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From: <mco...@us...> - 2009-03-02 19:01:20
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Revision: 1538
http://obi.svn.sourceforge.net/obi/?rev=1538&view=rev
Author: mcourtot
Date: 2009-03-02 19:01:11 +0000 (Mon, 02 Mar 2009)
Log Message:
-----------
justify
Modified Paths:
--------------
trunk/docs/papers/MIREOT_ICBO2009/MIREOT.doc
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From: <mco...@us...> - 2009-03-02 18:57:50
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Revision: 1537
http://obi.svn.sourceforge.net/obi/?rev=1537&view=rev
Author: mcourtot
Date: 2009-03-02 18:57:45 +0000 (Mon, 02 Mar 2009)
Log Message:
-----------
typo
Modified Paths:
--------------
trunk/docs/papers/MIREOT_ICBO2009/MIREOT.doc
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From: <mco...@us...> - 2009-03-02 18:54:48
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Revision: 1536
http://obi.svn.sourceforge.net/obi/?rev=1536&view=rev
Author: mcourtot
Date: 2009-03-02 18:54:43 +0000 (Mon, 02 Mar 2009)
Log Message:
-----------
added doc version
Added Paths:
-----------
trunk/docs/papers/MIREOT_ICBO2009/MIREOT.doc
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From: <mco...@us...> - 2009-02-28 22:05:57
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Revision: 1535
http://obi.svn.sourceforge.net/obi/?rev=1535&view=rev
Author: mcourtot
Date: 2009-02-28 22:05:43 +0000 (Sat, 28 Feb 2009)
Log Message:
-----------
- moved restrictions on OBI_0200006 biexponential transformation and OBI_0200109b transformation from DigitalEntity file to DataTransformation file
- added 2. data representational model
subclass of: information entity about a realizable
definition: data representational model is an information content entity of the relationships between data items.
A data representational model is encoded in a data format specification such as for cytoscape or biopax.
Examples of usage: gene regulatory graph model, phylogenetic tree, protein interaction network.
synonym: data structure, data structure specification
definition source :GROUP:OBI" with an editor note "2009-xx-xx: work on this term has been finalized during the OBI workshop winter 2009"
3. study result
subclass of: information content entity
definition: Study Result is an information content entity that is a specified data output of a study.
definition source :GROUP:OBI" with an editor note "2009-xx-xx: work on this term has been finalized during the OBI workshop winter 2009"
Modified Paths:
--------------
trunk/src/ontology/branches/DataTransformation.owl
trunk/src/ontology/branches/DigitalEntityPlus.owl
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From: <mco...@us...> - 2009-02-28 21:47:55
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Revision: 1534
http://obi.svn.sourceforge.net/obi/?rev=1534&view=rev
Author: mcourtot
Date: 2009-02-28 21:47:45 +0000 (Sat, 28 Feb 2009)
Log Message:
-----------
work on hypothesis
1. hypothesis # currently in OBI as a Role (to be removed from Role)
subclass of: information content entity
definition: hypothesis is an information content entity that is an assertion which is intended to be tested.
Example of usage:Tamoxifen cures cancer; Gene A regulates pathway B. Investigation has objective (hypothesis testing objective) which has part hypothesis
editor note: falsifiable versus testable
definition source :GROUP:OBI" with an editor note "2009-xx-xx: work on this term has been finalized during the OBI workshop winter 2009"
Modified Paths:
--------------
trunk/src/ontology/branches/DigitalEntityPlus.owl
trunk/src/ontology/branches/Role.owl
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From: <bjo...@us...> - 2009-02-28 03:54:49
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Revision: 1533
http://obi.svn.sourceforge.net/obi/?rev=1533&view=rev
Author: bjoernpeters
Date: 2009-02-28 03:54:48 +0000 (Sat, 28 Feb 2009)
Log Message:
-----------
Completed first pass of adding 'obvious' objectives to all processes.
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <mco...@us...> - 2009-02-28 02:50:10
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Revision: 1532
http://obi.svn.sourceforge.net/obi/?rev=1532&view=rev
Author: mcourtot
Date: 2009-02-28 02:50:09 +0000 (Sat, 28 Feb 2009)
Log Message:
-----------
nice typo catch from Trish in the OBI reference
Modified Paths:
--------------
trunk/docs/papers/MIREOT_ICBO2009/20090218-RefWorks.bib
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From: <mco...@us...> - 2009-02-28 02:45:20
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Revision: 1531
http://obi.svn.sourceforge.net/obi/?rev=1531&view=rev
Author: mcourtot
Date: 2009-02-28 02:45:19 +0000 (Sat, 28 Feb 2009)
Log Message:
-----------
added Jie Zheng to list of OBI creators
Modified Paths:
--------------
trunk/src/ontology/branches/obi.owl.template
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From: <mco...@us...> - 2009-02-28 02:39:54
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Revision: 1530
http://obi.svn.sourceforge.net/obi/?rev=1530&view=rev
Author: mcourtot
Date: 2009-02-28 02:39:52 +0000 (Sat, 28 Feb 2009)
Log Message:
-----------
updated consortium members list
Modified Paths:
--------------
trunk/docs/papers/MIREOT_ICBO2009/mireot.log
trunk/docs/papers/MIREOT_ICBO2009/mireot.pdf
trunk/docs/papers/MIREOT_ICBO2009/mireot.tex
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From: <mco...@us...> - 2009-02-28 02:30:20
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Revision: 1529
http://obi.svn.sourceforge.net/obi/?rev=1529&view=rev
Author: mcourtot
Date: 2009-02-28 02:30:16 +0000 (Sat, 28 Feb 2009)
Log Message:
-----------
created directory for mireot icbo paper
Added Paths:
-----------
trunk/docs/papers/MIREOT_ICBO2009/
trunk/docs/papers/MIREOT_ICBO2009/20090218-RefWorks.bib
trunk/docs/papers/MIREOT_ICBO2009/elsart-num-sort.bst
trunk/docs/papers/MIREOT_ICBO2009/elsart.cls
trunk/docs/papers/MIREOT_ICBO2009/elsart3p.cls
trunk/docs/papers/MIREOT_ICBO2009/figs/
trunk/docs/papers/MIREOT_ICBO2009/figs/cell.png
trunk/docs/papers/MIREOT_ICBO2009/figs/cellExternal.txt
trunk/docs/papers/MIREOT_ICBO2009/figs/mechanism.png
trunk/docs/papers/MIREOT_ICBO2009/figs/ncbi.png
trunk/docs/papers/MIREOT_ICBO2009/figs/sparql.txt
trunk/docs/papers/MIREOT_ICBO2009/mireot.aux
trunk/docs/papers/MIREOT_ICBO2009/mireot.bbl
trunk/docs/papers/MIREOT_ICBO2009/mireot.blg
trunk/docs/papers/MIREOT_ICBO2009/mireot.log
trunk/docs/papers/MIREOT_ICBO2009/mireot.pdf
trunk/docs/papers/MIREOT_ICBO2009/mireot.tex
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From: <bjo...@us...> - 2009-02-27 20:45:54
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Revision: 1528
http://obi.svn.sourceforge.net/obi/?rev=1528&view=rev
Author: bjoernpeters
Date: 2009-02-27 20:45:53 +0000 (Fri, 27 Feb 2009)
Log Message:
-----------
further addition of objectives to non-core processes
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <bjo...@us...> - 2009-02-27 19:23:46
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Revision: 1527
http://obi.svn.sourceforge.net/obi/?rev=1527&view=rev
Author: bjoernpeters
Date: 2009-02-27 19:23:37 +0000 (Fri, 27 Feb 2009)
Log Message:
-----------
Further cleanup of non-core process terms: Added objectives.
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <bjo...@us...> - 2009-02-27 17:40:04
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Revision: 1526
http://obi.svn.sourceforge.net/obi/?rev=1526&view=rev
Author: bjoernpeters
Date: 2009-02-27 17:39:55 +0000 (Fri, 27 Feb 2009)
Log Message:
-----------
started clean up work on non-core process terms; converted the obsoleted 'utilize device' relations where set; updated objectives
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <jam...@us...> - 2009-02-27 09:15:06
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Revision: 1525
http://obi.svn.sourceforge.net/obi/?rev=1525&view=rev
Author: jamesmalone
Date: 2009-02-27 09:15:03 +0000 (Fri, 27 Feb 2009)
Log Message:
-----------
changed the label from 'artifact object' to 'processed material'
Modified Paths:
--------------
trunk/src/ontology/branches/InstrumentAndPart.owl
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From: <bjo...@us...> - 2009-02-26 22:59:15
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Revision: 1524
http://obi.svn.sourceforge.net/obi/?rev=1524&view=rev
Author: bjoernpeters
Date: 2009-02-26 22:59:10 +0000 (Thu, 26 Feb 2009)
Log Message:
-----------
More IEDB use case terms, including tetramer staining and ICCS assays
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <bjo...@us...> - 2009-02-26 22:01:40
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Revision: 1523
http://obi.svn.sourceforge.net/obi/?rev=1523&view=rev
Author: bjoernpeters
Date: 2009-02-26 22:01:29 +0000 (Thu, 26 Feb 2009)
Log Message:
-----------
More IEDB terms: chromium release assay updated
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <bjo...@us...> - 2009-02-26 21:47:05
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Revision: 1522
http://obi.svn.sourceforge.net/obi/?rev=1522&view=rev
Author: bjoernpeters
Date: 2009-02-26 21:46:59 +0000 (Thu, 26 Feb 2009)
Log Message:
-----------
Added assay terms for IEDB use case (ELISPOT, ELISA, brdu / thymidine incorporation)
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <bjo...@us...> - 2009-02-26 19:02:23
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Revision: 1521
http://obi.svn.sourceforge.net/obi/?rev=1521&view=rev
Author: bjoernpeters
Date: 2009-02-26 19:02:19 +0000 (Thu, 26 Feb 2009)
Log Message:
-----------
PlanAndPlannedProcess call. Finished going through core terms, including dependent terms. Updated metadata + curation statuses for all.
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <mco...@us...> - 2009-02-26 18:51:42
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Revision: 1520
http://obi.svn.sourceforge.net/obi/?rev=1520&view=rev
Author: mcourtot
Date: 2009-02-26 18:51:38 +0000 (Thu, 26 Feb 2009)
Log Message:
-----------
cleaned up extra definitions of classes
Modified Paths:
--------------
trunk/src/ontology/branches/Relations.owl
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From: <jam...@us...> - 2009-02-25 17:41:47
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Revision: 1519
http://obi.svn.sourceforge.net/obi/?rev=1519&view=rev
Author: jamesmalone
Date: 2009-02-25 17:41:38 +0000 (Wed, 25 Feb 2009)
Log Message:
-----------
definition for spread objective, stat hypothesis test and some extra axioms to make this reason properly.
Modified Paths:
--------------
trunk/src/ontology/branches/DataTransformation.owl
trunk/src/ontology/branches/DigitalEntityPlus.owl
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From: <jam...@us...> - 2009-02-25 14:36:04
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Revision: 1518
http://obi.svn.sourceforge.net/obi/?rev=1518&view=rev
Author: jamesmalone
Date: 2009-02-25 14:35:58 +0000 (Wed, 25 Feb 2009)
Log Message:
-----------
addition of hyp testing objective
Modified Paths:
--------------
trunk/src/ontology/branches/PlanAndPlannedProcess.owl
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From: <jam...@us...> - 2009-02-24 17:50:36
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Revision: 1517
http://obi.svn.sourceforge.net/obi/?rev=1517&view=rev
Author: jamesmalone
Date: 2009-02-24 17:50:31 +0000 (Tue, 24 Feb 2009)
Log Message:
-----------
addition of diff expression analysis and descriptive statistical calculation data transformation (and associated data set). (and fixed the imports added)
Modified Paths:
--------------
trunk/src/ontology/branches/DataTransformation.owl
trunk/src/ontology/branches/DigitalEntityPlus.owl
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From: <bjo...@us...> - 2009-02-20 17:39:37
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Revision: 1516
http://obi.svn.sourceforge.net/obi/?rev=1516&view=rev
Author: bjoernpeters
Date: 2009-02-20 17:39:32 +0000 (Fri, 20 Feb 2009)
Log Message:
-----------
Biomat call. Work on the entity of organismal origin definition, and its subclasses. This is still work in progress to be continued in the next call.
Modified Paths:
--------------
trunk/src/ontology/branches/Biomaterial.owl
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From: <jen...@us...> - 2009-02-20 13:24:59
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Revision: 1515
http://obi.svn.sourceforge.net/obi/?rev=1515&view=rev
Author: jenfostel
Date: 2009-02-20 13:24:52 +0000 (Fri, 20 Feb 2009)
Log Message:
-----------
added definitions, and moved protocol participant to defined class
Modified Paths:
--------------
trunk/src/ontology/branches/Role.owl
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From: <mco...@us...> - 2009-02-19 21:18:53
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Revision: 1514
http://obi.svn.sourceforge.net/obi/?rev=1514&view=rev
Author: mcourtot
Date: 2009-02-19 21:18:47 +0000 (Thu, 19 Feb 2009)
Log Message:
-----------
added missing declaration of ObsoleteProperty
Modified Paths:
--------------
trunk/src/ontology/branches/obi.obo
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