Resource Index - Revision history

Darren Weber at 02:16, 9 April 2013

2013-04-09T02:16:32Z

Fergerson: /* Documentation */

2012-01-24T22:40:07Z

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Fergerson: /* Documentation */

2012-01-24T22:39:35Z

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Fergerson: /* Documentation */

2012-01-09T17:46:34Z

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Whetzel: /* Documentation */

2011-12-08T12:06:08Z

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Whetzel: /* Documentation */

2011-12-08T11:58:53Z

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Mdorf: /* Documentation */

2011-10-28T21:57:27Z

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Mdorf: /* Documentation */

2011-10-28T21:56:24Z

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Mdorf: /* Documentation */

2011-10-28T21:49:11Z

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Mdorf: /* Documentation */

2011-10-28T21:21:40Z

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 The range of publicly available biomedical data is enormous and is expanding fast. This expansion means that researchers now face a hurdle to extracting the data they need from the large numbers of data that are available. Biomedical researchers have turned to ontologies and terminologies to structure and annotate their data with ontology concepts for better search and retrieval.
-Using the annotation workflow of the [[Annotator_Web_service|Annotator Web Service]] NCBO has built an biomedical resources index in which biomedical data is indexed by ontology concepts. The index allows a user to search for biomedical data based on ontology concepts. The NCBO Resource Index is directly queriable in the [http://bioportal.bioontology.org BioPortal] ontology repository: when a user browses a given concept, he has access (link) to the list of resource elements that have been annotated with this concept. A user can also search for resources direclty using the 'All resources' tab.
+Using the annotation workflow of the [[Annotator_Web_service|Annotator Web Service]] NCBO has built an biomedical resources index in which biomedical data is indexed by ontology concepts. The index allows a user to search for biomedical data based on ontology concepts. The NCBO Resource Index is directly queriable in the [http://bioportal.bioontology.org BioPortal] ontology repository: when a user browses a given concept, he has access (link) to the list of resource elements that have been annotated with this concept. A user can also search for resources directly using the 'All resources' tab.
 In the NCBO Resource Index, we have processed the textual metadata of elements from several biomedical resources such as: [http://www.ebi.ac.uk/arrayexpress/ ArrayExpress], [http://clinicaltrials.gov/ Clinical Trials.gov], [http://goldminer.arrs.org GoldMiner], [http://www.ncbi.nlm.nih.gov/geo/ Gene Expression Omnibus (GEO)] and others. The annotations in the index keeps track of the structures of elements that have been annotated i.e., from which part of the element (e.g., title, description) an annotation has been produced. This information is used to score annotations.

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 * [[Resource Index REST Web Service User Guide]]
-* [http://stagerest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
+* [http://rest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
 * Add your own resource by developing a [http://stanford.edu/~whetzel/downloads/RATDevelopment.pdf Resource Access Tool]

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 * [[Resource Index REST Web Service User Guide]]
-* [http://rest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
+* [http://stagerest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
 * Add your own resource by developing a [http://stanford.edu/~whetzel/downloads/RATDevelopment.pdf Resource Access Tool]

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 * [[Resource Index REST Web Service User Guide]]
-* [http://stagerest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
+* [http://rest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
 * Add your own resource by developing a [http://stanford.edu/~whetzel/downloads/RATDevelopment.pdf Resource Access Tool]

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 * [http://stagerest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
-* Add your own resource by developing a Resource Access Tool
+* Add your own resource by developing a [http://stanford.edu/~whetzel/downloads/RATDevelopment.pdf Resource Access Tool]
 * Resource index design and underlying data model (see the bottom image on the right) [[Image:OBR_result_model.png|thumb| NCBO Resource Index data model]]

← Older revision		Revision as of 11:58, 8 December 2011
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	* [http://stagerest.bioontology.org/resource_index/resources/list/ Currently available resource list.]		* [http://stagerest.bioontology.org/resource_index/resources/list/ Currently available resource list.]
		+
		+	* Add your own resource by developing a Resource Access Tool

	* Resource index design and underlying data model (see the bottom image on the right) [[Image:OBR_result_model.png\|thumb\| NCBO Resource Index data model]]		* Resource index design and underlying data model (see the bottom image on the right) [[Image:OBR_result_model.png\|thumb\| NCBO Resource Index data model]]

← Older revision		Revision as of 21:57, 28 October 2011
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	* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.		* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.
−
−
−	* [http://localhost:8080/resource_index_api/resources/list/ Currently available resource list.]

	=== References ===		=== References ===

← Older revision		Revision as of 21:56, 28 October 2011
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	* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.		* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.
		+
		+
		+	* [http://localhost:8080/resource_index_api/resources/list/ Currently available resource list.]

	=== References ===		=== References ===

← Older revision		Revision as of 21:49, 28 October 2011
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	* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.		* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.
−
−	* [http://localhost:8080/resource_index_api/resources/list/ Currently available resource test list.]

	=== References ===		=== References ===

← Older revision		Revision as of 21:21, 28 October 2011
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	* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.		* [https://bmir-gforge.stanford.edu/gf/project/obs/ Corresponding Gforge project] - Developers only.
		+
		+	* [http://localhost:8080/resource_index_api/resources/list/ Currently available resource test list.]

	=== References ===		=== References ===