Simple Question (Direct)
Simple Question
Q21116853
P682
Q2996394
USER
Which biological process is PDZ domain-containing protein 11 involved in ?
(Q21116853,P682,c(Q2996394))
action filter_type
action find
entity Q21116853
relation P682
type Q2996394
['Q21116853', 'P682', {'concept': 'Q2996394'}]
SELECT DISTINCT ?b WHERE { resource:Q21116853 property:P682 ?b . ?b rdf:type ontology:Q2996394 }
PDZ domain-containing protein 11
action filter_type
action find
entity PDZ domain-containing protein 11
relation biological process
type biological process
['PDZ domain-containing protein 11', 'biological process', {'concept': 'biological process'}]
SELECT DISTINCT ?b WHERE { resource:PDZ_domain-containing_protein_11 property:biological_process ?b . ?b rdf:type ontology:biological_process }
[]
biological process
Q14863664
SYSTEM
neurotransmitter secretion
Q14863664
(Q21116853,P682,c(Q2996394))
action filter_type
action find
entity Q21116853
relation P682
type Q2996394
The [ANSWER] is PDZ domain-containing protein 11 involved in
['Q21116853', 'P682', {'concept': 'Q2996394'}]
SELECT DISTINCT ?b WHERE { resource:Q21116853 property:P682 ?b . ?b rdf:type ontology:Q2996394 }
neurotransmitter secretion
The neurotransmitter secretion is PDZ domain-containing protein 11 involved in
neurotransmitter secretion
action filter_type
action find
entity PDZ domain-containing protein 11
relation biological process
type biological process
['PDZ domain-containing protein 11', 'biological process', {'concept': 'biological process'}]
SELECT DISTINCT ?b WHERE { resource:PDZ_domain-containing_protein_11 property:biological_process ?b . ?b rdf:type ontology:biological_process }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q21116853
P702
Q863908
USER
Which gene encodes PDZ domain-containing protein 11 ?
(Q21116853,P702,c(Q863908))
action filter_type
action find
entity Q21116853
relation P702
type Q863908
['Q21116853', 'P702', {'concept': 'Q863908'}]
SELECT DISTINCT ?d WHERE { ?d rdf:type ontology:Q863908 . resource:Q21116853 property:P702 ?d }
PDZ domain-containing protein 11
action filter_type
action find
entity PDZ domain-containing protein 11
relation encoded by
type nucleic acid sequence
['PDZ domain-containing protein 11', 'encoded by', {'concept': 'nucleic acid sequence'}]
SELECT DISTINCT ?d WHERE { ?d rdf:type ontology:nucleic_acid_sequence . resource:PDZ_domain-containing_protein_11 property:encoded_by ?d }
[]
nucleic acid sequence
Q18040121
SYSTEM
PDZD11
Q18040121
(Q21116853,P702,c(Q863908))
action filter_type
action find
entity Q21116853
relation P702
type Q863908
[ANSWER] encodes PDZ domain-containing protein 11
['Q21116853', 'P702', {'concept': 'Q863908'}]
SELECT DISTINCT ?d WHERE { ?d rdf:type ontology:Q863908 . resource:Q21116853 property:P702 ?d }
PDZD11
PDZD11 encodes PDZ domain-containing protein 11
PDZD11
action filter_type
action find
entity PDZ domain-containing protein 11
relation encoded by
type nucleic acid sequence
['PDZ domain-containing protein 11', 'encoded by', {'concept': 'nucleic acid sequence'}]
SELECT DISTINCT ?d WHERE { ?d rdf:type ontology:nucleic_acid_sequence . resource:PDZ_domain-containing_protein_11 property:encoded_by ?d }
[]
Verification (Boolean) (All)
Verification|2 entities, one direct and one indirect, object is indirect
Q18040121 Q27109775
P684
Q863908
USER
Is LOC108169096 the species that has that one as its orthologous gene ?
(Q27109775,P684,Q18040121)
action is_in
entity Q27109775
action find
entity Q18040121
relation P684
['Q27109775', 'P684', 'Q18040121']
ASK WHERE { resource:Q18040121 property:P684 resource:Q27109775 }
PDZD11 LOC108169096
action is_in
entity LOC108169096
action find
entity PDZD11
relation ortholog
['LOC108169096', 'ortholog', 'PDZD11']
ASK WHERE { resource:PDZD11 property:ortholog resource:LOC108169096 }
[]
nucleic acid sequence
SYSTEM
NO
(Q27109775,P684,Q18040121)
action is_in
entity Q27109775
action find
entity Q18040121
relation P684
[ANSWER]
['Q27109775', 'P684', 'Q18040121']
ASK WHERE { resource:Q18040121 property:P684 resource:Q27109775 }
No
action is_in
entity LOC108169096
action find
entity PDZD11
relation ortholog
['LOC108169096', 'ortholog', 'PDZD11']
ASK WHERE { resource:PDZD11 property:ortholog resource:LOC108169096 }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q18040121
P703
Q16521
USER
Which taxon is PDZD11 found in ?
(Q18040121,P703,c(Q16521))
action filter_type
action find
entity Q18040121
relation P703
type Q16521
['Q18040121', 'P703', {'concept': 'Q16521'}]
SELECT DISTINCT ?z WHERE { resource:Q18040121 property:P703 ?z . ?z rdf:type ontology:Q16521 }
PDZD11
action filter_type
action find
entity PDZD11
relation found in taxon
type taxon
['PDZD11', 'found in taxon', {'concept': 'taxon'}]
SELECT DISTINCT ?z WHERE { resource:PDZD11 property:found_in_taxon ?z . ?z rdf:type ontology:taxon }
[]
taxon
Q15978631
SYSTEM
Homo sapiens
Q15978631
(Q18040121,P703,c(Q16521))
action filter_type
action find
entity Q18040121
relation P703
type Q16521
PDZD 11 is found in [ANSWER]
['Q18040121', 'P703', {'concept': 'Q16521'}]
SELECT DISTINCT ?z WHERE { resource:Q18040121 property:P703 ?z . ?z rdf:type ontology:Q16521 }
Homo sapiens
PDZD 11 is found in Homo sapiens
Homo sapiens
action filter_type
action find
entity PDZD11
relation found in taxon
type taxon
['PDZD11', 'found in taxon', {'concept': 'taxon'}]
SELECT DISTINCT ?z WHERE { resource:PDZD11 property:found_in_taxon ?z . ?z rdf:type ontology:taxon }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q18040121
P688
Q181394
USER
Which nutrient is PDZD11 an encoding of ?
(Q18040121,P688,c(Q181394))
action filter_type
action find
entity Q18040121
relation P688
type Q181394
['Q18040121', 'P688', {'concept': 'Q181394'}]
SELECT DISTINCT ?b WHERE { ?b rdf:type ontology:Q181394 . resource:Q18040121 property:P688 ?b }
PDZD11
action filter_type
action find
entity PDZD11
relation encodes
type nutrient
['PDZD11', 'encodes', {'concept': 'nutrient'}]
SELECT DISTINCT ?b WHERE { ?b rdf:type ontology:nutrient . resource:PDZD11 property:encodes ?b }
[]
nutrient
Q21116853
SYSTEM
PDZ domain-containing protein 11
Q21116853
(Q18040121,P688,c(Q181394))
action filter_type
action find
entity Q18040121
relation P688
type Q181394
The [ANSWER] is PDZD11 an encoding of
['Q18040121', 'P688', {'concept': 'Q181394'}]
SELECT DISTINCT ?b WHERE { ?b rdf:type ontology:Q181394 . resource:Q18040121 property:P688 ?b }
PDZ domain-containing protein 11
The PDZ domain-containing protein 11 is PDZD11 an encoding of
PDZ domain-containing protein 11
action filter_type
action find
entity PDZD11
relation encodes
type nutrient
['PDZD11', 'encodes', {'concept': 'nutrient'}]
SELECT DISTINCT ?b WHERE { ?b rdf:type ontology:nutrient . resource:PDZD11 property:encodes ?b }
[]
Simple Question (Coreferenced)
Simple Question|Single Entity|Indirect
Q21116853
P681
Q5058355
USER
Which cellular components are the components of that nutrient ?
(Q21116853,P681,c(Q5058355))
action filter_type
action find
entity Q21116853
relation P681
type Q5058355
['Q21116853', 'P681', {'concept': 'Q5058355'}]
SELECT DISTINCT ?d WHERE { resource:Q21116853 property:P681 ?d . ?d rdf:type ontology:Q5058355 }
PDZ domain-containing protein 11
action filter_type
action find
entity PDZ domain-containing protein 11
relation cell component
type cellular component
['PDZ domain-containing protein 11', 'cell component', {'concept': 'cellular component'}]
SELECT DISTINCT ?d WHERE { resource:PDZ_domain-containing_protein_11 property:cell_component ?d . ?d rdf:type ontology:cellular_component }
[]
cellular component
Q14873267 Q22327479
SYSTEM
cell-cell junction, presynapse
Q14873267 Q22327479
(Q21116853,P681,c(Q5058355))
action filter_type
action find
entity Q21116853
relation P681
type Q5058355
[ANSWERS] are the components of that nutrient
['Q21116853', 'P681', {'concept': 'Q5058355'}]
SELECT DISTINCT ?d WHERE { resource:Q21116853 property:P681 ?d . ?d rdf:type ontology:Q5058355 }
cell-cell junction presynapse
Cell-cell junction and presynapse are the components of that nutrient
cell-cell junction presynapse
action filter_type
action find
entity PDZ domain-containing protein 11
relation cell component
type cellular component
['PDZ domain-containing protein 11', 'cell component', {'concept': 'cellular component'}]
SELECT DISTINCT ?d WHERE { resource:PDZ_domain-containing_protein_11 property:cell_component ?d . ?d rdf:type ontology:cellular_component }
[]
Simple Question (Ellipsis)
Incomplete|object parent is changed, subject and predicate remain same
Q21116853
Q15989253
USER
And which part?
(Q21116853,P681,c(Q15989253))
action filter_type
action find
entity Q21116853
relation P681
type Q15989253
['Q21116853', 'P681', {'concept': 'Q15989253'}]
SELECT DISTINCT ?r WHERE { resource:Q21116853 property:P681 ?r . ?r rdf:type ontology:Q15989253 }
PDZ domain-containing protein 11
action filter_type
action find
entity PDZ domain-containing protein 11
relation cell component
type part
['PDZ domain-containing protein 11', 'cell component', {'concept': 'part'}]
SELECT DISTINCT ?r WHERE { resource:PDZ_domain-containing_protein_11 property:cell_component ?r . ?r rdf:type ontology:part }
[]
part
Q14645596 Q187181 Q79899
SYSTEM
extracellular region, synapse, cytoplasm
Q14645596 Q187181 Q79899
(Q21116853,P681,c(Q15989253))
action filter_type
action find
entity Q21116853
relation P681
type Q15989253
[ANSWERS]
['Q21116853', 'P681', {'concept': 'Q15989253'}]
SELECT DISTINCT ?r WHERE { resource:Q21116853 property:P681 ?r . ?r rdf:type ontology:Q15989253 }
extracellular region synapse cytoplasm
extracellular region synapse cytoplasm
action filter_type
action find
entity PDZ domain-containing protein 11
relation cell component
type part
['PDZ domain-containing protein 11', 'cell component', {'concept': 'part'}]
SELECT DISTINCT ?r WHERE { resource:PDZ_domain-containing_protein_11 property:cell_component ?r . ?r rdf:type ontology:part }
[]
Verification (Boolean) (All)
Verification|one entity, multiple entities (as object) referred indirectly
Q23464816
P681
Q181394
USER
Are those parts a cell component of hypothetical protein    RSP_7597 ?
(Q23464816,P681,Q14645596) (Q23464816,P681,Q187181) (Q23464816,P681,Q79899)
action is_in
entity prev_answer
action find
entity Q23464816
relation P681
['Q23464816', 'P681', 'Q14645596'] ['Q23464816', 'P681', 'Q187181'] ['Q23464816', 'P681', 'Q79899']
ASK WHERE { resource:Q23464816 property:P681 ?t . VALUES ( ?t ) { ( resource:Q14645596 ) ( resource:Q187181 ) ( resource:Q79899 ) } }
hypothetical protein    RSP_7597
action is_in
entity prev_answer
action find
entity hypothetical protein    RSP_7597
relation cell component
['hypothetical protein    RSP_7597', 'cell component', 'extracellular region'] ['hypothetical protein    RSP_7597', 'cell component', 'synapse'] ['hypothetical protein    RSP_7597', 'cell component', 'cytoplasm']
ASK WHERE { resource:hypothetical_protein____RSP_7597 property:cell_component ?t . VALUES ( ?t ) { ( resource:extracellular_region ) ( resource:synapse ) ( resource:cytoplasm ) } }
[]
nutrient
SYSTEM
NO
(Q23464816,P681,Q14645596) (Q23464816,P681,Q187181) (Q23464816,P681,Q79899)
action is_in
entity prev_answer
action find
entity Q23464816
relation P681
[ANSWER]
['Q23464816', 'P681', 'Q14645596'] ['Q23464816', 'P681', 'Q187181'] ['Q23464816', 'P681', 'Q79899']
ASK WHERE { resource:Q23464816 property:P681 ?t . VALUES ( ?t ) { ( resource:Q14645596 ) ( resource:Q187181 ) ( resource:Q79899 ) } }
No
action is_in
entity prev_answer
action find
entity hypothetical protein    RSP_7597
relation cell component
['hypothetical protein    RSP_7597', 'cell component', 'extracellular region'] ['hypothetical protein    RSP_7597', 'cell component', 'synapse'] ['hypothetical protein    RSP_7597', 'cell component', 'cytoplasm']
ASK WHERE { resource:hypothetical_protein____RSP_7597 property:cell_component ?t . VALUES ( ?t ) { ( resource:extracellular_region ) ( resource:synapse ) ( resource:cytoplasm ) } }
[]
Quantitative Reasoning (Count) (All)
Quantitative|Count over Atleast/ Atmost/ Approx. the same/Equal|Mult. entity type
P129
Q181394 Q181394 Q79529
USER
How many nutrients do atleast 15 nutrients or chemical substances collaborate with ?
(c(Q181394)|c(Q79529),P129,c(Q181394))
action count
action atleast
action union
action find_reverse_tuple_counts
relation P129
type Q181394
type Q181394
action find_reverse_tuple_counts
relation P129
type Q181394
type Q79529
value 15
[[{'concept': 'Q181394'}, {'concept': 'Q79529'}], 'P129', {'concept': 'Q181394'}]
SELECT DISTINCT ( COUNT ( ?i ) AS ?g ) WHERE { { SELECT DISTINCT ( COUNT ( ?q ) AS ?j ) ?i WHERE { { ?q property:P129 ?i . ?i rdf:type ontology:Q181394 . ?q rdf:type ontology:Q79529 } UNION { ?q property:P129 ?i . ?i rdf:type ontology:Q181394 . ?q rdf:type ontology:Q181394 } } GROUP BY ?i } . FILTER ( ?j >= 15 ) }
action count
action atleast
action union
action find_reverse_tuple_counts
relation physically interacts with
type nutrient
type nutrient
action find_reverse_tuple_counts
relation physically interacts with
type nutrient
type chemical substance
value 15
[[{'concept': 'nutrient'}, {'concept': 'chemical substance'}], 'physically interacts with', {'concept': 'nutrient'}]
SELECT DISTINCT ( COUNT ( ?i ) AS ?g ) WHERE { { SELECT DISTINCT ( COUNT ( ?q ) AS ?j ) ?i WHERE { { ?q property:physically_interacts_with ?i . ?i rdf:type ontology:nutrient . ?q rdf:type ontology:chemical_substance } UNION { ?q property:physically_interacts_with ?i . ?i rdf:type ontology:nutrient . ?q rdf:type ontology:nutrient } } GROUP BY ?i } . FILTER ( ?j >= 15 ) }
[]
nutrient nutrient chemical substance
SYSTEM
18
Q288797 Q4639596 Q21116162 Q288382 Q21115051 Q21115052 Q21109355 Q21114578 Q21108118 Q21114576 Q8083989 Q288395 Q21115046 Q21115043 Q21114582 Q1949517 Q21109363 Q5520260
(c(Q181394)|c(Q79529),P129,c(Q181394))
action count
action atleast
action union
action find_reverse_tuple_counts
relation P129
type Q181394
type Q181394
action find_reverse_tuple_counts
relation P129
type Q181394
type Q79529
value 15
[ANSWER]
[[{'concept': 'Q181394'}, {'concept': 'Q79529'}], 'P129', {'concept': 'Q181394'}]
SELECT DISTINCT ( COUNT ( ?i ) AS ?g ) WHERE { { SELECT DISTINCT ( COUNT ( ?q ) AS ?j ) ?i WHERE { { ?q property:P129 ?i . ?i rdf:type ontology:Q181394 . ?q rdf:type ontology:Q79529 } UNION { ?q property:P129 ?i . ?i rdf:type ontology:Q181394 . ?q rdf:type ontology:Q181394 } } GROUP BY ?i } . FILTER ( ?j >= 15 ) }
5-hydroxytryptamine receptor 1B 5-hydroxytryptamine receptor 2B Adenosine receptor A2a Histamine H4 receptor 5-hydroxytryptamine receptor 1E 5-hydroxytryptamine receptor 1F 5-hydroxytryptamine receptor 7 Gamma-aminobutyric acid receptor subunit alpha-3 5-hydroxytryptamine receptor 2C Gamma-aminobutyric acid receptor subunit alpha-5 Kappa-type opioid receptor Histamine H3 receptor 5-hydroxytryptamine receptor 1D 5-hydroxytryptamine receptor 1A Gamma-aminobutyric acid receptor subunit alpha-2 5-hydroxytryptamine receptor 2A 5-hydroxytryptamine receptor 6 Gamma-aminobutyric acid receptor subunit alpha-1
18
action count
action atleast
action union
action find_reverse_tuple_counts
relation physically interacts with
type nutrient
type nutrient
action find_reverse_tuple_counts
relation physically interacts with
type nutrient
type chemical substance
value 15
[[{'concept': 'nutrient'}, {'concept': 'chemical substance'}], 'physically interacts with', {'concept': 'nutrient'}]
SELECT DISTINCT ( COUNT ( ?i ) AS ?g ) WHERE { { SELECT DISTINCT ( COUNT ( ?q ) AS ?j ) ?i WHERE { { ?q property:physically_interacts_with ?i . ?i rdf:type ontology:nutrient . ?q rdf:type ontology:chemical_substance } UNION { ?q property:physically_interacts_with ?i . ?i rdf:type ontology:nutrient . ?q rdf:type ontology:nutrient } } GROUP BY ?i } . FILTER ( ?j >= 15 ) }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q14873267
P361
Q15989253
USER
What is cell-cell junction a portion of ?
(Q14873267,P361,c(Q15989253))
action filter_type
action find
entity Q14873267
relation P361
type Q15989253
['Q14873267', 'P361', {'concept': 'Q15989253'}]
SELECT DISTINCT ?g WHERE { resource:Q14873267 property:P361 ?g . ?g rdf:type ontology:Q15989253 }
cell-cell junction
action filter_type
action find
entity cell-cell junction
relation part of
type part
['cell-cell junction', 'part of', {'concept': 'part'}]
SELECT DISTINCT ?g WHERE { resource:cell-cell_junction property:part_of ?g . ?g rdf:type ontology:part }
[]
part
Q22327470
SYSTEM
mitochondrion-associated adherens complex
Q22327470
(Q14873267,P361,c(Q15989253))
action filter_type
action find
entity Q14873267
relation P361
type Q15989253
Cell-cell junction a portion of is the [ANSWER]
['Q14873267', 'P361', {'concept': 'Q15989253'}]
SELECT DISTINCT ?g WHERE { resource:Q14873267 property:P361 ?g . ?g rdf:type ontology:Q15989253 }
mitochondrion-associated adherens complex
Cell-cell junction a portion of is the mitochondrion-associated adherens complex
mitochondrion-associated adherens complex
action filter_type
action find
entity cell-cell junction
relation part of
type part
['cell-cell junction', 'part of', {'concept': 'part'}]
SELECT DISTINCT ?g WHERE { resource:cell-cell_junction property:part_of ?g . ?g rdf:type ontology:part }
[]
Simple Question (Ellipsis)
only subject is changed, parent and predicate remains same
Q24741453
Q15989253
USER
And how about Uncharacterised domain YfaH, C-terminal?
(Q24741453,P361,c(Q15989253))
action filter_type
action find
entity Q24741453
relation P361
type Q15989253
['Q24741453', 'P361', {'concept': 'Q15989253'}]
SELECT DISTINCT ?r WHERE { resource:Q24741453 property:P361 ?r . ?r rdf:type ontology:Q15989253 }
Uncharacterised domain YfaH, C-terminal
action filter_type
action find
entity Uncharacterised domain YfaH, C-terminal
relation part of
type part
['Uncharacterised domain YfaH, C-terminal', 'part of', {'concept': 'part'}]
SELECT DISTINCT ?r WHERE { resource:Uncharacterised_domain_YfaH,_C-terminal property:part_of ?r . ?r rdf:type ontology:part }
[]
part
Q24725862
SYSTEM
LysR, substrate-binding
Q24725862
(Q24741453,P361,c(Q15989253))
action filter_type
action find
entity Q24741453
relation P361
type Q15989253
[ANSWER]
['Q24741453', 'P361', {'concept': 'Q15989253'}]
SELECT DISTINCT ?r WHERE { resource:Q24741453 property:P361 ?r . ?r rdf:type ontology:Q15989253 }
LysR, substrate-binding
LysR, substrate-binding
action filter_type
action find
entity Uncharacterised domain YfaH, C-terminal
relation part of
type part
['Uncharacterised domain YfaH, C-terminal', 'part of', {'concept': 'part'}]
SELECT DISTINCT ?r WHERE { resource:Uncharacterised_domain_YfaH,_C-terminal property:part_of ?r . ?r rdf:type ontology:part }
[]