Pathway

: Public Class

Created:	10/22/2008 2:50:52 PM
Modified:	3/25/2015 4:59:02 PM

Project:
Author:
Version:	1.0
Phase:	1.0
Status:
Complexity:	Easy
Difficulty:
Priority:
Multiplicity:
Advanced:
UUID:	{D521CBDF-8FFA-4187-8BD6-14A2BD8FB95E}
Appears In:	UML-Based Comprehensive BRIDG Model Diagram, View MB: Molecular Biology

DEFINITION: A set or series of interactions and processes, often forming a network, which biologists have found useful to group together for organizational, historic, biophysical, or other reasons. Comment Requested: In interest of re-using existing standards, should the above definition of Pathway be replaced by the following from the NLM - A series of actions among molecules in a cell that leads to a certain product or a change in a cell. Such a pathway can trigger the assembly of new molecules, such as a fat or protein. Pathways can also turn genes on and off, or spur a cell to move. [Source: http://www.genome.gov/27530687] EXAMPLE(S): Notch signaling pathway OTHER NAME(S): NOTE(S):

Attributes
Associations To
Associations From
Tagged Values

Attribute

Public ST
name

Details:

Alias:
Initial:
Stereotype:
Ordered:
Range:	Range:0 to 1
Transient:	False
Derived:	False
IsID:	False

Map:LSDAM=Pathway.type
Map:LSDAM=Pathway.name

Notes:

DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A non-unique textual identifier for the pathway.#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;Notch signaling pathway#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;

Public ST
description

Details:

Alias:
Initial:
Stereotype:
Ordered:
Range:	Range:0 to 1
Transient:	False
Derived:	False
IsID:	False

Map:LSDAM=Pathway.description

Notes:

DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;The textual summary or explanation of the pathway.#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;

Public SC
type

Details:

Alias:
Initial:
Stereotype:
Ordered:
Range:	Range:0 to 1
Transient:	False
Derived:	False
IsID:	False

Notes:

DEFINITION:#lt;br /#gt;#lt;/p#gt;#lt;p#gt;A generalized classification of the pathway.#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;EXAMPLE(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;metabolic pathway, signaling pathway#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;OTHER NAME(S):#lt;br /#gt;#lt;/p#gt;#lt;p#gt;#lt;br /#gt;#lt;/p#gt;#lt;p#gt;NOTE(S):#lt;br /#gt;#lt;/p#gt;

Element	Source Role	Target Role
Protein Class	Name: involvingPathway	Name: involvedProtein
Details: DESCRIPTION:<br /></p><p>Each Pathway might involve one or more Protein. Each Protein might be involved in one or more Pathway. <br /></p><p> <br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
BiologicEntityClassification Class	Name: includedPathway	Name: includingBiologicEntityClassification
Details: DESCRIPTION:<br /></p><p>Each Pathway might be included by one or more BiologicEntityClassification. Each BiologicEntityClassification might include one or more Pathway.<br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>
Gene Class	Name: involvingPathway	Name: involvedGene
Details: DESCRIPTION:<br /></p><p>Each Pathway might involve one or more Gene. Each Gene might be involved in one or more Pathway.<br /></p><p><br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>

Element	Source Role	Target Role
PathwayIdentifier Class	Name: identifyingPathwayIdentifier	Name: identifiedPathway
Details: DESCRIPTION:<br /></p><p>Each PathwayIdentifier always identifies one Pathway. Each Pathway might be identified by one or more PathwayIdentifier.<br /></p><p> <br /></p><p>DEFINITION:<br /></p><p><br /></p><p>EXAMPLE(S):<br /></p><p><br /></p><p>OTHER NAME(S):<br /></p><p><br /></p><p>NOTE(S):<br /></p>

Tag	Value
OWNER_REVIEWED	0
Details: