Difference between revisions of "WS247 Models.wrm"
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== For Discussion - Nomenclature_history tag== | == For Discussion - Nomenclature_history tag== | ||
− | Addition of a | + | Addition of a Nomenclature_history tag as part of the Structured_description grouping tag. |
+ | |||
+ | This tag would provide some additional textual information about gene names and changes in order to clarify better some of the naming issues. | ||
+ | |||
+ | Entries could be very simple: | ||
+ | |||
+ | umps-1 was originally identified in screens for radiation-sensitive mutant animals and thus originally named rad-6. | ||
+ | |||
+ | Or more detailed: | ||
+ | |||
+ | gene x was originally named 'xxx-1'. This gene name is now retired because of .... and the current name assigned based on sequence similarity to the human ortholog. |
Revision as of 16:27, 13 November 2014
Contents
GO_annotation class - Kimberly
Introduction of this new class to capture Gene::GO associateions and additional meta data associated with a curation event.
Feature - M.A.
Can we remove Annotation and Defined_by_author
Tag additions for connecting ?Picture to ?WBProcess (Topic)
Add:
?Picture Depict WBProcess ?WBProcess XREF Picture
and change:
?WBProcess Picture ?Picture #Evidence
to:
?WBProcess Picture ?Picture XREF WBProcess #Evidence
Unique -> UNIQUE housekeeping change
Corresponding_transgene Unique ?Transgene XREF Corresponding_variation
Expr_patter - Daniela
I would like to add
Microarray_results ?Microarray_results XREF Expr_Pattern
to the Expr_pattern class
between Expression_cluster ?Expression_cluster XREF Expr_pattern and Pattern ?Text
this will allow to map graphs for expression for remanei, briggsae and japonica to 'gene' through already existing probe-to-genome mappings
Expr_patter 2 - Daniela
I would also like to add a Species tag in the Expr_pattern class
Species UNIQUE ?Species
Wen has two model proposals for WS247:
1. Can we move Microarray_results tag from under "Experimental_info" to under "Molecular_info"?
This tag used to store microarray data, but now it is only used to specify probe names corresponding to this gene. It is better staying under super tag "Molecular_info". This model change should not affect database build or website display.
2. Under ?Expression_cluster model
Please change:
Regulation Regulated_by_gene ?Gene // Wen WS228 Regulated_by_treatment Text // Wen WS228 Regulated_by_molecule ?Molecule // Wen WS228
into
Regulation Regulated_by_gene ?Gene XREF Regulate_expr_cluster Regulated_by_treatment Text Regulated_by_molecule ?Molecule XREF Regulate_expr_cluster
Corresponding XREF already exist in ?Gene and ?Molecule class, the XREFs in Expression_cluster were probably forgotten when I proposed them for WS228.
For Discussion - Nomenclature_history tag
Addition of a Nomenclature_history tag as part of the Structured_description grouping tag.
This tag would provide some additional textual information about gene names and changes in order to clarify better some of the naming issues.
Entries could be very simple:
umps-1 was originally identified in screens for radiation-sensitive mutant animals and thus originally named rad-6.
Or more detailed:
gene x was originally named 'xxx-1'. This gene name is now retired because of .... and the current name assigned based on sequence similarity to the human ortholog.