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add/generate RSC to RSC child-child linksets #29

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stain opened this issue Nov 5, 2015 · 3 comments
Open

add/generate RSC to RSC child-child linksets #29

stain opened this issue Nov 5, 2015 · 3 comments
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@stain
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stain commented Nov 5, 2015

To be generated by RSC.. or can it be made by querying the various PARENT_CHILD linksets,

@stain stain added this to the 2.2 milestone Nov 5, 2015
@stain
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stain commented Nov 9, 2015

For reference, the CHILD_CHILD datasets of 1.5:

http://data.openphacts.org/1.5/ims/linksets/RSC/

(for some reasons they were not mentioned in the void back then)

@stain
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stain commented Nov 9, 2015

Here are the PARENT_CHILD relations:

stain@biggie:~/Downloads/RSC/20151104$ find | grep -i CHILD
./CHEMBL/LINKSET_CLOSE_PARENT_CHILD_SUPER_INSENSITIVE_PARENT_CHEMBL20151104.ttl
./CHEMBL/LINKSET_RELATED_PARENT_CHILD_FRAGMENT_CHEMBL20151104.ttl
./CHEMBL/LINKSET_CLOSE_PARENT_CHILD_CHARGE_INSENSITIVE_PARENT_CHEMBL20151104.ttl
./CHEMBL/LINKSET_CLOSE_PARENT_CHILD_TAUTOMER_INSENSITIVE_PARENT_CHEMBL20151104.ttl
./CHEMBL/LINKSET_CLOSE_PARENT_CHILD_ISOTOPE_INSENSITIVE_PARENT_CHEMBL20151104.ttl
./CHEMBL/LINKSET_CLOSE_PARENT_CHILD_STEREO_INSENSITIVE_PARENT_CHEMBL20151104.ttl
./HUMAN_METABOLOME_DATABASE/LINKSET_CLOSE_PARENT_CHILD_STEREO_INSENSITIVE_PARENT_HUMAN_METABOLOME_DATABASE20151104.ttl
./HUMAN_METABOLOME_DATABASE/LINKSET_CLOSE_PARENT_CHILD_CHARGE_INSENSITIVE_PARENT_HUMAN_METABOLOME_DATABASE20151104.ttl
./HUMAN_METABOLOME_DATABASE/LINKSET_CLOSE_PARENT_CHILD_TAUTOMER_INSENSITIVE_PARENT_HUMAN_METABOLOME_DATABASE20151104.ttl
./HUMAN_METABOLOME_DATABASE/LINKSET_RELATED_PARENT_CHILD_FRAGMENT_HUMAN_METABOLOME_DATABASE20151104.ttl
./HUMAN_METABOLOME_DATABASE/LINKSET_CLOSE_PARENT_CHILD_ISOTOPE_INSENSITIVE_PARENT_HUMAN_METABOLOME_DATABASE20151104.ttl
./HUMAN_METABOLOME_DATABASE/LINKSET_CLOSE_PARENT_CHILD_SUPER_INSENSITIVE_PARENT_HUMAN_METABOLOME_DATABASE20151104.ttl
./PDB/LINKSET_CLOSE_PARENT_CHILD_STEREO_INSENSITIVE_PARENT_PDB20151104.ttl
./PDB/LINKSET_RELATED_PARENT_CHILD_FRAGMENT_PDB20151104.ttl
./PDB/LINKSET_CLOSE_PARENT_CHILD_ISOTOPE_INSENSITIVE_PARENT_PDB20151104.ttl
./PDB/LINKSET_CLOSE_PARENT_CHILD_TAUTOMER_INSENSITIVE_PARENT_PDB20151104.ttl
./PDB/LINKSET_CLOSE_PARENT_CHILD_CHARGE_INSENSITIVE_PARENT_PDB20151104.ttl
./PDB/LINKSET_CLOSE_PARENT_CHILD_SUPER_INSENSITIVE_PARENT_PDB20151104.ttl
./DRUGBANK/LINKSET_CLOSE_PARENT_CHILD_SUPER_INSENSITIVE_PARENT_DRUGBANK20151104.ttl
./DRUGBANK/LINKSET_CLOSE_PARENT_CHILD_TAUTOMER_INSENSITIVE_PARENT_DRUGBANK20151104.ttl
./DRUGBANK/LINKSET_CLOSE_PARENT_CHILD_ISOTOPE_INSENSITIVE_PARENT_DRUGBANK20151104.ttl
./DRUGBANK/LINKSET_CLOSE_PARENT_CHILD_STEREO_INSENSITIVE_PARENT_DRUGBANK20151104.ttl
./DRUGBANK/LINKSET_CLOSE_PARENT_CHILD_CHARGE_INSENSITIVE_PARENT_DRUGBANK20151104.ttl
./DRUGBANK/LINKSET_RELATED_PARENT_CHILD_FRAGMENT_DRUGBANK20151104.ttl
./CHEBI/LINKSET_CLOSE_PARENT_CHILD_STEREO_INSENSITIVE_PARENT_CHEBI20151104.ttl
./CHEBI/LINKSET_CLOSE_PARENT_CHILD_SUPER_INSENSITIVE_PARENT_CHEBI20151104.ttl
./CHEBI/LINKSET_CLOSE_PARENT_CHILD_TAUTOMER_INSENSITIVE_PARENT_CHEBI20151104.ttl
./CHEBI/LINKSET_CLOSE_PARENT_CHILD_CHARGE_INSENSITIVE_PARENT_CHEBI20151104.ttl
./CHEBI/LINKSET_CLOSE_PARENT_CHILD_ISOTOPE_INSENSITIVE_PARENT_CHEBI20151104.ttl
./CHEBI/LINKSET_RELATED_PARENT_CHILD_FRAGMENT_CHEBI20151104.ttl
./MESH/LINKSET_CLOSE_PARENT_CHILD_CHARGE_INSENSITIVE_PARENT_MESH20151104.ttl
./MESH/LINKSET_CLOSE_PARENT_CHILD_TAUTOMER_INSENSITIVE_PARENT_MESH20151104.ttl
./MESH/LINKSET_CLOSE_PARENT_CHILD_ISOTOPE_INSENSITIVE_PARENT_MESH20151104.ttl
./MESH/LINKSET_RELATED_PARENT_CHILD_FRAGMENT_MESH20151104.ttl
./MESH/LINKSET_CLOSE_PARENT_CHILD_STEREO_INSENSITIVE_PARENT_MESH20151104.ttl
./MESH/LINKSET_CLOSE_PARENT_CHILD_SUPER_INSENSITIVE_PARENT_MESH20151104.ttl

e.g. the types of parent-child relationships are:

  • CHARGE_INSENSITIVE
  • FRAGMENT
  • ISOTOPE_INSENSITIVE
  • STEREO_INSENSITIVE
  • SUPER_INSENSITIVE
  • TAUTOMER_INSENSITIVE

@stain
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stain commented Nov 9, 2015

A naive query:

PREFIX void: <http://rdfs.org/ns/void#>
prefix skos: <http://www.w3.org/2004/02/skos/core#> 

CONSTRUCT { 
 ?child1 skos:related ?child2.
} WHERE {
  ?child1 skos:closeMatch ?parent .
  ?child2 skos:closeMatch ?parent .
  FILTER (?child1 < ?child2)
}

modify for individual VoIDs to split by the different relationships (the above would effectively be building SUPER_CHILD_CHILD). Something like < is needed to avoid duplication; skos:related is both ways.

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