Merge pull request #54 from combine-org/40-associated-standards

40 associated standards

Author: cjmyers

content/authors/BioModels.net-qualifiers/_index.md

@@ -0,0 +1,21 @@
+---
+# Display name
+title: BioModels.net qualifiers
+
+# Username (this should match the folder name)
+authors:
+- BioModels.net qualifiers
+
+
+# Is this the primary user of the site?
+superuser: false
+
+# Organizational groups that you belong to (for People widget)
+#   Set this to `[]` or comment out if you are not using People widget.
+user_groups:
+- Associated Standards
+
+interests:
+- <a rel="nofollow" class="external text" href="http://co.mbine.org/specifications/qualifiers"> BioModels.net qualifiers </a> are standardized relationships (predicates) that specify the relation between an object represented in a description language and the external resource used to annotate it. The relationship is rarely one-to-one, and the information content of an annotation is greatly increased if one knows what it represents, rather than only know it is "related to" the model component.
+
+---

content/authors/COMBINE-Archive-Metadata/_index.md

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+---
+# Display name
+title: COMBINE Archive Metadata
+
+# Username (this should match the folder name)
+authors:
+- COMBINE Archive Metadata
+
+
+# Is this the primary user of the site?
+superuser: false
+
+
+# Organizational groups that you belong to (for People widget)
+#   Set this to `[]` or comment out if you are not using People widget.
+user_groups:
+- Associated Standards
+
+interests:
+- <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/omex-metadata">COMBINE archive metadata</a> provides a harmonized, community-driven approach for annotating a variety of standardized model and data representation formats within a COMBINE archive.
+
+---

content/authors/COMBINE-Archive-Metadata/avatar.png

@@ -10,89 +10,13 @@ authors:
 # Is this the primary user of the site?
 superuser: false
 
-# Role/position
-
-
-# Organizations/Affiliations
-organizations:
-- name: University of Colorado Boulder
-  url: ""
-
-#Order to show in compared to other authors when using people section
-#Use 1 for PI, 100 for Current Postdocs, 200 for current phds, 300 for current masters, 400 for current undergrads, 800 for alum postdocs, 810 for alum phds, 820 for alum masters, and 830 for alum undergrads, 900 for tools, 1000 for projects, 900 for tools, 1000 for projects
-weight: 1
-
-#Utah or CU
-university: CU
-
-# Short bio (displayed in user profile at end of posts)
-# bio: My research interests include distributed robotics, mobile computing and programmable matter.
-
-interests:
-- A <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/omex">COMBINE archive</a> is a single file bundling the various documents necessary for a modelling and simulation project, and all relevant information. The archive is encoded using the <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/omex">Open Modeling EXchange format (OMEX)</a>.
-
-projects:
-- <a href="https://synbioks.github.io/">SBKS</a>
-- <a href="/author/sbol-canvas/">SBOLCanvas</a>
-
-
-department:
-- Electrical, Computer, and Energy Engineering
-
-education:
-  courses:
-  - course: PhD in Electrical Engineering
-    institution: Stanford University
-    year: 1995
-  - course: MS in Electrical Engineering
-    institution: Stanford University
-    year: 1993
-  - course: BS in Electrical Engineering / History
-    institution: California Institute of Technology
-    year: 1991
-
-# Social/Academic Networking
-# For available icons, see: https://sourcethemes.com/academic/docs/page-builder/#icons
-#   For an email link, use "fas" icon pack, "envelope" icon, and a link in the
-#   form "mailto:[email protected]" or "#contact" for contact widget.
-social:
-- icon: star
-  icon_pack: fas
-  link: http://www.biopax.org/
-- icon: envelope
-  icon_pack: fas
-  link: 'mailto:[email protected]'
-- icon: file
-  icon_pack: fas
-  link: http://www.biopax.org/release/biopax-level3-documentation.pdf
-- icon: quote-left
-  icon_pack: fas
-  link: http://identifiers.org/pubmed/20829833
-- icon: github
-  icon_pack: fab
-  link: https://github.com/BioPAX
-
-# Link to a PDF of your resume/CV from the About widget.
-# To enable, copy your resume/CV to `static/files/cv.pdf` and uncomment the lines below.
-# - icon: cv
-#   icon_pack: ai
-#   link: files/cv.pdf
-
-# Enter email to display Gravatar (if Gravatar enabled in Config)
-email: ""
 
 # Organizational groups that you belong to (for People widget)
 #   Set this to `[]` or comment out if you are not using People widget.
 user_groups:
 - Associated Standards
 
-# # #any user groups to display on the page
-# display_groups:
-# - SynBioHub Tool
-# - SBOL Explorer Tool
-# - SBOL Canvas Tool
-# - SBOL Designer Tool
-# - SynBioHub Plugins Tool
----
+interests:
+- A <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/omex">COMBINE archive</a> is a single file bundling the various documents necessary for a modelling and simulation project, and all relevant information. The archive is encoded using the <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/omex">Open Modeling EXchange format (OMEX)</a>.
 
-BioPAX is a standard language that aims to enable integration, exchange and analysis of biological pathway data. It is expressed in <a rel="nofollow" class="external text" href="http://www.w3.org/2004/OWL/">OWL</a>. The last specification is <a rel="nofollow" class="external text" href="http://www.biopax.org/release/biopax-level3-documentation.pdf">BioPAX Level 3</a>. BioPAX development is <a rel="nofollow" class="external text" href="http://www.biopax.org/mediawiki/index.php/BioPAX_Governance">coordinated</a> by an elected editorial board and a Scientific Advisory Board. BioPAX is supported by <a rel="nofollow" class="external text" href="http://biopax.sourceforge.net/mediawiki/index.php?title=Category:SOFTWARE">many pathway database or processing tools</a>. An API is available to help implementing support: <a rel="nofollow" class="external text" href="http://www.biopax.org/mediawiki/index.php/Paxtools">Paxtools</a>
+---

content/authors/COMBINE-Archive/_index.md

@@ -0,0 +1,24 @@
+---
+# Display name
+title: Identifiers.org
+
+# Username (this should match the folder name)
+authors:
+- Identifiers.org
+
+
+# Is this the primary user of the site?
+superuser: false
+
+
+# Organizational groups that you belong to (for People widget)
+#   Set this to `[]` or comment out if you are not using People widget.
+user_groups:
+- Associated Standards
+
+interests:
+- <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/miriam_uris"> MIRIAM Unique Resource Identifiers</a> allow one to uniquely and unambiguously identify an entity in a stable and perennial manner. <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/miriam#MIRIAM_Registry_and_Identifiers.org"> MIRIAM Registry</a> is a set of services and resources that provide support for generating, interpreting and resolving MIRIAM URIs. Through the <a rel="nofollow" class="external text" href="http://identifiers.org/"> Identifiers.org </a> technology, MIRIAM URIs can be dereferenced in a flexible and robust way. 
+
+- MIRIAM URIs are used by SBML, SED-ML, CellML and BioPAX controlled annotation schemes.
+
+---

content/authors/Identifiers.org/_index.md

@@ -0,0 +1,24 @@
+---
+# Display name
+title: KiSAO
+
+# Username (this should match the folder name)
+authors:
+- KiSAO
+
+
+# Is this the primary user of the site?
+superuser: false
+
+
+# Organizational groups that you belong to (for People widget)
+#   Set this to `[]` or comment out if you are not using People widget.
+user_groups:
+- Associated Standards
+
+interests:
+- The <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/kisao"> Kinetic Simulation Algorithm Ontology (KiSAO) </a> describes existing algorithms and their inter-relationships through their characteristics and parameters. 
+
+- KiSAO is used in SED-ML, which allows simulation software to automatically choose the best algorithm available to perform a simulation and unambiguously refer to it. 
+
+---

content/authors/Identifiers.org/avatar.png

@@ -0,0 +1,26 @@
+---
+# Display name
+title: SBO
+
+# Username (this should match the folder name)
+authors:
+- SBO
+
+
+# Is this the primary user of the site?
+superuser: false
+
+# Organizational groups that you belong to (for People widget)
+#   Set this to `[]` or comment out if you are not using People widget.
+user_groups:
+- Associated Standards
+
+interests:
+
+- The <a rel="nofollow" class="external text" href="http://co.mbine.org/standards/sbo"> Systems Biology Ontology (SBO) </a> is a set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in particular in computational modeling. 
+
+- Each element of an SBML file carries an optional attribute sboTerm which value must be a term from SBO. 
+
+- Each symbol of SBGN is associated with an SBO term.
+
+---