SDIWG: NCBC Scientific Ontologies - Revision history

Lysterp at 20:01, 7 June 2009

2009-06-07T20:01:51Z

Kohane at 21:14, 9 May 2007

2007-05-09T21:14:44Z

Kohane at 21:13, 9 May 2007

2007-05-09T21:13:05Z

Kohane at 21:10, 9 May 2007

2007-05-09T21:10:32Z

Lysterp at 20:37, 8 May 2007

2007-05-08T20:37:55Z

Phismith: /* This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies */

2007-05-08T17:01:55Z

This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies

Phismith: /* This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies */

2007-05-08T17:01:32Z

This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies

Phismith: /* This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies */

2007-05-08T16:48:30Z

This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies

Phismith: /* This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies */

2007-05-08T16:48:08Z

This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies

Phismith: /* This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies */

2007-05-08T16:47:48Z

This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies

@@ Line 3: / Line 3: @@
 [http://www.ncbcs.org/ Top page of ncbcs.org web site which is maintained by the NCBCs themselves]
-[[SDIWG:Software_and_Data_Integration_Working_Group|Top page of SDIWG web site]]
+[[SDIWG:Software_and_Data_Integration_Working_Group|Top page of NCBC Working Groups web site]]
 <br /> Contacts for this Working Group are Zak Kohane (isaac_kohane@harvard.edu), Suzi Lewis(suzi@fruitfly.org), and Mark Musen (musen@stanford.edu)

@@ Line 7: / Line 7: @@
 <br /> Contacts for this Working Group are Zak Kohane (isaac_kohane@harvard.edu), Suzi Lewis(suzi@fruitfly.org), and Mark Musen (musen@stanford.edu)
-=== Mission Statement
+=== Mission Statement ===
 The goal of the NCBC Scientific Ontologies working group has been a purposefully '''narrow''' and '''pragramatic''' one: to create a succinct categorization of ontologies and terminologies that are useful for the biomedical research community. We are cognizant that there are a multiplicity of user communities for ontologies and indeed these a growing rapidly. Many of these communities are not primarily interested in further development or refinement of ontologies but recognize the utility of such computable corpora of biomedical knowledge and wish to use them right now. This is our target audience. We are not representing this work as that of a standards organization nor of a prescriptive or authoritative body. Rather we have reviewed the ontologies that we, the members of the NCBC community, are using or intend to use shortly and have provide a rough-cut categorization. Simple as this task may seem, it has taken many telephone conference calls, a multi-hour meeting in Washington, DC and multiple emails and collective edits to arrive at this consensus. Frankly, we are pleased and even a little ''surprised'' at how successful we were in reaching a consensus view.
@@ Line 17: / Line 18: @@
 * Category 3: Not quite ready for use but highly promising and efforts to develop these are strongly endorsed by the NCBC's.
-=== Current Action Items
+=== Current Action Items ===
 We are in the final processes of vetting the aforementioned categorization and we are also currently writing a manuscript describing this consensus result for submission for publication over the Summer of 2007
@@ Line 24: / Line 25: @@
 ----
-=== Work to date
+=== Work to date ===
 <br /> '''The following is history of the output from the Scientific Ontologies working group, with most recent at the top, and we welcome comments from the community'''

@@ Line 16: / Line 16: @@
 * Category 2: Widely used and endorsed but there are some reservations among at least a subset of the users about the structure and/or function and/or useability of these ontologies.
 * Category 3: Not quite ready for use but highly promising and efforts to develop these are strongly endorsed by the NCBC's.
 <br />
 ----
+=== Work to date
-<br /> '''The following are important output from the Scientific Ontologies working group, with most recent at the top, and we welcome comments from the community'''
+<br /> '''The following is history of the output from the Scientific Ontologies working group, with most recent at the top, and we welcome comments from the community'''
 * [http://www.berkeleybop.org/sowg/table.cgi Suzi Lewis Compilation of proposed ontologies and data standards selected for use by the NCBCs, as of February 2007.] Additional information can be found in the [http://homepage.mac.com/isaac.kohane/blogwavestudio/LH20050109125630/LHA20070210191150/index.html Working Group Meeting Minutes 20070209]

← Older revision		Revision as of 21:10, 9 May 2007
Line 6:		Line 6:

	<br /> Contacts for this Working Group are Zak Kohane (isaac_kohane@harvard.edu), Suzi Lewis(suzi@fruitfly.org), and Mark Musen (musen@stanford.edu)		<br /> Contacts for this Working Group are Zak Kohane (isaac_kohane@harvard.edu), Suzi Lewis(suzi@fruitfly.org), and Mark Musen (musen@stanford.edu)
		+
		+	=== Mission Statement
		+
		+	The goal of the NCBC Scientific Ontologies working group has been a purposefully '''narrow''' and '''pragramatic''' one: to create a succinct categorization of ontologies and terminologies that are useful for the biomedical research community. We are cognizant that there are a multiplicity of user communities for ontologies and indeed these a growing rapidly. Many of these communities are not primarily interested in further development or refinement of ontologies but recognize the utility of such computable corpora of biomedical knowledge and wish to use them right now. This is our target audience. We are not representing this work as that of a standards organization nor of a prescriptive or authoritative body. Rather we have reviewed the ontologies that we, the members of the NCBC community, are using or intend to use shortly and have provide a rough-cut categorization. Simple as this task may seem, it has taken many telephone conference calls, a multi-hour meeting in Washington, DC and multiple emails and collective edits to arrive at this consensus. Frankly, we are pleased and even a little ''surprised'' at how successful we were in reaching a consensus view.
		+
		+	The current categorization of these ontologies (and note that we use this term intentionally loosely and it encompassed rather flat and unstructured terminologies as well) can be found at: [http://www.berkeleybop.org/sowg/table.cgi courtesy of Suzi Lewis]. There are three main categories:
		+
		+	* Category 1: Fully endorsed
		+	* Category 2: Widely used and endorsed but there are some reservations among at least a subset of the users about the structure and/or function and/or useability of these ontologies.
		+	* Category 3: Not quite ready for use but highly promising and efforts to develop these are strongly endorsed by the NCBC's.

	<br />		<br />

← Older revision		Revision as of 20:37, 8 May 2007
Line 1:		Line 1:
	=== This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies ===		=== This is the main page for the NIH Roadmap National Centers for Biomedical Computing (NCBC) Working Group titled: Scientific Ontologies ===
		+
		+	[http://www.ncbcs.org/ Top page of ncbcs.org web site which is maintained by the NCBCs themselves]

	[[SDIWG:Software_and_Data_Integration_Working_Group\|Top page of SDIWG web site]]		[[SDIWG:Software_and_Data_Integration_Working_Group\|Top page of SDIWG web site]]

@@ Line 36: / Line 36: @@
 * Highlights from Scientific Ontologies TCONs'''
-** http://homepage.mac.com/isaac.kohane/blogwavestudio/LH20050109125630/LHA20070210191150/index.html Meeting Minutes 20070209]
+** [http://homepage.mac.com/isaac.kohane/blogwavestudio/LH20050109125630/LHA20070210191150/index.html Meeting Minutes 20070209]
 ** [[Meeting_Minutes_20060601|Meeting Minutes 20060601]]
 <br />

@@ Line 28: / Line 28: @@
 ----
-'''Meetings of Relevance to Science Ontologies'''
+'''Meetings of Relevance to Scientific Ontologies'''
 * [[Past meetings]]
@@ Line 34: / Line 34: @@
 * Upcoming meetings:
 ** The next meeting of the Scientific Ontologies Section of the SDIWG will take place on October 30-31, 2007 in Newark, NJ as part of a joint NCBO/MagNet workshop on [http://www.bioontology.org/wiki/index.php/Ontology_and_Cellular_Networks Ontology and Cellular Networks].
-----
+* Highlights from Scientific Ontologies TCONs'''
-'''Highlights from Scientific Ontologies TCONs'''
+<br />