Last Updated: February 5, 2002

This directory includes files containing GO Function 
predictions for several organisms as well as SwissProt.

The following files are provided (description of format
found below):

musDoTS:
	musDoTS_ProDom_NoIEA.pred	
	musDoTS_ProDom_ALL.pred
	musDoTS_CDD_NoIEA.pred			
	musDoTS_CDD_ALL.pred

humDoTS:
	humDoTS_Union_NO_IEA.pred	

SwissProt:
	SP_ProDom_NoIEA.pred	
	SP_ProDom_ALL.pred
	SP_CDD_NoIEA.pred			
	SP_CDD_ALL.pred				

C.Elegans:
	CE_Union_NO_IEA.pred

A.Thaliana:
	AT_Union_NO_IEA.pred

S.Cervisiae:
	SC_Union_NO_IEA.pred


File Format
===========

The format of these files generally follows the tab
delimited Anotation File Format used by the Gene Ontology
Consortium.
  
See :

   http://www.geneontology.org/GO.annotation.html#file

for a detailed description.  

Here we will explicitly state how we are using each field.

Field		Our usage
========================================================
DB		will be CBIL in all cases

DB_Object	a unique identifier for the AA sequence
		in GUS (Genomics Unified Schema), our
		data warehouse

DB_Object_Symbol
		an identifier from the source database:
		DoTS:      	DT.XXXXXX
		SwissProt 	Accession 
		C.Elegans  	CEXXXXXXX
		A.Thaliana 	ATXXXXXXX
		S.Cerevisiae 	SCXXXXXXX

GOId		the GO id of the "leaf" molecular function terms
		
		



DB:Reference	Here we include evidence for the prediction
                The format is as follows: 

		CBIL:AGF.< >|EVID:< >,RS.< >,R.< >,PVR=< >

		The < > are filled with the appropriate 
		identifiers:
                Field	Usage
		----------------------------------------
		AGF    	an internal identifier for the prediction
		EVID   	domain source id
		RS	identifier for a rule set in our database 
			that was used to generate the prediction
			a rule set is generated for a domain.  
			Each rule set can have one or more rules
			associated with it.
		R	identifier for the specific rule in that
			generated the prediction.
		PVR	-log(similarity pval)/-log(rule pval) 	
	
EVID		always IEA

DB_Object_Name	Name or identifier from source database or, in the 
		case of DoTS, the description.

DB_Object_Type	will either be protein or transcript

taxon		the NCBI taxon id for the organism

Date		date prediction was made (YYYYMMDD format) 


 =============================================================

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