmed/21347177 Text en ©2009 AMIA - All rights reserved. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose |
spellingShingle | Articles Parker, D.S. Chu, W.W. Sabb, F.W. Toga, A.W. Bilder, R.M. Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’ |
title | Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’ |
title_full | Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’ |
title_fullStr | Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’ |
title_full_unstemmed | Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’ |
title_short | Literature Mapping with PubAtlas — extending PubMed with a ‘BLASTing interface’ |
title_sort | literature mapping with pubatlas — extending pubmed with a ‘blasting interface’ |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3041555/ https://www.ncbi.nlm.nih.gov/pubmed/21347177 |
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