Introduction to Bio-Ontologies - Revision history

Phismith at 13:52, 6 January 2012

2012-01-06T13:52:43Z

Phismith at 20:21, 5 January 2012

2012-01-05T20:21:37Z

Phismith at 15:52, 4 January 2012

2012-01-04T15:52:27Z

Phismith at 15:50, 4 January 2012

2012-01-04T15:50:48Z

Phismith at 15:50, 4 January 2012

2012-01-04T15:50:15Z

Phismith at 15:49, 4 January 2012

2012-01-04T15:49:24Z

Phismith at 15:48, 4 January 2012

2012-01-04T15:48:07Z

Phismith at 15:47, 4 January 2012

2012-01-04T15:47:07Z

Phismith at 15:39, 4 January 2012

2012-01-04T15:39:26Z

Phismith at 15:34, 4 January 2012

2012-01-04T15:34:07Z

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 On Sunday, February 5, 2012 the [http://plantontology.org Plant Ontology Consortium] will host a tutorial on bio-ontologies to take place at the New York Botanical Garden.
-'''Background:''' The successful completion of the Human Genome project has given rise to a massive expansion in the genomic, proteomic and other data available to life science research. Ontologies are a response to this expansion of available data. They provide controlled vocabularies which allow biologists working in different disciplines to describe their data in common ways, thereby allowing comparison and aggregation of research results obtained, for example, in relation to different species or different ecosystems or different diseases.
+'''Background:''' The successful completion of multiple genome projects has given rise to a massive expansion in the genomic, proteomic and other data available to life science research. Ontologies are a response to this expansion of available data. They provide controlled vocabularies which allow biologists working in different disciplines to describe their data in common ways, thereby allowing comparison and aggregation of research results obtained, for example, in relation to different species or different ecosystems or different diseases.
 '''Goals:''' This tutorial is designed for biologists who have little or no experience with ontologies. It should be of interest to those who want to create their own ontology or make use of existing ontologies for data annotation. Although most of the examples will be drawn from the Plant Ontology, the methods described will be relevant to any domain.
@@ Line 9: / Line 9: @@
 '''Schedule'''
-:9AM-9:30AM '''Welcome and Introductions''' (Dennis Stevenson, Vice President for Laboratory Research, New York Botanical Gardens)
+:9AM-9:15AM '''Welcome and Introductions''' (Dennis Stevenson, Vice President for Laboratory Research, New York Botanical Gardens)
-:9:30AM-11:15AM '''Introduction to Bio-Ontologies''' (Barry Smith)
+:9:15AM-11:00AM '''Introduction to Bio-Ontologies''' (Barry Smith)
 ::What is an ontology and what is it for?
 ::Ontology success stories
@@ Line 17: / Line 17: @@
 ::How to build your first ontology
-:11:30AM-12:30PM '''Introduction to the Plant Ontology''' (Ramona Walls)
+:11:15AM-12:00PM '''Introduction to the Plant Ontology''' (Ramona Walls)
 ::What is the Plant Ontology and what is it for?
 ::How the Plant Ontology is structured: anatomy and development stages
@@ Line 57: / Line 57: @@
 http://ncor.us/

← Older revision		Revision as of 20:21, 5 January 2012
Line 1:		Line 1:
−	On Sunday, February 5, 2012 the [http://plantontology.org Plant Ontology Consortium] will host a tutorial on bio-ontologies at the New York Botanical Garden.	+	On Sunday, February 5, 2012 the [http://plantontology.org Plant Ontology Consortium] will host a tutorial on bio-ontologies to take place at the New York Botanical Garden.

	'''Background:''' The successful completion of the Human Genome project has given rise to a massive expansion in the genomic, proteomic and other data available to life science research. Ontologies are a response to this expansion of available data. They provide controlled vocabularies which allow biologists working in different disciplines to describe their data in common ways, thereby allowing comparison and aggregation of research results obtained, for example, in relation to different species or different ecosystems or different diseases.		'''Background:''' The successful completion of the Human Genome project has given rise to a massive expansion in the genomic, proteomic and other data available to life science research. Ontologies are a response to this expansion of available data. They provide controlled vocabularies which allow biologists working in different disciplines to describe their data in common ways, thereby allowing comparison and aggregation of research results obtained, for example, in relation to different species or different ecosystems or different diseases.

@@ Line 26: / Line 26: @@
 ----
-The tutorial is open to the public. If you are interested in attending please contact [mailto:rwalls@nybg.org Ramona Walls] before February 1, 2012.
+'''Attendance:''' The tutorial is open to the public. If you are interested in attending please contact [mailto:rwalls@nybg.org Ramona Walls] before February 1, 2012.
-The [http://www.nybg.org/ New York Botanical Garden] us located in the Bronx, NY, and is easily reached by the [http://www.nybg.org/visit/directions.php#public Metro-North Railraod or other means of transportation].
+'''Venue:''' The [http://www.nybg.org/ New York Botanical Garden] is located in the Bronx, NY, and is easily reached by the [http://www.nybg.org/visit/directions.php#public Metro-North Railraod or other means of transportation].
-==Speakers
+==Speakers==
-Barry Smith is the Director of the National Center for Ontological Research (Buffalo). He is also one of the principal scientists of the NIH National Center for Biomedical Ontology, a Scientific Advisor to the Gene Ontology Consortium, a Consultant to the Plant Ontology Consortium, and a PI on the Protein Ontology and Infectious Disease Ontology projects.
+'''Barry Smith''' is the Director of the National Center for Ontological Research (Buffalo). He is also one of the principal scientists of the NIH National Center for Biomedical Ontology, a Scientific Advisor to the Gene Ontology Consortium, a Consultant to the Plant Ontology Consortium, and a PI on the Protein Ontology and Infectious Disease Ontology projects.
-Ramona Walls is a Post-Doctoral Research Associate at the New York Botanical Garden. The primary focus of her research is the Plant ontology; she also works on the ecology and systematics of Mexican Dioscorea, plant ecophysiology, and leaf trait evolution.
+'''Ramona Walls''' is a Post-Doctoral Research Associate at the New York Botanical Garden. The primary focus of her research is the Plant ontology; she also works on the ecology and systematics of Mexican Dioscorea, plant ecophysiology, and leaf trait evolution.
 ==Suggested Reading==
@@ Line 53: / Line 53: @@
 http://bioportal.bioontology.org/

@@ Line 4: / Line 4: @@
 '''Goals:''' This tutorial is designed for biologists who have little or no experience with ontologies. It should be of interest to those who want to create their own ontology or make use of existing ontologies for data annotation. Although most of the examples will be drawn from the Plant Ontology, the methods described will be relevant to any domain.
 '''Schedule'''
@@ Line 21: / Line 23: @@
 ::Neighboring ontologies of the PO: Traits (TO) and Phenotypes (PATO)
 ::Different types of plant data made available through the Plant Ontology
 The tutorial is open to the public. If you are interested in attending please contact [mailto:rwalls@nybg.org Ramona Walls] before February 1, 2012.

@@ Line 7: / Line 7: @@
 '''Schedule'''
-AM-9:30AM '''Welcome and Introductions''' (Dennis Stevenson, Vice President for Laboratory Research, New York Botanical Gardens)
+:9AM-9:30AM '''Welcome and Introductions''' (Dennis Stevenson, Vice President for Laboratory Research, New York Botanical Gardens)
-:30AM-11:15AM '''Introduction to Bio-Ontologies''' (Barry Smith)
+:9:30AM-11:15AM '''Introduction to Bio-Ontologies''' (Barry Smith)
-:What is an ontology and what is it for?
+::What is an ontology and what is it for?
-:Ontology success stories
+::Ontology success stories
-:The bio-ontologies landscape
+::The bio-ontologies landscape
-:How to build your first ontology
+::How to build your first ontology
-:30AM-12:30PM '''Introduction to the Plant Ontology''' (Ramona Walls)
+:11:30AM-12:30PM '''Introduction to the Plant Ontology''' (Ramona Walls)
-:What is the Plant Ontology and what is it for?
+::What is the Plant Ontology and what is it for?
-:How the Plant Ontology is structured: anatomy and development stages
+::How the Plant Ontology is structured: anatomy and development stages
-:Plant Ontology relations and definitions
+::Plant Ontology relations and definitions
-:Neighboring ontologies of the PO: Traits (TO) and Phenotypes (PATO)
+::Neighboring ontologies of the PO: Traits (TO) and Phenotypes (PATO)
-:Different types of plant data made available through the Plant Ontology
+::Different types of plant data made available through the Plant Ontology
-This tutorial is open to the public. If you are interested in attending please contact [mailto:rwalls@nybg.org Ramona Walls] before February 1, 2012.
+The tutorial is open to the public. If you are interested in attending please contact [mailto:rwalls@nybg.org Ramona Walls] before February 1, 2012.
 The [http://www.nybg.org/ New York Botanical Garden] us located in the Bronx, NY, and is easily reached by the [http://www.nybg.org/visit/directions.php#public Metro-North Railraod or other means of transportation].

← Older revision		Revision as of 15:39, 4 January 2012
Line 34:		Line 34:

	[http://nar.oxfordjournals.org/cgi/content/full/36/suppl_1/D449 Avraham et al. 2007], "The Plant Ontology Database: a community resource for plant structure and development stages controlled vocabulary and annotations".		[http://nar.oxfordjournals.org/cgi/content/full/36/suppl_1/D449 Avraham et al. 2007], "The Plant Ontology Database: a community resource for plant structure and development stages controlled vocabulary and annotations".
		+
		+	==Some Useful Links==
		+
		+	http://wiki.plantontology.org
		+
		+	http://www.facebook.com/pages/Plant-Ontology-Project/164166656929608
		+
		+	http://obofoundry.org
		+
		+	http://bioportal.bioontology.org/

← Older revision		Revision as of 15:34, 4 January 2012
Line 1:		Line 1:
	On Sunday, February 5, 2012 the [http://plantontology.org Plant Ontology Consortium] will host a tutorial on bio-ontologies at the New York Botanical Garden.		On Sunday, February 5, 2012 the [http://plantontology.org Plant Ontology Consortium] will host a tutorial on bio-ontologies at the New York Botanical Garden.
		+
		+	The successful completion of the Human Genome project has given rise to a massive expansion in the genomic, proteomic and other data available to life science research. Ontologies are a response to this expansion of data. They provide controlled vocabularies which allow biologists working in different disciplines to describe their data in common ways, thereby allowing comparisons of research results for example between different species or different diseases.

	This tutorial is designed for biologists who have little or no experience with ontologies. It should be of interest to those who want to create their own ontology or make use of existing ontologies for data annotation. Although most of the examples will be drawn from the Plant Ontology, the methods described will be relevant to any domain.		This tutorial is designed for biologists who have little or no experience with ontologies. It should be of interest to those who want to create their own ontology or make use of existing ontologies for data annotation. Although most of the examples will be drawn from the Plant Ontology, the methods described will be relevant to any domain.