search

PathwayCommons / cpath2

Biological pathway data integration and access platform (Pathway Commons)
http://www.pathwaycommons.org/pc2/
MIT License
6 stars 5 forks source link

PANTHER: DnaRegionReference.memberEntityReference range violation (DnaReference - wrong) #248

Closed IgorRodchenkov closed 8 years ago

IgorRodchenkov commented 8 years ago

The memberEntityReference property values are of incompatible type (these cannot be set, information is lost, if one imports such BioPAX files, e.g.:

DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00033#_PTEN_GENE, has a member ER of incompatible type: DnaReference (- should be DnaRegionReference; it's in e.g., 
   p53_pathway_feedback_loops_2.owl , 
   Insulin_IGF_pathway-protein_kinase_B_signaling_cascade.owl , 
   p53_pathway.owl files)
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00033#_p110_alpha__GENE, has a member ER of incompatible type: DnaReference
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00033#_p110_alpha__GENE, has a member ER of incompatible type: DnaReference
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P04396#_24_Hydroxylase_GENE, has a member ER of incompatible type: DnaReference
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00015#_bmal1_GENE, has a member ER of incompatible type: DnaReference
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00029#_PolyQ_HTT_GENE, has a member ER of incompatible type: DnaReference
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00029#_HTT_GENE, has a member ER of incompatible type: DnaReference
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00029#_BDNF_GENE, has a member ER of incompatible type: DnaReference
DnaRegionReference, uri:http://www.pantherdb.org/pathways/biopax/P00029#_Bax_GENE, has a member ER of incompatible type: DnaReference

These are very hard (impossible) to fix on PC2 side, using a cleaner class.... Must be fixed by the data provider.