Simple Question (Direct)
Simple Question
Q22232243
P702
Q863908
USER
Which gene encodes 50S ribosomal protein L1    Rv0641 ?
(Q22232243,P702,c(Q863908))
action filter_type
action find
entity Q22232243
relation P702
type Q863908
['Q22232243', 'P702', {'concept': 'Q863908'}]
SELECT DISTINCT ?t WHERE { resource:Q22232243 property:P702 ?t . ?t rdf:type ontology:Q863908 }
50S ribosomal protein L1    Rv0641
action filter_type
action find
entity 50S ribosomal protein L1    Rv0641
relation encoded by
type nucleic acid sequence
['50S ribosomal protein L1    Rv0641', 'encoded by', {'concept': 'nucleic acid sequence'}]
SELECT DISTINCT ?t WHERE { resource:50S_ribosomal_protein_L1____Rv0641 property:encoded_by ?t . ?t rdf:type ontology:nucleic_acid_sequence }
[]
nucleic acid sequence
Q22227679
SYSTEM
50S ribosomal protein L1    Rv0641
Q22227679
(Q22232243,P702,c(Q863908))
action filter_type
action find
entity Q22232243
relation P702
type Q863908
50S ribosomal protein L1 Rv0641 encodes 50S ribosomal protein L1 Rv0641
['Q22232243', 'P702', {'concept': 'Q863908'}]
SELECT DISTINCT ?t WHERE { resource:Q22232243 property:P702 ?t . ?t rdf:type ontology:Q863908 }
50S ribosomal protein L1    Rv0641
50S ribosomal protein L1 Rv0641 encodes 50S ribosomal protein L1 Rv0641
50S ribosomal protein L1    Rv0641
action filter_type
action find
entity 50S ribosomal protein L1    Rv0641
relation encoded by
type nucleic acid sequence
['50S ribosomal protein L1    Rv0641', 'encoded by', {'concept': 'nucleic acid sequence'}]
SELECT DISTINCT ?t WHERE { resource:50S_ribosomal_protein_L1____Rv0641 property:encoded_by ?t . ?t rdf:type ontology:nucleic_acid_sequence }
[]
Verification (Boolean) (All)
Verification|3 entities, 2 direct, 2(direct) are query entities, subject is indirect
Q22227679 Q22233215 Q22232243
P688
Q181394
USER
Does that nucleic acid sequence encodes NADH pyrophosphatase    Rv3199c and 50S ribosomal protein L1    Rv0641 ?
(Q22227679,P688,Q22233215) (Q22227679,P688,Q22232243)
action is_in
entity Q22227679
action intersection
action find_reverse
entity Q22233215
relation P688
action find_reverse
entity Q22232243
relation P688
['Q22227679', 'P688', 'Q22233215'] ['Q22227679', 'P688', 'Q22232243']
ASK WHERE { resource:Q22227679 property:P688 resource:Q22232243 . resource:Q22227679 property:P688 resource:Q22233215 }
50S ribosomal protein L1    Rv0641 NADH pyrophosphatase    Rv3199c 50S ribosomal protein L1    Rv0641
action is_in
entity 50S ribosomal protein L1    Rv0641
action intersection
action find_reverse
entity NADH pyrophosphatase    Rv3199c
relation encodes
action find_reverse
entity 50S ribosomal protein L1    Rv0641
relation encodes
['50S ribosomal protein L1    Rv0641', 'encodes', 'NADH pyrophosphatase    Rv3199c'] ['50S ribosomal protein L1    Rv0641', 'encodes', '50S ribosomal protein L1    Rv0641']
ASK WHERE { resource:50S_ribosomal_protein_L1____Rv0641 property:encodes resource:50S_ribosomal_protein_L1____Rv0641 . resource:50S_ribosomal_protein_L1____Rv0641 property:encodes resource:NADH_pyrophosphatase____Rv3199c }
[]
nutrient
SYSTEM
NO and YES respectively
(Q22227679,P688,Q22233215) (Q22227679,P688,Q22232243)
action is_in
entity Q22227679
action intersection
action find_reverse
entity Q22233215
relation P688
action find_reverse
entity Q22232243
relation P688
[ANSWER]
['Q22227679', 'P688', 'Q22233215'] ['Q22227679', 'P688', 'Q22232243']
ASK WHERE { resource:Q22227679 property:P688 resource:Q22232243 . resource:Q22227679 property:P688 resource:Q22233215 }
NO and YES respectively
action is_in
entity 50S ribosomal protein L1    Rv0641
action intersection
action find_reverse
entity NADH pyrophosphatase    Rv3199c
relation encodes
action find_reverse
entity 50S ribosomal protein L1    Rv0641
relation encodes
['50S ribosomal protein L1    Rv0641', 'encodes', 'NADH pyrophosphatase    Rv3199c'] ['50S ribosomal protein L1    Rv0641', 'encodes', '50S ribosomal protein L1    Rv0641']
ASK WHERE { resource:50S_ribosomal_protein_L1____Rv0641 property:encodes resource:50S_ribosomal_protein_L1____Rv0641 . resource:50S_ribosomal_protein_L1____Rv0641 property:encodes resource:NADH_pyrophosphatase____Rv3199c }
[]
Logical Reasoning (All)
Logical|Union|Single_Relation
Q23500017 Q22232243
P703
Q631147
USER
Which infraspecific names are the taxon to which 50S ribosomal protein L1    Rv0641 or UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase    EF0993 belongs to ?
OR((Q22232243,P703,c(Q631147)), (Q23500017,P703,c(Q631147)))
action filter_type
action union
action find
entity Q22232243
relation P703
action find
entity Q23500017
relation P703
type Q631147
{'OR': [['Q22232243', 'P703', {'concept': 'Q631147'}], ['Q23500017', 'P703', {'concept': 'Q631147'}]]}
SELECT DISTINCT ?w WHERE { { { resource:Q22232243 property:P703 ?w } UNION { resource:Q23500017 property:P703 ?w } } . ?w rdf:type ontology:Q631147 }
UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase    EF0993 50S ribosomal protein L1    Rv0641
action filter_type
action union
action find
entity 50S ribosomal protein L1    Rv0641
relation found in taxon
action find
entity UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase    EF0993
relation found in taxon
type infraspecific name
{'OR': [['50S ribosomal protein L1    Rv0641', 'found in taxon', {'concept': 'infraspecific name'}], ['UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase    EF0993', 'found in taxon', {'concept': 'infraspecific name'}]]}
SELECT DISTINCT ?w WHERE { { { resource:50S_ribosomal_protein_L1____Rv0641 property:found_in_taxon ?w } UNION { resource:UDP-N-acetylmuramoyl-L-alanyl-D-glutamate_synthetase____EF0993 property:found_in_taxon ?w } } . ?w rdf:type ontology:infraspecific_name }
[]
infraspecific name
Q21102987 Q21102965
SYSTEM
Mycobacterium tuberculosis H37Rv, Enterococcus faecalis V583
Q21102987 Q21102965
OR((Q22232243,P703,c(Q631147)), (Q23500017,P703,c(Q631147)))
action filter_type
action union
action find
entity Q22232243
relation P703
action find
entity Q23500017
relation P703
type Q631147
In [ANSWERS] are the taxon to which 50S ribosomal protein L1 Rv0641 or UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase EF0993 belongs to
{'OR': [['Q22232243', 'P703', {'concept': 'Q631147'}], ['Q23500017', 'P703', {'concept': 'Q631147'}]]}
SELECT DISTINCT ?w WHERE { { { resource:Q22232243 property:P703 ?w } UNION { resource:Q23500017 property:P703 ?w } } . ?w rdf:type ontology:Q631147 }
Mycobacterium tuberculosis H37Rv Enterococcus faecalis V583
In Mycobacterium tuberculosis H37Rv and Enterococcus faecalis V583 are the taxon to which 50S ribosomal protein L1 Rv0641 or UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase EF0993 belongs to
Mycobacterium tuberculosis H37Rv Enterococcus faecalis V583
action filter_type
action union
action find
entity 50S ribosomal protein L1    Rv0641
relation found in taxon
action find
entity UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase    EF0993
relation found in taxon
type infraspecific name
{'OR': [['50S ribosomal protein L1    Rv0641', 'found in taxon', {'concept': 'infraspecific name'}], ['UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase    EF0993', 'found in taxon', {'concept': 'infraspecific name'}]]}
SELECT DISTINCT ?w WHERE { { { resource:50S_ribosomal_protein_L1____Rv0641 property:found_in_taxon ?w } UNION { resource:UDP-N-acetylmuramoyl-L-alanyl-D-glutamate_synthetase____EF0993 property:found_in_taxon ?w } } . ?w rdf:type ontology:infraspecific_name }
[]
Clarification
Comparative|More/Less|Mult. entity type|Indirect
P703
Q631147 Q863908 Q181394
USER
Which infraspecific names do greater number of nucleic acid sequences or nutrients belong to than that infraspecific name ?
(c(Q863908)|c(Q181394),P703,c(Q631147))
[[{'concept': 'Q863908'}, {'concept': 'Q181394'}], 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ?y WHERE { { { ?z property:P703 ?y } UNION { ?x property:P703 ?y } } . ?z rdf:type ontology:Q863908 . ?y rdf:type ontology:Q631147 . ?x rdf:type ontology:Q181394 }
[[{'concept': 'nucleic acid sequence'}, {'concept': 'nutrient'}], 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ?y WHERE { { { ?z property:found_in_taxon ?y } UNION { ?x property:found_in_taxon ?y } } . ?z rdf:type ontology:nucleic_acid_sequence . ?y rdf:type ontology:infraspecific_name . ?x rdf:type ontology:nutrient }
[]
infraspecific name nucleic acid sequence nutrient
Comparative|More/Less|Mult. entity type|Clarification
Q21102987
SYSTEM
Did you mean Mycobacterium tuberculosis H37Rv ?
(c(Q863908)|c(Q181394),P703,c(Q631147))
[ANSWER]
[[{'concept': 'Q863908'}, {'concept': 'Q181394'}], 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ?y WHERE { { { ?z property:P703 ?y } UNION { ?x property:P703 ?y } } . ?z rdf:type ontology:Q863908 . ?y rdf:type ontology:Q631147 . ?x rdf:type ontology:Q181394 }
Did you mean Mycobacterium tuberculosis H37Rv ?
Mycobacterium tuberculosis H37Rv
[[{'concept': 'nucleic acid sequence'}, {'concept': 'nutrient'}], 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ?y WHERE { { { ?z property:found_in_taxon ?y } UNION { ?x property:found_in_taxon ?y } } . ?z rdf:type ontology:nucleic_acid_sequence . ?y rdf:type ontology:infraspecific_name . ?x rdf:type ontology:nutrient }
[]
Comparative Reasoning (All)
USER
No, I meant Enterococcus faecalis V583. Could you tell me the answer for that?
(c(Q863908)|c(Q181394),P703,c(Q631147))
Q21102965
[[{'concept': 'Q863908'}, {'concept': 'Q181394'}], 'P703', {'concept': 'Q631147'}]
[[{'concept': 'nucleic acid sequence'}, {'concept': 'nutrient'}], 'found in taxon', {'concept': 'infraspecific name'}]
[]
Q21102993 Q21102995 Q21102996
SYSTEM
Burkholderia mallei ATCC 23344, Burkholderia pseudomallei K96243, Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Q21102993 Q21102995 Q21102996 Q21102997 Q21102998 Q21102999 Q27510868 Q21065229 Q21079489 Q21102943 Q21102942 Q21102941 Q21102940 Q21102947 Q21102946 Q21102920 Q21102930 Q21102987 Q21102925 Q21102924 Q21102927 Q21102986 Q21102928 Q21102918 Q21102988 Q21079490 Q21079491 Q21102984 Q21102973 Q21102944 Q21102954 Q21102955 Q21102950 Q21102953 Q21102976 Q23309229 Q21102972 Q21102970 Q21102971 Q21064863 Q21102931 Q21102937 Q21102934 Q21102938 Q21102939
(c(Q863908)|c(Q181394),P703,c(Q631147))
[ANSWERS] greater number of nucleic acid sequences or nutrients belong to than that infraspecific name
[[{'concept': 'Q863908'}, {'concept': 'Q181394'}], 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ?y WHERE { { { ?z property:P703 ?y } UNION { ?x property:P703 ?y } } . ?z rdf:type ontology:Q863908 . ?y rdf:type ontology:Q631147 . ?x rdf:type ontology:Q181394 }
Burkholderia mallei ATCC 23344 Burkholderia pseudomallei K96243 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 Salmonella enterica subsp. enterica serovar Typhi str. CT18 Amycolatopsis mediterranei U32 Geobacter sulfurreducens PCA Saccharomyces cerevisiae S288c Leptospira interrogans serovar Lai str. 56601 Pseudomonas putida KT2440 Yersinia pestis CO92 Yersinia enterocolitica subsp. enterocolitica 8081 Shigella flexneri 2a str. 301 Shigella dysenteriae Sd197 Vibrio parahaemolyticus RIMD 2210633 Vibrio fischeri ES114 Acinetobacter pittii PHEA-2 Escherichia coli O157:H7 str. Sakai Mycobacterium tuberculosis H37Rv Bordetella pertussis Tohama I Bordetella bronchiseptica 253 Enterobacter aerogenes KCTC 2190 Mycobacterium smegmatis str. MC2 155 Enterobacter cloacae subsp. cloacae ATCC 13047 Sinorhizobium meliloti 1021 Streptomyces coelicolor A3(2) Pseudomonas syringae pv. syringae B728a Xanthomonas campestris pv. campestris str. ATCC 33913 Mycobacterium bovis AF2122/97 Clostridium acetobutylicum ATCC 824 Aeromonas hydrophila subsp. hydrophila ATCC 7966 Rhodospirillum rubrum ATCC 11170 Chloroflexus aurantiacus J-10-fl Bacteroides fragilis YCH46 Rhodobacter sphaeroides 2.4.1 Peptoclostridium difficile 630 Sinorhizobium fredii NGR234 Bacillus thuringiensis serovar konkukian str. 97-27 Bacillus cereus ATCC 14579 Bacillus subtilis subsp. subtilis str. 168 Bordetella parapertussis Bpp5 Escherichia coli UMN026 Escherichia coli O104:H4 str. 2011C-3493 Escherichia coli O83:H1 str. NRG 857C Escherichia coli str. K-12 substr. MG1655 Klebsiella pneumoniae subsp. pneumoniae HS11286
Burkholderia mallei ATCC 23344, Burkholderia pseudomallei K96243 and Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 greater number of nucleic acid sequences or nutrients belong to than that infraspecific name
Burkholderia mallei ATCC 23344 Burkholderia pseudomallei K96243 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
[[{'concept': 'nucleic acid sequence'}, {'concept': 'nutrient'}], 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ?y WHERE { { { ?z property:found_in_taxon ?y } UNION { ?x property:found_in_taxon ?y } } . ?z rdf:type ontology:nucleic_acid_sequence . ?y rdf:type ontology:infraspecific_name . ?x rdf:type ontology:nutrient }
[]
Simple Question (Direct)
Simple Question|Single Entity
Q22232243
P681
Q15989253
USER
Which part is a component of 50S ribosomal protein L1    Rv0641 ?
(Q22232243,P681,c(Q15989253))
action filter_type
action find
entity Q22232243
relation P681
type Q15989253
['Q22232243', 'P681', {'concept': 'Q15989253'}]
SELECT DISTINCT ?e WHERE { ?e rdf:type ontology:Q15989253 . resource:Q22232243 property:P681 ?e }
50S ribosomal protein L1    Rv0641
action filter_type
action find
entity 50S ribosomal protein L1    Rv0641
relation cell component
type part
['50S ribosomal protein L1    Rv0641', 'cell component', {'concept': 'part'}]
SELECT DISTINCT ?e WHERE { ?e rdf:type ontology:part . resource:50S_ribosomal_protein_L1____Rv0641 property:cell_component ?e }
[]
part
Q42244
SYSTEM
ribosome
Q42244
(Q22232243,P681,c(Q15989253))
action filter_type
action find
entity Q22232243
relation P681
type Q15989253
The [ANSWER] is a component of 50S ribosomal protein L1 Rv0641
['Q22232243', 'P681', {'concept': 'Q15989253'}]
SELECT DISTINCT ?e WHERE { ?e rdf:type ontology:Q15989253 . resource:Q22232243 property:P681 ?e }
ribosome
The ribosome is a component of 50S ribosomal protein L1 Rv0641
ribosome
action filter_type
action find
entity 50S ribosomal protein L1    Rv0641
relation cell component
type part
['50S ribosomal protein L1    Rv0641', 'cell component', {'concept': 'part'}]
SELECT DISTINCT ?e WHERE { ?e rdf:type ontology:part . resource:50S_ribosomal_protein_L1____Rv0641 property:cell_component ?e }
[]
Logical Reasoning (All)
Logical|Intersection|Single_Relation|Incomplete
Q24130613 Q22232243
P681
Q15989253
USER
And also 30S ribosomal protein S17    EAE_04910
AND((Q22232243,P681,c(Q15989253)), (Q24130613,P681,c(Q15989253)))
action filter_type
action intersection
action find
entity Q22232243
relation P681
action find
entity Q24130613
relation P681
type Q15989253
{'AND': [['Q22232243', 'P681', {'concept': 'Q15989253'}], ['Q24130613', 'P681', {'concept': 'Q15989253'}]]}
SELECT DISTINCT ?h WHERE { ?h rdf:type ontology:Q15989253 . resource:Q24130613 property:P681 ?h . resource:Q22232243 property:P681 ?h }
30S ribosomal protein S17    EAE_04910 50S ribosomal protein L1    Rv0641
action filter_type
action intersection
action find
entity 50S ribosomal protein L1    Rv0641
relation cell component
action find
entity 30S ribosomal protein S17    EAE_04910
relation cell component
type part
{'AND': [['50S ribosomal protein L1    Rv0641', 'cell component', {'concept': 'part'}], ['30S ribosomal protein S17    EAE_04910', 'cell component', {'concept': 'part'}]]}
SELECT DISTINCT ?h WHERE { ?h rdf:type ontology:part . resource:30S_ribosomal_protein_S17____EAE_04910 property:cell_component ?h . resource:50S_ribosomal_protein_L1____Rv0641 property:cell_component ?h }
[]
part
Q42244
SYSTEM
ribosome
Q42244
AND((Q22232243,P681,c(Q15989253)), (Q24130613,P681,c(Q15989253)))
action filter_type
action intersection
action find
entity Q22232243
relation P681
action find
entity Q24130613
relation P681
type Q15989253
[ANSWER]
{'AND': [['Q22232243', 'P681', {'concept': 'Q15989253'}], ['Q24130613', 'P681', {'concept': 'Q15989253'}]]}
SELECT DISTINCT ?h WHERE { ?h rdf:type ontology:Q15989253 . resource:Q24130613 property:P681 ?h . resource:Q22232243 property:P681 ?h }
ribosome
ribosome
action filter_type
action intersection
action find
entity 50S ribosomal protein L1    Rv0641
relation cell component
action find
entity 30S ribosomal protein S17    EAE_04910
relation cell component
type part
{'AND': [['50S ribosomal protein L1    Rv0641', 'cell component', {'concept': 'part'}], ['30S ribosomal protein S17    EAE_04910', 'cell component', {'concept': 'part'}]]}
SELECT DISTINCT ?h WHERE { ?h rdf:type ontology:part . resource:30S_ribosomal_protein_S17____EAE_04910 property:cell_component ?h . resource:50S_ribosomal_protein_L1____Rv0641 property:cell_component ?h }
[]
Verification (Boolean) (All)
Verification|2 entities, one direct and one indirect, object is indirect
Q42244 Q27753471
P681
Q181394
USER
Is that part a cell component of N-acetylmuramic acid-6-phosphate etherase    SCO4307 ?
(Q27753471,P681,Q42244)
action is_in
entity Q27753471
action find
entity Q42244
relation P681
['Q27753471', 'P681', 'Q42244']
ASK WHERE { resource:Q42244 property:P681 resource:Q27753471 }
ribosome N-acetylmuramic acid-6-phosphate etherase    SCO4307
action is_in
entity N-acetylmuramic acid-6-phosphate etherase    SCO4307
action find
entity ribosome
relation cell component
['N-acetylmuramic acid-6-phosphate etherase    SCO4307', 'cell component', 'ribosome']
ASK WHERE { resource:ribosome property:cell_component resource:N-acetylmuramic_acid-6-phosphate_etherase____SCO4307 }
[]
nutrient
SYSTEM
NO
(Q27753471,P681,Q42244)
action is_in
entity Q27753471
action find
entity Q42244
relation P681
[ANSWER]
['Q27753471', 'P681', 'Q42244']
ASK WHERE { resource:Q42244 property:P681 resource:Q27753471 }
No
action is_in
entity N-acetylmuramic acid-6-phosphate etherase    SCO4307
action find
entity ribosome
relation cell component
['N-acetylmuramic acid-6-phosphate etherase    SCO4307', 'cell component', 'ribosome']
ASK WHERE { resource:ribosome property:cell_component resource:N-acetylmuramic_acid-6-phosphate_etherase____SCO4307 }
[]