Difference between revisions of "AmiGO Manual: RG Summary"

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(New page: = Overview = Gene Product Details page provides information about the individual gene product search result. This includes gene product information, with a link to the database providing ...)
 
 
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= Overview =
 
= Overview =
  
Gene Product Details page provides information about the individual gene product search result. This includes gene product information, with a link to the database providing the data and access to the protein sequence, and all of the Gene Ontology annotations (including GO term, reference, and evidence code) for that gene or gene product.
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The goal of the Reference Genome Project is to provide high-quality functional annotations for gene products from twelve diverse, well-characterized model organisms, so that those annotations may be used to effectively contribute towards the automatic annotation efforts of other genomes. More information can be found at the GO [http://www.geneontology.org/GO.refgenome.shtml Reference Genome] site.
  
= Information =
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This page is a list of all homolog sets currently in the GO database. Each gene family line contains an entry for each of the twelve Reference Genome species; and for each species, there is a list of the gene products for that species that have an identified homolog and a key indicating the best available evidence for that annotation (see below).
  
The information section displays the following data associated with the gene or gene product:
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In addition, each gene family line contains both a static and interactive graphical representation of the gene products in the homolog set. For more information about the interactive graphical view, including requirements, please see the AmiGO [http://wiki.geneontology.org/index.php/AmiGO_Manual:_RG_Graphical_View documentation].
  
== Name ==
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= Key =
  
The common name of the gene or gene product (eg. nuclease, ATPase).
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== EXP  (experimental) label==
  
== Type ==
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Indicates that there is at least one annotation to a term that has direct experimental evidence. There may be other non-experimental annotations as well.
  
The feature or sequence type of the gene or gene product. Typically a gene or protein.  
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== ISS  label==
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Indicates that there are no annotations based on direct experimental data, and at least one annotation by sequence similarity (ISS). There may be other non-experimental and non-ISS annotations as well.
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== OTHER label==
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Annotations that are neither experimental nor ISS or one of its sub-classes. Typically TAS or NAS.
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== (blank) entry ==
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Indicates that there is currently no homolog for that species.
  
  
 
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Latest revision as of 16:50, 27 March 2009

Overview

The goal of the Reference Genome Project is to provide high-quality functional annotations for gene products from twelve diverse, well-characterized model organisms, so that those annotations may be used to effectively contribute towards the automatic annotation efforts of other genomes. More information can be found at the GO Reference Genome site.

This page is a list of all homolog sets currently in the GO database. Each gene family line contains an entry for each of the twelve Reference Genome species; and for each species, there is a list of the gene products for that species that have an identified homolog and a key indicating the best available evidence for that annotation (see below).

In addition, each gene family line contains both a static and interactive graphical representation of the gene products in the homolog set. For more information about the interactive graphical view, including requirements, please see the AmiGO documentation.

Key

EXP (experimental) label

Indicates that there is at least one annotation to a term that has direct experimental evidence. There may be other non-experimental annotations as well.

ISS label

Indicates that there are no annotations based on direct experimental data, and at least one annotation by sequence similarity (ISS). There may be other non-experimental and non-ISS annotations as well.

OTHER label

Annotations that are neither experimental nor ISS or one of its sub-classes. Typically TAS or NAS.

(blank) entry

Indicates that there is currently no homolog for that species.