MouseBIRN.MouseBIRNResources (r1.1 vs. r1.19)
Diffs

 <<O>>  Difference Topic MouseBIRNResources (r1.19 - 10 Aug 2007 - JylBoline)

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Go to Mouse BIRN Wiki Table of Contents
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BIRNLex Draft Version:
The BIRN Project lexicon will provide entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. It is built using the organizational framework provided by FUGO. The BIRNLex will serve as the basis for construction of a formal ontology for the multiscale investigation of neurological disease.
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Offered by Mouse BIRN

MouseBIRN Tools
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META FILEATTACHMENT fBIRNuploadTutorial.tgz attr="" comment="FBIRN HID tutorial" date="1186767538" path="fBIRNuploadTutorial.tgz" size="17205" user="jboline" version="1.1"

 <<O>>  Difference Topic MouseBIRNResources (r1.18 - 02 Mar 2007 - JylBoline)

META TOPICPARENT WebHome
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Go to Mouse BIRN Wiki Table of Contents

Resources


 <<O>>  Difference Topic MouseBIRNResources (r1.17 - 02 Mar 2007 - JylBoline)

META TOPICPARENT WebHome

Resources

Offered by BIRN

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Public release of BIRNLex
The BIRN Project lexicon will provide entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. It is built using the organizational framework provided by FUGO. The BIRNLex will serve as the basis for construction of a formal ontology for the multiscale investigation of neurological disease.
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BIRNLex Draft Version:
The BIRN Project lexicon will provide entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. It is built using the organizational framework provided by FUGO. The BIRNLex will serve as the basis for construction of a formal ontology for the multiscale investigation of neurological disease.

Offered by Mouse BIRN

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MouseBIRN Tools
Overview of and links to current tools offered by mouse BIRN participants
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MouseBIRN Tools
  • Overview of and links to current tools offered by mouse BIRN participants

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MouseBIRN Data
Data available for download from mouse BIRN participants
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MouseBIRN Data
  • Data available for download from mouse BIRN participants

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MouseBIRN Data Management
Data management tools available for download from mouse BIRN participants
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MouseBIRN Data Management
  • Data management tools available for download from mouse BIRN participants

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MouseBIRN Tutorials
Tutorials and Workflows available for download from mouse BIRN participants
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MouseBIRN Tutorials
  • Tutorials and Workflows available for download from mouse BIRN participants

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MouseBIRN Methods
Methods used by some of the mouse BIRN participants
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MouseBIRN Methods
  • Methods used by some of the mouse BIRN participants

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MouseBIRN Mouse Strain Names
Strain names used by the Mouse BIRN for Data base mark-up
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MouseBIRN Mouse Strain Names
  • Strain names used by the Mouse BIRN for Data base mark-up


 <<O>>  Difference Topic MouseBIRNResources (r1.16 - 22 Sep 2006 - JylBoline)

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Resources

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MouseBIRN Methods
Methods used by some of the mouse BIRN participants
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MouseBIRN Mouse Strain Names
Strain names used by the Mouse BIRN for Data base mark-up


 <<O>>  Difference Topic MouseBIRNResources (r1.15 - 05 Sep 2006 - JylBoline)

META TOPICPARENT WebHome

Resources

Offered by BIRN

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Public release of BIRNLex
The BIRN Project lexicon will provide entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. It is built using the organizational framework provided by FUGO. The BIRNLex will serve as the basis for construction of a formal ontology for the multiscale investigation of neurological disease.
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Public release of BIRNLex
The BIRN Project lexicon will provide entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. It is built using the organizational framework provided by FUGO. The BIRNLex will serve as the basis for construction of a formal ontology for the multiscale investigation of neurological disease.

Offered by Mouse BIRN


 <<O>>  Difference Topic MouseBIRNResources (r1.14 - 16 Aug 2006 - JylBoline)

META TOPICPARENT WebHome

Resources

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Offered by BIRN

Public release of BIRNLex
The BIRN Project lexicon will provide entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. It is built using the organizational framework provided by FUGO. The BIRNLex will serve as the basis for construction of a formal ontology for the multiscale investigation of neurological disease.

Offered by Mouse BIRN

MouseBIRN Tools
Overview of and links to current tools offered by mouse BIRN participants

 <<O>>  Difference Topic MouseBIRNResources (r1.13 - 15 Dec 2005 - JylBoline)

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Additional Resources

MouseBIRN Semantic Bio-Ontology-related Resources of General Interest
References to literature, conceptual bio-ontologies and ontology curation tools - topics of General Interest to Mouse BIRN participants.
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MouseBIRN Atlasing Related Resources of Interest
References to links and publications of general interest to Mouse


 <<O>>  Difference Topic MouseBIRNResources (r1.12 - 30 Nov 2005 - JylBoline)

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Offered by Mouse BIRN


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<		 MouseBIRN Semantic Bio-Ontology-related Resources of General Interest : References to literature, conceptual bio-ontologies and ontology curation tools - topics of General Interest to Mouse BIRN participants.
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MouseBIRN Tools
Overview of and links to current tools offered by mouse BIRN participants

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MouseBIRN Data
Data available for download from mouse BIRN participants

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<		 MouseBIRN Data : Data available for download from mouse BIRN participants
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MouseBIRN Data Management
Data management tools available for download from mouse BIRN participants

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<		 MouseBIRN Tutorials : Tutorials and Workflows available for download from mouse BIRN participants
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MouseBIRN Tutorials
Tutorials and Workflows available for download from mouse BIRN participants

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MouseBIRN Methods
Methods used by some of the mouse BIRN participants

Additional Resources

MouseBIRN Semantic Bio-Ontology-related Resources of General Interest
References to literature, conceptual bio-ontologies and ontology curation tools - topics of General Interest to Mouse BIRN participants.



 <<O>>  Difference Topic MouseBIRNResources (r1.11 - 22 Nov 2005 - JylBoline)

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MouseBIRN Data : Data available for download from mouse BIRN participants

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>		 MouseBIRN Tutorials : Tutorials and Workflows available for download from mouse BIRN participants

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<		 MouseBIRN Tutorials : Data available for download from mouse BIRN participants
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>		 MouseBIRN Methods : Methods used by some of the mouse BIRN participants


 <<O>>  Difference Topic MouseBIRNResources (r1.10 - 18 Oct 2005 - JylBoline)

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MouseBIRN Data : Data available for download from mouse BIRN participants

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MouseBIRN Tutorials : Data available for download from mouse BIRN participants


 <<O>>  Difference Topic MouseBIRNResources (r1.9 - 15 Oct 2005 - JylBoline)

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MouseBIRN Tools : Overview of and links to current tools offered by mouse BIRN participants

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>		 MouseBIRN Data : Data available for download from mouse BIRN participants

 <<O>>  Difference Topic MouseBIRNResources (r1.8 - 15 Jun 2005 - JylBoline)

META TOPICPARENT WebHome

Resources


 <<O>>  Difference Topic MouseBIRNResources (r1.7 - 07 Jun 2005 - JylBoline)

META TOPICPARENT WebHome

Resources

MouseBIRN Semantic Bio-Ontology-related Resources of General Interest : References to literature, conceptual bio-ontologies and ontology curation tools - topics of General Interest to Mouse BIRN participants.

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>		 MouseBIRN Tools : Overview of and links to current tools offered by mouse BIRN participants

 <<O>>  Difference Topic MouseBIRNResources (r1.6 - 06 Jun 2005 - MouseBIRN)

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<		 MouseBIRN Bio-Ontology-related Resources of General Interest : References to literature, specific bio-ontologies and ontology curation tools - topics of General Interest to Mouse BIRN participants.
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>		 MouseBIRN Semantic Bio-Ontology-related Resources of General Interest : References to literature, conceptual bio-ontologies and ontology curation tools - topics of General Interest to Mouse BIRN participants.


 <<O>>  Difference Topic MouseBIRNResources (r1.5 - 03 Jun 2005 - MouseBIRN)

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<		 MouseBIRN Literature References of General Interest? : Literature References on Topics of General Interest to Mouse BIRN participants.
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>		 MouseBIRN Bio-Ontology-related Resources of General Interest : References to literature, specific bio-ontologies and ontology curation tools - topics of General Interest to Mouse BIRN participants.


 <<O>>  Difference Topic MouseBIRNResources (r1.4 - 02 Jun 2005 - MouseBIRN)

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Ontology References

Onto-centric Views of Biological Knowledge: a few compelling examples

The following papers provide excellent, concrete examples of ontological engineering in the biosciences. They each focus on a different aspect of how extended semantic formalisms can be used to represent complex and highly integrative scientific knowledge relevant to the biological questions being addressed by the Mouse BIRN Projects. If one disregards for the present the issue of whether such complexity is achievable and/or useful at this stage in the evolution of Mouse BIRN, these papers prime value is in their cogent, logical deconstruction of biological examples specifically relevant to Mouse BIRN projects where onto-centric data management & access methods can provide significant added value.
  • David P. Hill, Judith A. Blake, Joel E. Richardson, and Martin Ringwald. (2002) Extension and Integration of the Gene Ontology(GO): Combining GO Vocabularies With External Vocabularies. Genome Research, v12, p1982-1991.
  • Robert Stevens, Chris Wroe, Sean Bechhofer, Phillip Lord, Alan Rector and Carole Goble. (2002) Building ontologies in DAML + OIL. Comp Funct Genom, v4, p133–141.
  • Amarnath Gupta, Bertram Ludascher, Jeffrey S. Grethe, Maryann E. Martone. (2003) Towards a formalization of disease-specific ontologies for neuroinformatics. Neural Networks, v16, p1277-1292.
  • Jonathan Bard. (2005) Anatomics: the intersection of anatomy and bioinformatics. J. Anatomy, v206, p1-16.
  • Jonathan Bard, Seung Y Rhee and Michael Ashburner. (2005) An ontology for cell types. Genome Biology, v6, n2, pR21.
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>		 MouseBIRN Literature References of General Interest? : Literature References on Topics of General Interest to Mouse BIRN participants.


 <<O>>  Difference Topic MouseBIRNResources (r1.3 - 01 Jun 2005 - MouseBIRN)

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Ontology References

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Creating Complex Ontologies

The following papers provide excellent, concrete examples of ontological engineering in the biosciences. They each focus on a different aspect of how extended semantic formalisms can be used to represent complex and highly integrative scientific knowledge relevant to the biological questions being addressed by the Mouse BIRN Projects.
>
>

Onto-centric Views of Biological Knowledge: a few compelling examples

The following papers provide excellent, concrete examples of ontological engineering in the biosciences. They each focus on a different aspect of how extended semantic formalisms can be used to represent complex and highly integrative scientific knowledge relevant to the biological questions being addressed by the Mouse BIRN Projects. If one disregards for the present the issue of whether such complexity is achievable and/or useful at this stage in the evolution of Mouse BIRN, these papers prime value is in their cogent, logical deconstruction of biological examples specifically relevant to Mouse BIRN projects where onto-centric data management & access methods can provide significant added value.

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  • Amarnath Gupta, Bertram Ludascher, Jeffrey S. Grethe, Maryann E. Martone. (2003) Towards a formalization of disease-specific ontologies for neuroinformatics. Neural Networks, v16, p1277-1292.

  • David P. Hill, Judith A. Blake, Joel E. Richardson, and Martin Ringwald. (2002) Extension and Integration of the Gene Ontology(GO): Combining GO Vocabularies With External Vocabularies. Genome Research, v12, p1982-1991.
  • Robert Stevens, Chris Wroe, Sean Bechhofer, Phillip Lord, Alan Rector and Carole Goble. (2002) Building ontologies in DAML + OIL. Comp Funct Genom, v4, p133–141.
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  • Amarnath Gupta, Bertram Ludascher, Jeffrey S. Grethe, Maryann E. Martone. (2003) Towards a formalization of disease-specific ontologies for neuroinformatics. Neural Networks, v16, p1277-1292.
  • Jonathan Bard. (2005) Anatomics: the intersection of anatomy and bioinformatics. J. Anatomy, v206, p1-16.
  • Jonathan Bard, Seung Y Rhee and Michael Ashburner. (2005) An ontology for cell types. Genome Biology, v6, n2, pR21.


    •  <<O>>  Difference Topic MouseBIRNResources (r1.2 - 01 Jun 2005 - MouseBIRN)

    META TOPICPARENT WebHome

    Resources

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    Ontology References

    Creating Complex Ontologies

    The following papers provide excellent, concrete examples of ontological engineering in the biosciences. They each focus on a different aspect of how extended semantic formalisms can be used to represent complex and highly integrative scientific knowledge relevant to the biological questions being addressed by the Mouse BIRN Projects.
    • Amarnath Gupta, Bertram Ludascher, Jeffrey S. Grethe, Maryann E. Martone. (2003) Towards a formalization of disease-specific ontologies for neuroinformatics. Neural Networks, v16, p1277-1292.
    • David P. Hill, Judith A. Blake, Joel E. Richardson, and Martin Ringwald. (2002) Extension and Integration of the Gene Ontology(GO): Combining GO Vocabularies With External Vocabularies. Genome Research, v12, p1982-1991.
    • Robert Stevens, Chris Wroe, Sean Bechhofer, Phillip Lord, Alan Rector and Carole Goble. (2002) Building ontologies in DAML + OIL. Comp Funct Genom, v4, p133–141.

     <<O>>  Difference Topic MouseBIRNResources (r1.1 - 08 Mar 2005 - LindaCapetilloCunliffe)
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    Resources


    Topic: MouseBIRNResources . { View | Diffs | r1.19 | > | r1.18 | > | r1.17 | More }

    Revision r1.1 - 08 Mar 2005 - 22:11 - LindaCapetilloCunliffe
    Revision r1.19 - 10 Aug 2007 - 17:41 - JylBoline