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HPOA onset and frequencyOfPhenotype predicates

Open TomConlin opened this issue 7 years ago • 9 comments

@mbrush

hpoa.ttl (exclusively) uses this unresolvable @base iri as a predicate 49,148 times:

https://monarchinitiative.org/frequencyOfPhenotype

followed by object literals such as:

  17,124 "hallmark" .
  13,350 "occasional" .
  13,249 "typical" .
   3,289 "rare" .
     163 "common" .
     159 "frequent" .
     157 "Occasional" .
      91 "Rare" .
      70 "7.5000 %" .
      65 "obligate" .
      51 "2/2" .
      42 "3/3" .
      40 "1/3" .
...

there is a term RO_0003306 "contributes to frequency of condition" which may suffice instead.

hpoa.ttl also (exclusively) uses this unresolvable @base iri as a predicate 438 times

https://monarchinitiative.org/onset

in the form:

<monarch:association>  <:onset> <HP:term> .

where the HP: OBJECT terms are

    107 <http://purl.obolibrary.org/obo/HP_0003577> ! Congenital onset
     86 <http://purl.obolibrary.org/obo/HP_0003593> ! Infantile onset
     65 <http://purl.obolibrary.org/obo/HP_0011463> ! Childhood onset
     64 <http://purl.obolibrary.org/obo/HP_0003623> ! Neonatal onset
     39 <http://purl.obolibrary.org/obo/HP_0003621> ! Juvenile onset
     37 <http://purl.obolibrary.org/obo/HP_0003581>
     32 <http://purl.obolibrary.org/obo/HP_0003584>
      7 <http://purl.obolibrary.org/obo/HP_0011462>
      1 <http://purl.obolibrary.org/obo/HP_0003596>

There are nearly 400 terms including th word "onset" in ontobee. perhaps one of them could work here.

the <OBJECT> in these cases seem to me to be doing a better job describing the type of relationship than the predicate

maybe

<monarch:association>  <HP:term>  <disease/phenotype> 

would be closer to the data.

TomConlin avatar Sep 16 '16 22:09 TomConlin