Panther ID:11559: Difference between revisions
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An error was encountered while uploading these annotations in Excel (.xls) format, so please click here to find the [[ACHE annotations]] in text format. | [[Category:Reference Genome]] | ||
An error was encountered while uploading these annotations in Excel (.xls) format, so please click here to find the [[ACHE annotations]] in text format. This is a plain text GAF file containing suggested annotations for the ACHE family of proteins (PTHR11559) produced by protein family annotators using the PANTHER method, July 2009. Note: Currently, the file has spaces instead of tabs. | |||
There are 2 types of annotations: | |||
*Up-propagation (no species listed): Annotations to hypothetical ancestral proteins showing a consensus parental GOID (column E) and the proteins on which these annotations are based (column H). | |||
*Down-propagation (species listed, following the corresponding up-propagation): Annotations to real proteins based on their descent from the hypothetical ancestors (column H). | |||
'''Up-propagations: 35 | |||
'''Down-propagations: 1675 | |||
'''Unique GO terms: 33 | |||
'''Organisms represented: 10 (ARATH, CAEEL, CHICK, DANRE, DICDI, DROME, HUMAN, MOUSE, RAT, SCHPO) | |||
General observation: There are a lot of annotations to "cytoplasm" (GO:0005737) and its children, but also to other non-cytoplasmic components of the cell. In this situation, I don't feel comfortable propagating "cytoplasm" annotations except in narrow circumstances, such as single clades. | General observation: There are a lot of annotations to "cytoplasm" (GO:0005737) and its children, but also to other non-cytoplasmic components of the cell. In this situation, I don't feel comfortable propagating "cytoplasm" annotations except in narrow circumstances, such as single clades. | ||
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Problems detected and fixed through annotation of this family: | Problems detected and fixed through annotation of this family: | ||
* A link was added to make "ER lumen" (GO:0005788) an "ER part" (GO:0044432). (SF item 2828065) [https://sourceforge.net/tracker/?func=detail&aid=2828065&group_id=36855&atid=440764] | * A link was added to make "ER lumen" (GO:0005788) an "ER part" (GO:0044432). (SF item 2828065) [https://sourceforge.net/tracker/?func=detail&aid=2828065&group_id=36855&atid=440764] | ||
* | * Several terms were moved from children of "response to chemical stimulus" (GO:0042221) to its child "response to organic substance" (GO:0010033) (SF item 2830403) [https://sourceforge.net/tracker/?func=detail&aid=2830403&group_id=36855&atid=440764]. | ||
'''Note''': Since SF item 2830403 was accepted, either or both of the sets of annotations to "response to chemical stimulus" (GO:0042221) perhaps should instead be annotated to "response to organic substance" (GO:0010033). | |||
Latest revision as of 15:49, 10 July 2014
An error was encountered while uploading these annotations in Excel (.xls) format, so please click here to find the ACHE annotations in text format. This is a plain text GAF file containing suggested annotations for the ACHE family of proteins (PTHR11559) produced by protein family annotators using the PANTHER method, July 2009. Note: Currently, the file has spaces instead of tabs.
There are 2 types of annotations:
- Up-propagation (no species listed): Annotations to hypothetical ancestral proteins showing a consensus parental GOID (column E) and the proteins on which these annotations are based (column H).
- Down-propagation (species listed, following the corresponding up-propagation): Annotations to real proteins based on their descent from the hypothetical ancestors (column H).
Up-propagations: 35
Down-propagations: 1675
Unique GO terms: 33
Organisms represented: 10 (ARATH, CAEEL, CHICK, DANRE, DICDI, DROME, HUMAN, MOUSE, RAT, SCHPO)
General observation: There are a lot of annotations to "cytoplasm" (GO:0005737) and its children, but also to other non-cytoplasmic components of the cell. In this situation, I don't feel comfortable propagating "cytoplasm" annotations except in narrow circumstances, such as single clades.
Problems detected and fixed through annotation of this family:
- A link was added to make "ER lumen" (GO:0005788) an "ER part" (GO:0044432). (SF item 2828065) [1]
- Several terms were moved from children of "response to chemical stimulus" (GO:0042221) to its child "response to organic substance" (GO:0010033) (SF item 2830403) [2].
Note: Since SF item 2830403 was accepted, either or both of the sets of annotations to "response to chemical stimulus" (GO:0042221) perhaps should instead be annotated to "response to organic substance" (GO:0010033).