Simple Question (Direct)
Simple Question
Q21207662
P680
Q44424
USER
What represents the molecular function of E3 ubiquitin-protein ligase TRIM4 ?
(Q21207662,P680,c(Q44424))
action filter_type
action find
entity Q21207662
relation P680
type Q44424
['Q21207662', 'P680', {'concept': 'Q44424'}]
SELECT DISTINCT ?f WHERE { resource:Q21207662 property:P680 ?f . ?f rdf:type ontology:Q44424 }
E3 ubiquitin-protein ligase TRIM4
action filter_type
action find
entity E3 ubiquitin-protein ligase TRIM4
relation molecular function
type chemical bond
['E3 ubiquitin-protein ligase TRIM4', 'molecular function', {'concept': 'chemical bond'}]
SELECT DISTINCT ?f WHERE { resource:E3_ubiquitin-protein_ligase_TRIM4 property:molecular_function ?f . ?f rdf:type ontology:chemical_bond }
[]
chemical bond
Q14633865 Q13667380
SYSTEM
zinc ion binding, metal ion binding
Q14633865 Q13667380
(Q21207662,P680,c(Q44424))
action filter_type
action find
entity Q21207662
relation P680
type Q44424
The [ANSWERS] represent the molecular function of E3 ubiquitin-protein ligase TRIM4
['Q21207662', 'P680', {'concept': 'Q44424'}]
SELECT DISTINCT ?f WHERE { resource:Q21207662 property:P680 ?f . ?f rdf:type ontology:Q44424 }
zinc ion binding metal ion binding
The zinc ion binding and metal ion binding represent the molecular function of E3 ubiquitin-protein ligase TRIM4
zinc ion binding metal ion binding
action filter_type
action find
entity E3 ubiquitin-protein ligase TRIM4
relation molecular function
type chemical bond
['E3 ubiquitin-protein ligase TRIM4', 'molecular function', {'concept': 'chemical bond'}]
SELECT DISTINCT ?f WHERE { resource:E3_ubiquitin-protein_ligase_TRIM4 property:molecular_function ?f . ?f rdf:type ontology:chemical_bond }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q21207662
P682
Q3249551
USER
Which process is E3 ubiquitin-protein ligase TRIM4 involved in ?
(Q21207662,P682,c(Q3249551))
action filter_type
action find
entity Q21207662
relation P682
type Q3249551
['Q21207662', 'P682', {'concept': 'Q3249551'}]
SELECT DISTINCT ?d WHERE { resource:Q21207662 property:P682 ?d . ?d rdf:type ontology:Q3249551 }
E3 ubiquitin-protein ligase TRIM4
action filter_type
action find
entity E3 ubiquitin-protein ligase TRIM4
relation biological process
type process
['E3 ubiquitin-protein ligase TRIM4', 'biological process', {'concept': 'process'}]
SELECT DISTINCT ?d WHERE { resource:E3_ubiquitin-protein_ligase_TRIM4 property:biological_process ?d . ?d rdf:type ontology:process }
[]
process
Q14916317
SYSTEM
immune system process
Q14916317
(Q21207662,P682,c(Q3249551))
action filter_type
action find
entity Q21207662
relation P682
type Q3249551
E3 ubiquitin-protein ligase TRIM4 is involved in [ANSWER]
['Q21207662', 'P682', {'concept': 'Q3249551'}]
SELECT DISTINCT ?d WHERE { resource:Q21207662 property:P682 ?d . ?d rdf:type ontology:Q3249551 }
immune system process
E3 ubiquitin-protein ligase TRIM4 is involved in immune system process
immune system process
action filter_type
action find
entity E3 ubiquitin-protein ligase TRIM4
relation biological process
type process
['E3 ubiquitin-protein ligase TRIM4', 'biological process', {'concept': 'process'}]
SELECT DISTINCT ?d WHERE { resource:E3_ubiquitin-protein_ligase_TRIM4 property:biological_process ?d . ?d rdf:type ontology:process }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q21207662
P688
Q863908
USER
Which nucleic acid sequence encodes E3 ubiquitin-protein ligase TRIM4 ?
(c(Q863908),P688,Q21207662)
action filter_type
action find_reverse
entity Q21207662
relation P688
type Q863908
[{'concept': 'Q863908'}, 'P688', 'Q21207662']
SELECT DISTINCT ?m WHERE { ?m property:P688 resource:Q21207662 . ?m rdf:type ontology:Q863908 }
E3 ubiquitin-protein ligase TRIM4
action filter_type
action find_reverse
entity E3 ubiquitin-protein ligase TRIM4
relation encodes
type nucleic acid sequence
[{'concept': 'nucleic acid sequence'}, 'encodes', 'E3 ubiquitin-protein ligase TRIM4']
SELECT DISTINCT ?m WHERE { ?m property:encodes resource:E3_ubiquitin-protein_ligase_TRIM4 . ?m rdf:type ontology:nucleic_acid_sequence }
[]
nucleic acid sequence
Q18048088
SYSTEM
TRIM4
Q18048088
(c(Q863908),P688,Q21207662)
action filter_type
action find_reverse
entity Q21207662
relation P688
type Q863908
[ANSWER] encodes E3 ubiquitin-protein ligase [ANSWER]
[{'concept': 'Q863908'}, 'P688', 'Q21207662']
SELECT DISTINCT ?m WHERE { ?m property:P688 resource:Q21207662 . ?m rdf:type ontology:Q863908 }
TRIM4
TRIM4 encodes E3 ubiquitin-protein ligase TRIM4
TRIM4
action filter_type
action find_reverse
entity E3 ubiquitin-protein ligase TRIM4
relation encodes
type nucleic acid sequence
[{'concept': 'nucleic acid sequence'}, 'encodes', 'E3 ubiquitin-protein ligase TRIM4']
SELECT DISTINCT ?m WHERE { ?m property:encodes resource:E3_ubiquitin-protein_ligase_TRIM4 . ?m rdf:type ontology:nucleic_acid_sequence }
[]
Simple Question (Coreferenced)
Simple Question|Single Entity|Indirect
Q21207662
P681
Q15989253
USER
Which part is a component of that nutrient ?
(Q18048088,P681,c(Q15989253))
action filter_type
action find
entity Q21207662
relation P681
type Q15989253
['Q18048088', 'P681', {'concept': 'Q15989253'}]
SELECT DISTINCT ?w WHERE { ?w rdf:type ontology:Q15989253 . resource:Q21207662 property:P681 ?w }
E3 ubiquitin-protein ligase TRIM4
action filter_type
action find
entity E3 ubiquitin-protein ligase TRIM4
relation cell component
type part
['TRIM4', 'cell component', {'concept': 'part'}]
SELECT DISTINCT ?w WHERE { ?w rdf:type ontology:part . resource:E3_ubiquitin-protein_ligase_TRIM4 property:cell_component ?w }
[]
part
Q79899
SYSTEM
cytoplasm
Q79899
(Q18048088,P681,c(Q15989253))
action filter_type
action find
entity Q21207662
relation P681
type Q15989253
[ANSWER] is a component of that nutrient
['Q18048088', 'P681', {'concept': 'Q15989253'}]
SELECT DISTINCT ?w WHERE { ?w rdf:type ontology:Q15989253 . resource:Q21207662 property:P681 ?w }
cytoplasm
Cytoplasm is a component of that nutrient
cytoplasm
action filter_type
action find
entity E3 ubiquitin-protein ligase TRIM4
relation cell component
type part
['TRIM4', 'cell component', {'concept': 'part'}]
SELECT DISTINCT ?w WHERE { ?w rdf:type ontology:part . resource:E3_ubiquitin-protein_ligase_TRIM4 property:cell_component ?w }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q18048088
P703
Q16521
USER
Where is TRIM4 found ?
(Q18048088,P703,c(Q16521))
action filter_type
action find
entity Q18048088
relation P703
type Q16521
['Q18048088', 'P703', {'concept': 'Q16521'}]
SELECT DISTINCT ?l WHERE { resource:Q18048088 property:P703 ?l . ?l rdf:type ontology:Q16521 }
TRIM4
action filter_type
action find
entity TRIM4
relation found in taxon
type taxon
['TRIM4', 'found in taxon', {'concept': 'taxon'}]
SELECT DISTINCT ?l WHERE { resource:TRIM4 property:found_in_taxon ?l . ?l rdf:type ontology:taxon }
[]
taxon
Q15978631
SYSTEM
Homo sapiens
Q15978631
(Q18048088,P703,c(Q16521))
action filter_type
action find
entity Q18048088
relation P703
type Q16521
TRIM4 is found in [ANSWER]
['Q18048088', 'P703', {'concept': 'Q16521'}]
SELECT DISTINCT ?l WHERE { resource:Q18048088 property:P703 ?l . ?l rdf:type ontology:Q16521 }
Homo sapiens
TRIM4 is found in Homo sapiens
Homo sapiens
action filter_type
action find
entity TRIM4
relation found in taxon
type taxon
['TRIM4', 'found in taxon', {'concept': 'taxon'}]
SELECT DISTINCT ?l WHERE { resource:TRIM4 property:found_in_taxon ?l . ?l rdf:type ontology:taxon }
[]
Simple Question (Coreferenced)
Simple Question|Single Entity|Indirect
Q18048088
P702
Q181394
USER
What is the gene that is encoded by that nucleic acid sequence ?
(c(Q181394),P702,Q15978631)
action filter_type
action find_reverse
entity Q18048088
relation P702
type Q181394
[{'concept': 'Q181394'}, 'P702', 'Q15978631']
SELECT DISTINCT ?q WHERE { ?q property:P702 resource:Q18048088 . ?q rdf:type ontology:Q181394 }
TRIM4
action filter_type
action find_reverse
entity TRIM4
relation encoded by
type nutrient
[{'concept': 'nutrient'}, 'encoded by', 'Homo sapiens']
SELECT DISTINCT ?q WHERE { ?q property:encoded_by resource:TRIM4 . ?q rdf:type ontology:nutrient }
[]
nutrient
Q21207662
SYSTEM
E3 ubiquitin-protein ligase TRIM4
Q21207662
(c(Q181394),P702,Q15978631)
action filter_type
action find_reverse
entity Q18048088
relation P702
type Q181394
The gene that is encoded by that nucleic acid sequence is the [ANSWER]
[{'concept': 'Q181394'}, 'P702', 'Q15978631']
SELECT DISTINCT ?q WHERE { ?q property:P702 resource:Q18048088 . ?q rdf:type ontology:Q181394 }
E3 ubiquitin-protein ligase TRIM4
The gene that is encoded by that nucleic acid sequence is the E3 ubiquitin-protein ligase TRIM4
E3 ubiquitin-protein ligase TRIM4
action filter_type
action find_reverse
entity TRIM4
relation encoded by
type nutrient
[{'concept': 'nutrient'}, 'encoded by', 'Homo sapiens']
SELECT DISTINCT ?q WHERE { ?q property:encoded_by resource:TRIM4 . ?q rdf:type ontology:nutrient }
[]
Logical Reasoning (All)
Logical|Intersection|Single_Relation
Q14877432 Q14633865
P680
Q181394
USER
Which nutrients have molecular function as zinc ion binding and rRNA binding ?
AND((c(Q181394),P680,Q14633865), (c(Q181394),P680,Q14877432))
action filter_type
action intersection
action find_reverse
entity Q14633865
relation P680
action find_reverse
entity Q14877432
relation P680
type Q181394
{'AND': [[{'concept': 'Q181394'}, 'P680', 'Q14633865'], [{'concept': 'Q181394'}, 'P680', 'Q14877432']]}
SELECT DISTINCT ?w WHERE { ?w property:P680 resource:Q14633865 . ?w property:P680 resource:Q14877432 . ?w rdf:type ontology:Q181394 }
rRNA binding zinc ion binding
action filter_type
action intersection
action find_reverse
entity zinc ion binding
relation molecular function
action find_reverse
entity rRNA binding
relation molecular function
type nutrient
{'AND': [[{'concept': 'nutrient'}, 'molecular function', 'zinc ion binding'], [{'concept': 'nutrient'}, 'molecular function', 'rRNA binding']]}
SELECT DISTINCT ?w WHERE { ?w property:molecular_function resource:zinc_ion_binding . ?w property:molecular_function resource:rRNA_binding . ?w rdf:type ontology:nutrient }
[]
nutrient
Q23536408 Q22301068 Q24249708 Q23550700 Q23582972 Q22292827 Q27760179 Q21632584 Q22232957 Q23478196
SYSTEM
Some of them are 30S ribosomal protein S14    Moth_2447, 30S ribosomal protein S14    Cj1694c, 30S ribosomal protein S14    lmo2619, 30S ribosomal protein S14p/S29e    THEYE_A1433, 30S ribosomal protein S14    GSU2844, 30S ribosomal protein S14    TDE0780, 30S ribosomal protein S14    MPN178, 30S ribosomal protein S14    HP1306, 30S ribosomal protein S14    Rv0717, 30S ribosomal protein S14    SAOUHSC_02499
Q23571735 Q22326630 Q23463050 Q27743403 Q23490075 Q23576418 Q27760179 Q23623108 Q23507116 Q24249708 Q21632584 Q27740284 Q21603578 Q22301068 Q23478196 Q27761126 Q21987125 Q23491120 Q21765692 Q23582972 Q27737070 Q23526725 Q21113897 Q23536408 Q22232957 Q23063811 Q22292827 Q23505911 Q27761777 Q23486608 Q23550700 Q27752598
AND((c(Q181394),P680,Q14633865), (c(Q181394),P680,Q14877432))
action filter_type
action intersection
action find_reverse
entity Q14633865
relation P680
action find_reverse
entity Q14877432
relation P680
type Q181394
[ANSWERS]
{'AND': [[{'concept': 'Q181394'}, 'P680', 'Q14633865'], [{'concept': 'Q181394'}, 'P680', 'Q14877432']]}
SELECT DISTINCT ?w WHERE { ?w property:P680 resource:Q14633865 . ?w property:P680 resource:Q14877432 . ?w rdf:type ontology:Q181394 }
30S ribosomal protein S14    gvip522 30S ribosomal protein S14    HMPREF0421_21270 30S ribosomal protein S14    DVU1316 30S ribosomal protein S14    MSMEG_1468 30S ribosomal protein S14    SSUBM407_0079 30S ribosomal protein S14    AMED_0690 30S ribosomal protein S14    MPN178 rpsN    BL1593 30S ribosomal protein S14    L0391 30S ribosomal protein S14    lmo2619 30S ribosomal protein S14    HP1306 30S ribosomal protein S14    ML1846 30S ribosomal protein S14    BB_0491 30S ribosomal protein S14    Cj1694c 30S ribosomal protein S14    SAOUHSC_02499 30S ribosomal protein S14    Mfl136 Lysine-specific demethylase 2B 30S ribosomal protein S14    SMU_2014 30S ribosomal protein S14    TTHA1679 30S ribosomal protein S14    GSU2844 30S ribosomal protein S14    Mb0738 30S ribosomal protein S14    CA_C3120 Lysine-specific demethylase 2B 30S ribosomal protein S14    Moth_2447 30S ribosomal protein S14    Rv0717 30S ribosomal protein S14    LA_0752 30S ribosomal protein S14    TDE0780 30S ribosomal protein S14    HMPREF0351_10071 30S ribosomal protein S14    TM1487 30S ribosomal protein S14    SSA_2391 30S ribosomal protein S14p/S29e    THEYE_A1433 30S ribosomal protein S14    SCO4715
30S ribosomal protein S14 HP1306, 30S ribosomal protein S14 Rv0717 and 30S ribosomal protein S14 SAOUHSC 02499 have molecular function as zinc ion binding and rRNA binding
30S ribosomal protein S14    Moth_2447 30S ribosomal protein S14    Cj1694c 30S ribosomal protein S14    lmo2619 30S ribosomal protein S14p/S29e    THEYE_A1433 30S ribosomal protein S14    GSU2844 30S ribosomal protein S14    TDE0780 30S ribosomal protein S14    MPN178 30S ribosomal protein S14    HP1306 30S ribosomal protein S14    Rv0717 30S ribosomal protein S14    SAOUHSC_02499
action filter_type
action intersection
action find_reverse
entity zinc ion binding
relation molecular function
action find_reverse
entity rRNA binding
relation molecular function
type nutrient
{'AND': [[{'concept': 'nutrient'}, 'molecular function', 'zinc ion binding'], [{'concept': 'nutrient'}, 'molecular function', 'rRNA binding']]}
SELECT DISTINCT ?w WHERE { ?w property:molecular_function resource:zinc_ion_binding . ?w property:molecular_function resource:rRNA_binding . ?w rdf:type ontology:nutrient }
[]
Clarification
Quantitative|Count|Single entity type|Indirect
P681
Q5058355
USER
How many cellular components are components of that nutrient ?
(Q23536408,P681,c(Q5058355))
['Q23536408', 'P681', {'concept': 'Q5058355'}]
SELECT DISTINCT ( COUNT ( ?z ) AS ?y ) WHERE { resource:Q23208361 property:P681 ?z . ?z rdf:type ontology:Q5058355 }
['30S ribosomal protein S14    Moth_2447', 'cell component', {'concept': 'cellular component'}]
SELECT DISTINCT ( COUNT ( ?z ) AS ?y ) WHERE { resource:30S_ribosomal_protein_S14____Moth_2447 property:cell_component ?z . ?z rdf:type ontology:cellular_component }
[]
cellular component
Quantitative|Count|Single entity type|Clarification
Q22301068
SYSTEM
Did you mean 30S ribosomal protein S14    Cj1694c ?
(Q23536408,P681,c(Q5058355)) (Q22301068,P681,c(Q5058355)) (Q24249708,P681,c(Q5058355)) (Q23550700,P681,c(Q5058355)) (Q23582972,P681,c(Q5058355)) (Q22292827,P681,c(Q5058355)) (Q27760179,P681,c(Q5058355)) (Q21632584,P681,c(Q5058355)) (Q22232957,P681,c(Q5058355)) (Q23478196,P681,c(Q5058355))
[ANSWER]
['Q23536408', 'P681', {'concept': 'Q5058355'}] ['Q22301068', 'P681', {'concept': 'Q5058355'}] ['Q24249708', 'P681', {'concept': 'Q5058355'}] ['Q23550700', 'P681', {'concept': 'Q5058355'}] ['Q23582972', 'P681', {'concept': 'Q5058355'}] ['Q22292827', 'P681', {'concept': 'Q5058355'}] ['Q27760179', 'P681', {'concept': 'Q5058355'}] ['Q21632584', 'P681', {'concept': 'Q5058355'}] ['Q22232957', 'P681', {'concept': 'Q5058355'}] ['Q23478196', 'P681', {'concept': 'Q5058355'}]
SELECT DISTINCT ( COUNT ( ?z ) AS ?y ) WHERE { resource:Q23208361 property:P681 ?z . ?z rdf:type ontology:Q5058355 }
Did you mean 30S ribosomal protein S14    Cj1694c ?
30S ribosomal protein S14    Cj1694c
['30S ribosomal protein S14    Moth_2447', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    Cj1694c', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    lmo2619', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14p/S29e    THEYE_A1433', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    GSU2844', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    TDE0780', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    MPN178', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    HP1306', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    Rv0717', 'cell component', {'concept': 'cellular component'}] ['30S ribosomal protein S14    SAOUHSC_02499', 'cell component', {'concept': 'cellular component'}]
SELECT DISTINCT ( COUNT ( ?z ) AS ?y ) WHERE { resource:30S_ribosomal_protein_S14____Moth_2447 property:cell_component ?z . ?z rdf:type ontology:cellular_component }
[]
Quantitative Reasoning (Count) (All)
USER
No, I meant 30S ribosomal protein S14    Moth_2447. Could you tell me the answer for that?
(Q23536408,P681,c(Q5058355))
Q23536408
['Q23536408', 'P681', {'concept': 'Q5058355'}]
['30S ribosomal protein S14    Moth_2447', 'cell component', {'concept': 'cellular component'}]
[]
SYSTEM
1
Q3824358
(Q23536408,P681,c(Q5058355))
[ANSWER]
['Q23536408', 'P681', {'concept': 'Q5058355'}]
SELECT DISTINCT ( COUNT ( ?z ) AS ?y ) WHERE { resource:Q23208361 property:P681 ?z . ?z rdf:type ontology:Q5058355 }
intracellular
1
['30S ribosomal protein S14    Moth_2447', 'cell component', {'concept': 'cellular component'}]
SELECT DISTINCT ( COUNT ( ?z ) AS ?y ) WHERE { resource:30S_ribosomal_protein_S14____Moth_2447 property:cell_component ?z . ?z rdf:type ontology:cellular_component }
[]
Quantitative Reasoning (Count) (All)
Incomplete count-based ques
Q21131099
Q5058355
USER
And what about Annexin A7?
(Q21131099,P681,c(Q5058355))
action count
action filter_type
action find
entity Q21131099
relation P681
type Q5058355
['Q21131099', 'P681', {'concept': 'Q5058355'}]
SELECT DISTINCT ( COUNT ( ?f ) AS ?b ) WHERE { resource:Q21131099 property:P681 ?f . ?f rdf:type ontology:Q5058355 }
Annexin A7
action count
action filter_type
action find
entity Annexin A7
relation cell component
type cellular component
['Annexin A7', 'cell component', {'concept': 'cellular component'}]
SELECT DISTINCT ( COUNT ( ?f ) AS ?b ) WHERE { resource:Annexin_A7 property:cell_component ?f . ?f rdf:type ontology:cellular_component }
[]
cellular component
SYSTEM
2
(Q21131099,P681,c(Q5058355))
action count
action filter_type
action find
entity Q21131099
relation P681
type Q5058355
[ANSWER]
['Q21131099', 'P681', {'concept': 'Q5058355'}]
SELECT DISTINCT ( COUNT ( ?f ) AS ?b ) WHERE { resource:Q21131099 property:P681 ?f . ?f rdf:type ontology:Q5058355 }
2
action count
action filter_type
action find
entity Annexin A7
relation cell component
type cellular component
['Annexin A7', 'cell component', {'concept': 'cellular component'}]
SELECT DISTINCT ( COUNT ( ?f ) AS ?b ) WHERE { resource:Annexin_A7 property:cell_component ?f . ?f rdf:type ontology:cellular_component }
[]