Annotation Extension Relation:results in acquisition of features of: Difference between revisions

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==Definition==
==Definition==


Identifies the cell, tissue, cellular component or anatomical entity in which the molecular function or biological process occurs.
The relationship that links a specified entity with the process that results in an unspecified entity acquiring the features and characteristics of the specified entity.


==Child terms==
==Child terms==
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=== Enhancing Molecular Function and Biological Process Annotations ===
=== Enhancing Molecular Function and Biological Process Annotations ===


==== Specifying the cell or tissue type in which a process happens ====
==== Specifying the cell or tissue type which acquires new features following a specific process or function ====


'''1. Differentiation of a particular cell type:'''
'''1. Differentiation of a particular cell type:'''
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| PMID:12186855
| PMID:12186855
| IDA
| IDA
| occurs_in(CL:0000540 <span style="color:green">neuron</span>)
| results in acquisition of features of (CL:0000540 <span style="color:green">neuron</span>)


|}
|}
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| PMID:10072545
| PMID:10072545
| IDA
| IDA
| occurs_in(CL:0000771 <span style="color:green">eosinophil</span>) 'pipe' occurs_in(CL:0000576 <span style="color:green">monocyte</span>)
| results in acquisition of features of(CL:0000771 <span style="color:green">eosinophil</span>) 'pipe' results in acquisition of features of(CL:0000576 <span style="color:green">monocyte</span>)
|}
|}


Note the use of the pipe to create a multiple annotation extensions. The interpretation of this annotation is MCP4 is involved in the regulation of eosinophil cell shape and monocyte cell shape.  
Note the use of the pipe to create a multiple annotation extensions. The interpretation of this annotation is MCP4 is involved in the regulation of eosinophil cell shape and monocyte cell shape.


More examples of this usage of occurs_in can be found on the documentation page for [[Column_16:_Cell_Type]]
== Using examples (from above) to demonstrate [[Folding_and_Unfolding]] using the relationship  results_in_acquisition_of_features_of ==


 
==== Specifying the cell or tissue type which acquires new features following a specific process ====
== Using examples (from above) to demonstrate [[Folding_and_Unfolding]] using the relationship occurs_in ==
 
==== Specifying the cell or tissue type in which a process happens ====


'''1. Differentiation of a particular cell type:'''
'''1. Differentiation of a particular cell type:'''
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| PMID:12186855
| PMID:12186855
| IDA
| IDA
| occurs_in(CL:0000540 <span style="color:green">neuron</span>)
| results_in_acquisition_of_features_of(CL:0000540 <span style="color:green">neuron</span>)
|
|
|-
|-
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|is_a GO:0030154 <span style="color:red"> cell differentiation</span>
|is_a GO:0030154 <span style="color:red"> cell differentiation</span>
|}
|}
 
'''OWL class expression:''' GO:0005515 <span style="color:red">cell differentiation</span> results_in_acquisition_of_features_of SOME CL:0000540 <span style="color:red">neuron</span>


'''2. A protein's involvement in changing a particular cell's shape:'''
'''2. A protein's involvement in changing a particular cell's shape:'''
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| PMID:10072545
| PMID:10072545
| IDA
| IDA
| occurs_in(CL:0000771 <span style="color:green">eosinophil</span>) 'pipe' occurs_in(CL:0000576 <span style="color:green">monocyte</span>)
| results_in_acquisition_of_features_of(CL:0000771 <span style="color:green">eosinophil</span>) 'pipe' occurs_in(CL:0000576 <span style="color:green">monocyte</span>)
|
|
|-
|-
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|}
|}


'''OWL class expression:''' GO:0008360 <span style="color:red">regulation of cell shape</span> results_in_acquisition_of_features_of SOME CL:0000771 <span style="color:red">eosinophil</span> AND occurs_in SOME CL:0000576 <span style="color:red">monocyte</span>


----
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Latest revision as of 07:19, 5 March 2015

Back to Annotation usage examples for each annotation extension relation

Definition

The relationship that links a specified entity with the process that results in an unspecified entity acquiring the features and characteristics of the specified entity.

Child terms

  • None.

Scope of use

Domain

BFO:0000007 ! process (Biological Process or Molecular Function)

Range

ENTITY_UNION:0000006 ! entity

Annotation Extension Usage Examples

Enhancing Molecular Function and Biological Process Annotations

Specifying the cell or tissue type which acquires new features following a specific process or function

1. Differentiation of a particular cell type:

Statement from paper:

REN promoted neuronal differentiation of neural committed progenitor cells of CNS (ST14A cells, Fig. 7 A) or PNS (N2a cells, Fig. 7 B) origin.


Gene Name (col 2) GO ID (col 5) Reference (col 6) Evidence (col 7) Annotation Extension (col 16)
MGI:2448712 Ren GO:0030154 cell differentiation PMID:12186855 IDA results in acquisition of features of (CL:0000540 neuron)


2. A protein's involvement in changing a particular cell's shape:

Statement from paper:

Eotaxin, eotaxin-2, and MCP-4 were the most potent inducers of eosinophil shape change, followed by MCP-3, while MCP-1 and IL-8 were inactive. MCP-4 alone showed a bell-shaped eosinophil dose-response curve over the dose range tested. Eotaxin and eotaxin-2 were inactive on monocytes (Fig. 2⇓B), whereas MCP-1, -3, and -4 all induced monocyte shape change, with MCP-3 exhibiting the highest potency.

Gene Name (col 2) GO ID (col 5) Reference (col 6) Evidence (col 7) Annotation Extension (col 16)
Q99616 MCP4 GO:0008360 regulation of cell shape PMID:10072545 IDA results in acquisition of features of(CL:0000771 eosinophil) 'pipe' results in acquisition of features of(CL:0000576 monocyte)

Note the use of the pipe to create a multiple annotation extensions. The interpretation of this annotation is MCP4 is involved in the regulation of eosinophil cell shape and monocyte cell shape.

Using examples (from above) to demonstrate Folding_and_Unfolding using the relationship results_in_acquisition_of_features_of

Specifying the cell or tissue type which acquires new features following a specific process

1. Differentiation of a particular cell type:

Folded/unfolded Gene Name (col 2) GO ID (col 5) Reference (col 6) Evidence (col 7) Annotation Extension (col 16) Parent terms of new folded GO term
Unfolded MGI:2448712 Ren GO:0030154 cell differentiation PMID:12186855 IDA results_in_acquisition_of_features_of(CL:0000540 neuron)
Folded MGI:2448712 Ren New GO ID neuron cell differentiation PMID:12186855 IDA is_a GO:0030154 cell differentiation

OWL class expression: GO:0005515 cell differentiation results_in_acquisition_of_features_of SOME CL:0000540 neuron

2. A protein's involvement in changing a particular cell's shape:

Note the use of the pipe to create a multiple annotation extensions.

Folded/unfolded Gene Name (col 2) GO ID (col 5) Reference (col 6) Evidence (col 7) Annotation Extension (col 16) Parent terms of new folded GO term
Unfolded Q99616 MCP4 GO:0008360 regulation of cell shape PMID:10072545 IDA results_in_acquisition_of_features_of(CL:0000771 eosinophil) 'pipe' occurs_in(CL:0000576 monocyte)
Folded Q99616 MCP4 New GO ID regulation of eosinophil cell shape PMID:10072545 IDA is_a GO:0008360 regulation of cell shape
Folded Q99616 MCP4 New GO ID regulation of monocyte cell shape PMID:10072545 IDA is_a GO:0008360 regulation of cell shape

OWL class expression: GO:0008360 regulation of cell shape results_in_acquisition_of_features_of SOME CL:0000771 eosinophil AND occurs_in SOME CL:0000576 monocyte


Back to Annotation usage examples for each annotation extension relation