Difference between revisions of "Modeling data for Infectious agents"

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Line 24: Line 24:
               Disease_relevance  ?Text                                  ?Species    #Evidence  
               Disease_relevance  ?Text                                  ?Species    #Evidence  
  Add under ?Gene Disease_info:
  Add under ?Gene:
                Infection_model    Required_for_infection     ?Strain  XREF  Infection_gene_in_host    ?Species    #Evidence   
Infection_model    Required_for_infection       ?Strain  XREF  Infection_gene_in_host    ?Species    #Evidence   
                                    Resistance_to_infection   ?Strain  XREF  Resistance_gene_in_host  ?Species    #Evidence
                    Resistance_to_infection     ?Strain  XREF  Resistance_gene_in_host  ?Species    #Evidence
                                    Infection_model_description  ?Text                                   ?Species    #Evidence
                    Infection_model_description  ?Text                                     ?Species    #Evidence

Revision as of 18:33, 11 February 2014

C. elegans serves as an infection model for various bacteria, fungi and nematodes, in order to study:

  • host genes involved in infection and resistance
  • bacterial virulence factors
  • to identify effective drugs
  • drug screening in infection

Model Proposal for ?Gene

The Experimental_model tag refers to ?DO_term (disease), in cases of study of infectious agents using Elegans, it is not so much a 'disease model' as an infection model. It's a bit silly to talk about elegans as a model for dysentery, as compared to saying it is an infection model for the bacteria, Shigella flexneri, which is the pathogen in dysentery.

We will attach this information to Gene, analogous to disease information (similar to the Experimental_model and Potential model tags for Gene). Initially I thought of tagging Genes just as 'Infection_model' but I think it's worthwhile to actually delineate this a bit further and tag genes as either needed for pathogen infection or resistance to it, thus the 'Required_for_infection' and 'Resistance_to_infection' tags.

 Current Gene model:
 Disease_info 	Experimental_model  ?DO_term  XREF  Gene_by_biology        ?Species    #Evidence	            
              	Potential_model	    ?DO_term  XREF  Gene_by_orthology      ?Species    #Evidence
              	Disease_relevance   ?Text                                  ?Species    #Evidence 
 Add under ?Gene:

 Infection_model     Required_for_infection       ?Strain   XREF  Infection_gene_in_host    ?Species    #Evidence  
                     Resistance_to_infection      ?Strain   XREF  Resistance_gene_in_host   ?Species    #Evidence
                     Infection_model_description  ?Text                                     ?Species    #Evidence


Curating information about the infectious agent-Proposal for ?Strain:

Similar to Kimberly's issue about capturing information about the bacterial species for GO data, I propose we use the ?Strain model to hold infection data information.

Add to Strain model:

 Infection_model_info             Infection_gene_in_host   ?Gene  XREF  Required_for_infection
                                  Resistance_gene_in_host  ?Gene  XREF  Resistance_to_infection
                                  Infection_model_description  ?Text  ?Species  #Evidence