EntrezGene Import Schema

The namespace name http://www.w3.org/2007/03/entrez-gene/# is intended to provide a mapping between the Jackson Labs HMD databases and RDF data. There are currently no formal descriptions are available.

This document is intended to comply with W3C policy for XML namespace names.

Classes

PutativeOrthology: A theoretical common ancestry between the from and to objects based on evidence.

Predicates

term	domain	range	meaning
from	PutativeOrthology	gene[record?]	The Orthology maps from this gene.
to	PutativeOrthology	gene[record?]	The Orthology maps to this gene.
symto	PutativeOrthology	gene[record?]	The Orthology maps symmetrically from and to this gene.
evidence	PutativeOrthology	gene[record?]	What evidence supports this orthology.

Example

The following lines from HMD_RatHuman5.rpt:

Rat Chr	Rat EntrezGene ID	Rat Symbol	Human Chr	Human EntrezGene ID	Human Symbol	Data Attributes
1p13	308283	Fbxo30	6q24	84085	FBXO30	C
1p13	292485	Fuca2	6q24	2519	FUCA2	C
1p13	24414	Grm1	6q24	2911	GRM1	B

are recorded in RDF as:

@prefix : <http://www.w3.org/2007/03/entrez-gene#> .
@prefix rpt: <ftp://ftp.informatics.jax.org/pub/reports/HMD_RatHuman5.rpt#> .
@prefix eg: <http://sw.neurocommons.org/2007/entrez-gene/> .
[ a :PutativeOrthology ; 
  :from eg:id-308283 ; :to eg:id-84085 ; 
  :evidence rpt:HomologoGene-calculated ] .
eg:id-308283 a :Rat-critter .
eg:id-84085 a :Human-critter .
[ a :PutativeOrthology ; 
  :from eg:id-292485 ; :to eg:id-2519 ; 
  :evidence rpt:HomologoGene-calculated ] .
eg:id-292485 a :Rat-critter .
eg:id-2519 a :Human-critter .
[ a :PutativeOrthology ; 
  :from eg:id-24414 ; :to eg:id-2911 ; 
  :evidence rpt:MGI-curated , rpt:HomologoGene-calculated ] .
eg:id-24414 a :Rat-critter .
eg:id-2911 a :Human-critter .

$Id: Overview.html,v 1.8 2007/04/05 01:33:18 eric Exp $