Simple Question (Direct)
Simple Question
Q23489081
P702
Q863908
USER
What is the gene that encodes single-stranded DNA-binding protein    SSUBM407_0140 ?
(Q23489081,P702,c(Q863908))
action filter_type
action find
entity Q23489081
relation P702
type Q863908
['Q23489081', 'P702', {'concept': 'Q863908'}]
SELECT DISTINCT ?j WHERE { resource:Q23489081 property:P702 ?j . ?j rdf:type ontology:Q863908 }
single-stranded DNA-binding protein    SSUBM407_0140
action filter_type
action find
entity single-stranded DNA-binding protein    SSUBM407_0140
relation encoded by
type nucleic acid sequence
['single-stranded DNA-binding protein    SSUBM407_0140', 'encoded by', {'concept': 'nucleic acid sequence'}]
SELECT DISTINCT ?j WHERE { resource:single-stranded_DNA-binding_protein____SSUBM407_0140 property:encoded_by ?j . ?j rdf:type ontology:nucleic_acid_sequence }
[]
nucleic acid sequence
Q23215500
SYSTEM
single-stranded DNA-binding protein    SSUBM407_0140
Q23215500
(Q23489081,P702,c(Q863908))
action filter_type
action find
entity Q23489081
relation P702
type Q863908
The gene that encodes single-stranded DNA-binding protein SSUBM407_0140 is codes single-stranded DNA-binding protein SSUBM407 0140
['Q23489081', 'P702', {'concept': 'Q863908'}]
SELECT DISTINCT ?j WHERE { resource:Q23489081 property:P702 ?j . ?j rdf:type ontology:Q863908 }
single-stranded DNA-binding protein    SSUBM407_0140
The gene that encodes single-stranded DNA-binding protein SSUBM407_0140 is codes single-stranded DNA-binding protein SSUBM407 0140
single-stranded DNA-binding protein    SSUBM407_0140
action filter_type
action find
entity single-stranded DNA-binding protein    SSUBM407_0140
relation encoded by
type nucleic acid sequence
['single-stranded DNA-binding protein    SSUBM407_0140', 'encoded by', {'concept': 'nucleic acid sequence'}]
SELECT DISTINCT ?j WHERE { resource:single-stranded_DNA-binding_protein____SSUBM407_0140 property:encoded_by ?j . ?j rdf:type ontology:nucleic_acid_sequence }
[]
Simple Question (Coreferenced)
Simple Question|Single Entity|Indirect
Q23489081
P688
Q863908
USER
Which nucleic acid sequence encodes that nutrient ?
(c(Q863908),P688,Q23215500)
action filter_type
action find_reverse
entity Q23489081
relation P688
type Q863908
[{'concept': 'Q863908'}, 'P688', 'Q23215500']
SELECT DISTINCT ?d WHERE { ?d property:P688 resource:Q23489081 . ?d rdf:type ontology:Q863908 }
single-stranded DNA-binding protein    SSUBM407_0140
action filter_type
action find_reverse
entity single-stranded DNA-binding protein    SSUBM407_0140
relation encodes
type nucleic acid sequence
[{'concept': 'nucleic acid sequence'}, 'encodes', 'single-stranded DNA-binding protein    SSUBM407_0140']
SELECT DISTINCT ?d WHERE { ?d property:encodes resource:single-stranded_DNA-binding_protein____SSUBM407_0140 . ?d rdf:type ontology:nucleic_acid_sequence }
[]
nucleic acid sequence
Q23215500
SYSTEM
single-stranded DNA-binding protein    SSUBM407_0140
Q23215500
(c(Q863908),P688,Q23215500)
action filter_type
action find_reverse
entity Q23489081
relation P688
type Q863908
The single-stranded DNA-binding protein SSUBM407 0140 encodes that nutrient
[{'concept': 'Q863908'}, 'P688', 'Q23215500']
SELECT DISTINCT ?d WHERE { ?d property:P688 resource:Q23489081 . ?d rdf:type ontology:Q863908 }
single-stranded DNA-binding protein    SSUBM407_0140
The single-stranded DNA-binding protein SSUBM407 0140 encodes that nutrient
single-stranded DNA-binding protein    SSUBM407_0140
action filter_type
action find_reverse
entity single-stranded DNA-binding protein    SSUBM407_0140
relation encodes
type nucleic acid sequence
[{'concept': 'nucleic acid sequence'}, 'encodes', 'single-stranded DNA-binding protein    SSUBM407_0140']
SELECT DISTINCT ?d WHERE { ?d property:encodes resource:single-stranded_DNA-binding_protein____SSUBM407_0140 . ?d rdf:type ontology:nucleic_acid_sequence }
[]
Verification (Boolean) (All)
Verification|3 entities, 2 direct, 2(direct) are query entities, subject is indirect
Q23215500 Q23051549 Q23564425
P688
Q181394
USER
Does that nucleic acid sequence encodes ABC peptide transporter, inner membrane subunit    RSP_3232 and glycerate kinase    STY3097 ?
(Q23215500,P688,Q23051549) (Q23215500,P688,Q23564425)
action is_in
entity Q23215500
action intersection
action find_reverse
entity Q23051549
relation P688
action find_reverse
entity Q23564425
relation P688
['Q23215500', 'P688', 'Q23051549'] ['Q23215500', 'P688', 'Q23564425']
ASK WHERE { resource:Q23215500 property:P688 resource:Q23051549 . resource:Q23215500 property:P688 resource:Q23564425 }
single-stranded DNA-binding protein    SSUBM407_0140 ABC peptide transporter, inner membrane subunit    RSP_3232 glycerate kinase    STY3097
action is_in
entity single-stranded DNA-binding protein    SSUBM407_0140
action intersection
action find_reverse
entity ABC peptide transporter, inner membrane subunit    RSP_3232
relation encodes
action find_reverse
entity glycerate kinase    STY3097
relation encodes
['single-stranded DNA-binding protein    SSUBM407_0140', 'encodes', 'ABC peptide transporter, inner membrane subunit    RSP_3232'] ['single-stranded DNA-binding protein    SSUBM407_0140', 'encodes', 'glycerate kinase    STY3097']
ASK WHERE { resource:single-stranded_DNA-binding_protein____SSUBM407_0140 property:encodes resource:ABC_peptide_transporter,_inner_membrane_subunit____RSP_3232 . resource:single-stranded_DNA-binding_protein____SSUBM407_0140 property:encodes resource:glycerate_kinase____STY3097 }
[]
nutrient
SYSTEM
NO
(Q23215500,P688,Q23051549) (Q23215500,P688,Q23564425)
action is_in
entity Q23215500
action intersection
action find_reverse
entity Q23051549
relation P688
action find_reverse
entity Q23564425
relation P688
[ANSWER]
['Q23215500', 'P688', 'Q23051549'] ['Q23215500', 'P688', 'Q23564425']
ASK WHERE { resource:Q23215500 property:P688 resource:Q23051549 . resource:Q23215500 property:P688 resource:Q23564425 }
No
action is_in
entity single-stranded DNA-binding protein    SSUBM407_0140
action intersection
action find_reverse
entity ABC peptide transporter, inner membrane subunit    RSP_3232
relation encodes
action find_reverse
entity glycerate kinase    STY3097
relation encodes
['single-stranded DNA-binding protein    SSUBM407_0140', 'encodes', 'ABC peptide transporter, inner membrane subunit    RSP_3232'] ['single-stranded DNA-binding protein    SSUBM407_0140', 'encodes', 'glycerate kinase    STY3097']
ASK WHERE { resource:single-stranded_DNA-binding_protein____SSUBM407_0140 property:encodes resource:ABC_peptide_transporter,_inner_membrane_subunit____RSP_3232 . resource:single-stranded_DNA-binding_protein____SSUBM407_0140 property:encodes resource:glycerate_kinase____STY3097 }
[]
Logical Reasoning (All)
Logical|Union|Single_Relation
Q24140167 Q23564425
P703
Q631147
USER
Which infraspecific names do glycerate kinase    STY3097 or putative MFS sugar transporter; membrane protein    b2771 belong to ?
OR((Q23564425,P703,c(Q631147)), (Q24140167,P703,c(Q631147)))
action filter_type
action union
action find
entity Q23564425
relation P703
action find
entity Q24140167
relation P703
type Q631147
{'OR': [['Q23564425', 'P703', {'concept': 'Q631147'}], ['Q24140167', 'P703', {'concept': 'Q631147'}]]}
SELECT DISTINCT ?t WHERE { { VALUES ( ?f ) { ( resource:Q24140167 ) ( resource:Q23564425 ) } . ?f property:P703 ?t } . ?t rdf:type ontology:Q631147 }
putative MFS sugar transporter; membrane protein    b2771 glycerate kinase    STY3097
action filter_type
action union
action find
entity glycerate kinase    STY3097
relation found in taxon
action find
entity putative MFS sugar transporter; membrane protein    b2771
relation found in taxon
type infraspecific name
{'OR': [['glycerate kinase    STY3097', 'found in taxon', {'concept': 'infraspecific name'}], ['putative MFS sugar transporter; membrane protein    b2771', 'found in taxon', {'concept': 'infraspecific name'}]]}
SELECT DISTINCT ?t WHERE { { VALUES ( ?f ) { ( resource:putative_MFS_sugar_transporter;_membrane_protein____b2771 ) ( resource:glycerate_kinase____STY3097 ) } . ?f property:found_in_taxon ?t } . ?t rdf:type ontology:infraspecific_name }
[]
infraspecific name
Q21102938 Q21102997
SYSTEM
Escherichia coli str. K-12 substr. MG1655, Salmonella enterica subsp. enterica serovar Typhi str. CT18
Q21102938 Q21102997
OR((Q23564425,P703,c(Q631147)), (Q24140167,P703,c(Q631147)))
action filter_type
action union
action find
entity Q23564425
relation P703
action find
entity Q24140167
relation P703
type Q631147
[ANSWERS] glycerate kinase STY3097 or putative MFS sugar transporter; membrane protein b2771 belong to
{'OR': [['Q23564425', 'P703', {'concept': 'Q631147'}], ['Q24140167', 'P703', {'concept': 'Q631147'}]]}
SELECT DISTINCT ?t WHERE { { VALUES ( ?f ) { ( resource:Q24140167 ) ( resource:Q23564425 ) } . ?f property:P703 ?t } . ?t rdf:type ontology:Q631147 }
Escherichia coli str. K-12 substr. MG1655 Salmonella enterica subsp. enterica serovar Typhi str. CT18
Escherichia coli str. K-12 substr. MG1655 and Salmonella enterica subsp. enterica serovar Typhi str. CT18 glycerate kinase STY3097 or putative MFS sugar transporter; membrane protein b2771 belong to
Escherichia coli str. K-12 substr. MG1655 Salmonella enterica subsp. enterica serovar Typhi str. CT18
action filter_type
action union
action find
entity glycerate kinase    STY3097
relation found in taxon
action find
entity putative MFS sugar transporter; membrane protein    b2771
relation found in taxon
type infraspecific name
{'OR': [['glycerate kinase    STY3097', 'found in taxon', {'concept': 'infraspecific name'}], ['putative MFS sugar transporter; membrane protein    b2771', 'found in taxon', {'concept': 'infraspecific name'}]]}
SELECT DISTINCT ?t WHERE { { VALUES ( ?f ) { ( resource:putative_MFS_sugar_transporter;_membrane_protein____b2771 ) ( resource:glycerate_kinase____STY3097 ) } . ?f property:found_in_taxon ?t } . ?t rdf:type ontology:infraspecific_name }
[]
Clarification
Comparative|Count over More/Less|Single entity type|Indirect
P703
Q631147 Q863908
USER
How many infraspecific names do around the same number of nucleic acid sequences belong to as that infraspecific name ?
(c(Q863908),P703,c(Q631147))
[{'concept': 'Q863908'}, 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ( COUNT ( ?y ) AS ?x ) WHERE { ?z property:P703 ?y . ?z rdf:type ontology:Q863908 . ?y rdf:type ontology:Q631147 }
[{'concept': 'nucleic acid sequence'}, 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ( COUNT ( ?y ) AS ?x ) WHERE { ?z property:found_in_taxon ?y . ?z rdf:type ontology:nucleic_acid_sequence . ?y rdf:type ontology:infraspecific_name }
[]
infraspecific name nucleic acid sequence
Comparative|Count over More/Less|Single entity type|Clarification
Q21102997
SYSTEM
Did you mean Salmonella enterica subsp. enterica serovar Typhi str. CT18 ?
(c(Q863908),P703,c(Q631147))
[ANSWER]
[{'concept': 'Q863908'}, 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ( COUNT ( ?y ) AS ?x ) WHERE { ?z property:P703 ?y . ?z rdf:type ontology:Q863908 . ?y rdf:type ontology:Q631147 }
Did you mean Salmonella enterica subsp. enterica serovar Typhi str. CT18 ?
Salmonella enterica subsp. enterica serovar Typhi str. CT18
[{'concept': 'nucleic acid sequence'}, 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ( COUNT ( ?y ) AS ?x ) WHERE { ?z property:found_in_taxon ?y . ?z rdf:type ontology:nucleic_acid_sequence . ?y rdf:type ontology:infraspecific_name }
[]
Comparative Reasoning (Count) (All)
USER
No, I meant Escherichia coli str. K-12 substr. MG1655. Could you tell me the answer for that?
(c(Q863908),P703,c(Q631147))
Q21102938
[{'concept': 'Q863908'}, 'P703', {'concept': 'Q631147'}]
[{'concept': 'nucleic acid sequence'}, 'found in taxon', {'concept': 'infraspecific name'}]
[]
SYSTEM
52
Q21102993 Q21102995 Q21102996 Q21102997 Q21102999 Q21065229 Q21079489 Q21102919 Q21102943 Q21102942 Q21102941 Q21102940 Q21102947 Q21102946 Q21102920 Q21102965 Q21102966 Q21102930 Q21102987 Q21102925 Q21102924 Q21102927 Q21102928 Q21102974 Q21079490 Q21079491 Q21102984 Q21102983 Q21102981 Q21102973 Q21102944 Q21102954 Q21102955 Q21102956 Q21102957 Q21102950 Q21102978 Q21102953 Q21102976 Q21102975 Q21102972 Q21102959 Q21102970 Q21102971 Q21064863 Q21102931 Q21102937 Q21102934 Q21102979 Q21079559 Q21102938 Q21102939
(c(Q863908),P703,c(Q631147))
[ANSWER]
[{'concept': 'Q863908'}, 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ( COUNT ( ?y ) AS ?x ) WHERE { ?z property:P703 ?y . ?z rdf:type ontology:Q863908 . ?y rdf:type ontology:Q631147 }
Burkholderia mallei ATCC 23344 Burkholderia pseudomallei K96243 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 Salmonella enterica subsp. enterica serovar Typhi str. CT18 Geobacter sulfurreducens PCA Leptospira interrogans serovar Lai str. 56601 Pseudomonas putida KT2440 Legionella pneumophila subsp. pneumophila str. Philadelphia 1 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 Enterococcus faecalis V583 Enterococcus faecium DO Escherichia coli O157:H7 str. Sakai Mycobacterium tuberculosis H37Rv Bordetella pertussis Tohama I Bordetella bronchiseptica 253 Enterobacter aerogenes KCTC 2190 Enterobacter cloacae subsp. cloacae ATCC 13047 Clostridium botulinum A str. Hall Pseudomonas syringae pv. syringae B728a Xanthomonas campestris pv. campestris str. ATCC 33913 Mycobacterium bovis AF2122/97 Corynebacterium glutamicum ATCC 13032 Listeria monocytogenes EGD-e Clostridium acetobutylicum ATCC 824 Aeromonas hydrophila subsp. hydrophila ATCC 7966 Rhodospirillum rubrum ATCC 11170 Chloroflexus aurantiacus J-10-fl Staphylococcus aureus subsp. aureus NCTC 8325 Staphylococcus epidermidis ATCC 12228 Bacteroides fragilis YCH46 Lactobacillus casei ATCC 334 Rhodobacter sphaeroides 2.4.1 Peptoclostridium difficile 630 Clostridium botulinum A str. ATCC 3502 Bacillus thuringiensis serovar konkukian str. 97-27 Deinococcus radiodurans R1 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 Lactobacillus plantarum WCFS1 Salinibacter ruber DSM 13855 Escherichia coli str. K-12 substr. MG1655 Klebsiella pneumoniae subsp. pneumoniae HS11286
52
[{'concept': 'nucleic acid sequence'}, 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ( COUNT ( ?y ) AS ?x ) WHERE { ?z property:found_in_taxon ?y . ?z rdf:type ontology:nucleic_acid_sequence . ?y rdf:type ontology:infraspecific_name }
[]
Quantitative Reasoning (Count) (All)
Incomplete count-based ques
Q24098403
Q631147
USER
And also tell me about glutamyl-tRNA reductase    XCC0868?
(Q24098403,P703,c(Q631147))
action count
action filter_type
action find
entity Q24098403
relation P703
type Q631147
['Q24098403', 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ( COUNT ( ?x ) AS ?l ) WHERE { resource:Q24098403 property:P703 ?x . ?x rdf:type ontology:Q631147 }
glutamyl-tRNA reductase    XCC0868
action count
action filter_type
action find
entity glutamyl-tRNA reductase    XCC0868
relation found in taxon
type infraspecific name
['glutamyl-tRNA reductase    XCC0868', 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ( COUNT ( ?x ) AS ?l ) WHERE { resource:glutamyl-tRNA_reductase____XCC0868 property:found_in_taxon ?x . ?x rdf:type ontology:infraspecific_name }
[]
infraspecific name
SYSTEM
1
(Q24098403,P703,c(Q631147))
action count
action filter_type
action find
entity Q24098403
relation P703
type Q631147
[ANSWER]
['Q24098403', 'P703', {'concept': 'Q631147'}]
SELECT DISTINCT ( COUNT ( ?x ) AS ?l ) WHERE { resource:Q24098403 property:P703 ?x . ?x rdf:type ontology:Q631147 }
1
action count
action filter_type
action find
entity glutamyl-tRNA reductase    XCC0868
relation found in taxon
type infraspecific name
['glutamyl-tRNA reductase    XCC0868', 'found in taxon', {'concept': 'infraspecific name'}]
SELECT DISTINCT ( COUNT ( ?x ) AS ?l ) WHERE { resource:glutamyl-tRNA_reductase____XCC0868 property:found_in_taxon ?x . ?x rdf:type ontology:infraspecific_name }
[]