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PMC:3320587 / 24192-25398 JSONTXT

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2_test

Id Subject Object Predicate Lexical cue
22496647-2795721-98010792 733-735 2795721 denotes 41
22496647-8419644-98010793 738-740 8419644 denotes 46

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T9193 1204-1205 -RRB- denotes )
T9192 1199-1204 VB denotes shown
T9191 1195-1198 RB denotes not
T9190 1190-1194 NN denotes data
T9189 1189-1190 -LRB- denotes (
T9188 1183-1188 NN denotes clone
T9187 1172-1182 JJ denotes infectious
T9186 1167-1171 DT denotes this
T9185 1164-1166 IN denotes of
T9184 1148-1163 NN denotes internalization
T9183 1144-1147 CC denotes and
T9182 1133-1143 NN denotes engagement
T9181 1121-1132 NN denotes co-receptor
T9180 1114-1120 JJ denotes proper
T9179 1103-1113 VB denotes indicating
T9178 1101-1102 -COMMA- denotes ,
T9177 1093-1101 NN denotes HIV-1Bal
T9176 1083-1092 JJ denotes wild-type
T9175 1080-1082 TO denotes to
T9174 1075-1079 NN denotes rate
T9173 1067-1074 JJ denotes similar
T9172 1065-1066 DT denotes a
T9171 1062-1064 IN denotes at
T9170 1057-1061 NN denotes PBMC
T9169 1054-1056 IN denotes in
T9168 1049-1053 VB denotes grew
T9167 1032-1048 NN denotes HIV-1Lai/Bal-Env
T9166 1027-1031 IN denotes that
T9165 1017-1026 VB denotes confirmed
T9164 1014-1016 PRP denotes we
T9163 1009-1013 IN denotes that
T9162 1004-1008 VB denotes note
T9161 1001-1003 PRP denotes We
T9160 993-999 NN denotes region
T9159 985-992 NN denotes binding
T9158 973-984 NN denotes co-receptor
T9157 964-972 NN denotes envelope
T9156 955-963 NN denotes HIV-1Lai
T9155 951-954 DT denotes the
T9154 948-950 IN denotes of
T9153 942-947 NN denotes place
T9152 939-941 IN denotes in
T9151 932-938 NN denotes region
T9150 924-931 NN denotes binding
T9149 912-923 NN denotes co-receptor
T9148 903-911 NN denotes envelope
T9147 894-902 JJ denotes HIV-1Bal
T9146 890-893 DT denotes the
T9145 887-889 IN denotes of
T9144 874-886 NN denotes substitution
T9143 870-873 DT denotes the
T9142 866-869 IN denotes for
T9141 859-865 IN denotes except
T9140 853-858 NN denotes clone
T9139 842-852 JJ denotes infectious
T9138 833-841 NN denotes HIV-1Lai
T9137 824-832 JJ denotes parental
T9136 820-823 DT denotes the
T9135 817-819 IN denotes of
T9134 808-816 NN denotes sequence
T9133 801-807 JJ denotes entire
T9132 797-800 DT denotes the
T9131 793-796 IN denotes for
T9130 784-792 JJ denotes isogenic
T9129 781-783 VB denotes is
T9128 775-780 NN denotes clone
T9127 764-774 JJ denotes infectious
T9126 747-763 NN denotes HIV-1Lai/Bal-Env
T9125 743-746 DT denotes The
T9124 740-741 -RRB- denotes ]
T9123 738-740 CD denotes 46
T9122 737-738 -LRB- denotes [
T9121 736-737 CD denotes –
T9120 735-736 -RRB- denotes ]
T9119 733-735 CD denotes 41
T9118 732-733 -LRB- denotes [
T9117 720-731 NN denotes replication
T9116 714-719 JJ denotes viral
T9115 702-713 JJ denotes full-length
T9114 699-701 IN denotes of
T9113 691-698 NN denotes context
T9112 687-690 DT denotes the
T9111 684-686 IN denotes in
T9110 673-683 NN denotes regulation
T9109 669-672 NN denotes LTR
T9108 660-668 VB denotes examined
T9107 655-659 WDT denotes that
T9106 646-654 NN denotes findings
T9105 637-645 NN denotes research
T9104 628-636 JJ denotes previous
T9103 625-627 IN denotes of
T9102 617-624 NN denotes context
T9101 610-616 JJ denotes proper
T9100 606-609 DT denotes the
T9099 603-605 IN denotes in
T9098 591-602 VB denotes interpreted
T9097 588-590 VB denotes be
T9096 582-587 MD denotes could
T9095 570-581 NN denotes replication
T9094 564-569 NN denotes HIV-1
T9093 552-563 JJ denotes MTb-induced
T9092 549-551 IN denotes in
T9091 543-548 NN denotes NFAT5
T9090 539-542 CC denotes and
T9089 533-538 NN denotes NF-κB
T9088 530-532 IN denotes of
T9087 524-529 NN denotes roles
T9086 520-523 DT denotes the
T9085 517-519 IN denotes of
T9084 508-516 NN denotes analysis
T9083 504-507 PRP-DOLLAR- denotes our
T9082 499-503 IN denotes that
T9081 492-498 VB denotes ensure
T9080 489-491 TO denotes to
T9079 480-488 NN denotes approach
T9078 475-479 DT denotes this
T9077 470-474 VB denotes used
T9076 467-469 PRP denotes We
T9075 462-465 NN denotes MDM
T9074 454-461 JJ denotes primary
T9073 447-453 VB denotes infect
T9072 435-446 RB denotes efficiently
T9071 429-434 MD denotes would
T9070 426-428 PRP denotes it
T9069 421-425 IN denotes that
T9068 418-420 IN denotes so
T9067 416-417 -RRB- denotes )
T9066 400-416 NN denotes HIV-1Lai/Bal-env
T9065 399-400 -LRB- denotes (
T9064 390-398 JJ denotes HIV-1Bal
T9063 387-389 IN denotes of
T9062 380-386 NN denotes region
T9061 371-379 NN denotes envelope
T9060 359-370 JJ denotes CCR5-tropic
T9059 355-358 DT denotes the
T9058 347-354 VB denotes bearing
T9057 341-346 NN denotes clone
T9056 332-340 NN denotes HIV-1Lai
T9055 329-331 DT denotes an
T9054 317-328 VB denotes constructed
T9053 311-316 RB denotes first
T9052 308-310 PRP denotes we
T9051 306-307 -COMMA- denotes ,
T9050 296-306 NN denotes experiment
T9049 291-295 DT denotes this
T9048 283-290 VB denotes perform
T9047 280-282 TO denotes To
T9046 275-278 NN denotes MTb
T9045 272-274 IN denotes of
T9044 264-271 NN denotes isolate
T9043 255-263 JJ denotes clinical
T9042 253-254 DT denotes a
T9041 249-252 CC denotes and
T9040 243-248 NN denotes clone
T9039 233-242 JJ denotes molecular
T9038 222-232 JJ denotes infectious
T9037 213-221 NN denotes HIV-1Lai
T9036 211-212 NN denotes B
T9035 203-210 NN denotes subtype
T9034 201-202 DT denotes a
T9033 196-200 IN denotes with
T9032 184-195 VB denotes co-infected
T9031 180-183 NN denotes MDM
T9030 177-179 IN denotes in
T9029 170-176 NN denotes levels
T9028 165-169 NN denotes mRNA
T9027 159-164 NN denotes NFAT5
T9026 156-158 IN denotes of
T9025 147-155 NN denotes ablation
T9024 132-146 JJ denotes siRNA-mediated
T9023 129-131 IN denotes of
T9022 122-128 NN denotes effect
T9021 118-121 DT denotes the
T9020 111-117 VB denotes tested
T9019 106-110 RB denotes next
T9018 103-105 PRP denotes we
T9017 101-102 -COMMA- denotes ,
T9016 96-101 NN denotes model
T9015 83-95 NN denotes co-infection
T9014 76-82 NN denotes TB/HIV
T9013 62-75 JJ denotes physiological
T9012 60-61 DT denotes a
T9011 57-59 TO denotes to
T9010 50-56 NN denotes assays
T9009 41-49 NN denotes reporter
T9008 37-40 DT denotes the
T9007 34-36 IN denotes in
T9006 25-33 VB denotes obtained
T9005 22-24 PRP denotes we
T9004 14-21 NN denotes results
T9003 10-13 DT denotes the
T9002 3-9 VB denotes extend
T9001 0-2 TO denotes To
R7015 T9002 T9001 arg1Of extend,To
R7016 T9002 T9011 arg1Of extend,to
R7017 T9004 T9002 arg2Of results,extend
R7018 T9004 T9003 arg1Of results,the
R7019 T9004 T9006 arg2Of results,obtained
R7020 T9005 T9006 arg1Of we,obtained
R7021 T9006 T9007 arg1Of obtained,in
R7022 T9010 T9007 arg2Of assays,in
R7023 T9010 T9008 arg1Of assays,the
R7024 T9010 T9009 arg1Of assays,reporter
R7025 T9016 T9011 arg2Of model,to
R7026 T9016 T9012 arg1Of model,a
R7027 T9016 T9013 arg1Of model,physiological
R7028 T9016 T9014 arg1Of model,TB/HIV
R7029 T9016 T9015 arg1Of model,co-infection
R7030 T9018 T9002 arg1Of we,extend
R7031 T9018 T9020 arg1Of we,tested
R7032 T9020 T9001 modOf tested,To
R7033 T9020 T9017 arg1Of tested,","
R7034 T9020 T9019 arg1Of tested,next
R7035 T9020 T9030 arg1Of tested,in
R7036 T9022 T9020 arg2Of effect,tested
R7037 T9022 T9021 arg1Of effect,the
R7038 T9022 T9023 arg1Of effect,of
R7039 T9025 T9023 arg2Of ablation,of
R7040 T9025 T9024 arg1Of ablation,siRNA-mediated
R7041 T9025 T9026 arg1Of ablation,of
R7042 T9029 T9026 arg2Of levels,of
R7043 T9029 T9027 arg1Of levels,NFAT5
R7044 T9029 T9028 arg1Of levels,mRNA
R7045 T9031 T9030 arg2Of MDM,in
R7046 T9031 T9032 arg2Of MDM,co-infected
R7047 T9032 T9033 arg1Of co-infected,with
R7048 T9040 T9034 arg1Of clone,a
R7049 T9040 T9035 arg1Of clone,subtype
R7050 T9040 T9036 arg1Of clone,B
R7051 T9040 T9037 arg1Of clone,HIV-1Lai
R7052 T9040 T9038 arg1Of clone,infectious
R7053 T9040 T9039 arg1Of clone,molecular
R7054 T9040 T9041 arg1Of clone,and
R7055 T9041 T9033 arg2Of and,with
R7056 T9044 T9041 arg2Of isolate,and
R7057 T9044 T9042 arg1Of isolate,a
R7058 T9044 T9043 arg1Of isolate,clinical
R7059 T9044 T9045 arg1Of isolate,of
R7060 T9046 T9045 arg2Of MTb,of
R7061 T9048 T9047 arg1Of perform,To
R7062 T9050 T9048 arg2Of experiment,perform
R7063 T9050 T9049 arg1Of experiment,this
R7064 T9052 T9048 arg1Of we,perform
R7065 T9052 T9054 arg1Of we,constructed
R7066 T9054 T9047 modOf constructed,To
R7067 T9054 T9051 arg1Of constructed,","
R7068 T9054 T9053 arg1Of constructed,first
R7069 T9057 T9054 arg2Of clone,constructed
R7070 T9057 T9055 arg1Of clone,an
R7071 T9057 T9056 arg1Of clone,HIV-1Lai
R7072 T9057 T9058 arg1Of clone,bearing
R7073 T9058 T9068 arg1Of bearing,so
R7074 T9062 T9058 arg2Of region,bearing
R7075 T9062 T9059 arg1Of region,the
R7076 T9062 T9060 arg1Of region,CCR5-tropic
R7077 T9062 T9061 arg1Of region,envelope
R7078 T9062 T9063 arg1Of region,of
R7079 T9064 T9063 arg2Of HIV-1Bal,of
R7080 T9064 T9065 arg1Of HIV-1Bal,(
R7081 T9066 T9065 arg2Of HIV-1Lai/Bal-env,(
R7082 T9067 T9065 arg3Of ),(
R7083 T9068 T9069 arg1Of so,that
R7084 T9070 T9071 arg1Of it,would
R7085 T9070 T9073 arg1Of it,infect
R7086 T9073 T9068 arg2Of infect,so
R7087 T9073 T9071 arg2Of infect,would
R7088 T9073 T9072 arg1Of infect,efficiently
R7089 T9075 T9073 arg2Of MDM,infect
R7090 T9075 T9074 arg1Of MDM,primary
R7091 T9076 T9077 arg1Of We,used
R7092 T9076 T9081 arg1Of We,ensure
R7093 T9079 T9077 arg2Of approach,used
R7094 T9079 T9078 arg1Of approach,this
R7095 T9081 T9077 arg3Of ensure,used
R7096 T9081 T9080 arg1Of ensure,to
R7097 T9084 T9083 arg1Of analysis,our
R7098 T9084 T9085 arg1Of analysis,of
R7099 T9084 T9096 arg1Of analysis,could
R7100 T9084 T9097 arg1Of analysis,be
R7101 T9084 T9098 arg2Of analysis,interpreted
R7102 T9087 T9085 arg2Of roles,of
R7103 T9087 T9086 arg1Of roles,the
R7104 T9087 T9088 arg1Of roles,of
R7105 T9089 T9090 arg1Of NF-κB,and
R7106 T9090 T9088 arg2Of and,of
R7107 T9090 T9092 arg1Of and,in
R7108 T9091 T9090 arg2Of NFAT5,and
R7109 T9095 T9092 arg2Of replication,in
R7110 T9095 T9093 arg1Of replication,MTb-induced
R7111 T9095 T9094 arg1Of replication,HIV-1
R7112 T9098 T9081 arg2Of interpreted,ensure
R7113 T9098 T9082 arg1Of interpreted,that
R7114 T9098 T9096 arg2Of interpreted,could
R7115 T9098 T9097 arg2Of interpreted,be
R7116 T9098 T9099 arg1Of interpreted,in
R7117 T9098 T9111 arg1Of interpreted,in
R7118 T9102 T9099 arg2Of context,in
R7119 T9102 T9100 arg1Of context,the
R7120 T9102 T9101 arg1Of context,proper
R7121 T9102 T9103 arg1Of context,of
R7122 T9106 T9103 arg2Of findings,of
R7123 T9106 T9104 arg1Of findings,previous
R7124 T9106 T9105 arg1Of findings,research
R7125 T9106 T9107 arg1Of findings,that
R7126 T9106 T9108 arg1Of findings,examined
R7127 T9110 T9108 arg2Of regulation,examined
R7128 T9110 T9109 arg1Of regulation,LTR
R7129 T9113 T9111 arg2Of context,in
R7130 T9113 T9112 arg1Of context,the
R7131 T9113 T9114 arg1Of context,of
R7132 T9117 T9114 arg2Of replication,of
R7133 T9117 T9115 arg1Of replication,full-length
R7134 T9117 T9116 arg1Of replication,viral
R7135 T9119 T9118 arg2Of 41,[
R7136 T9120 T9118 arg3Of ],[
R7137 T9121 T9111 arg3Of –,in
R7138 T9121 T9118 arg1Of –,[
R7139 T9121 T9122 arg1Of –,[
R7140 T9123 T9122 arg2Of 46,[
R7141 T9124 T9122 arg3Of ],[
R7142 T9128 T9125 arg1Of clone,The
R7143 T9128 T9126 arg1Of clone,HIV-1Lai/Bal-Env
R7144 T9128 T9127 arg1Of clone,infectious
R7145 T9128 T9129 arg1Of clone,is
R7146 T9128 T9130 arg1Of clone,isogenic
R7147 T9130 T9129 arg2Of isogenic,is
R7148 T9130 T9131 arg1Of isogenic,for
R7149 T9130 T9142 arg1Of isogenic,for
R7150 T9134 T9131 arg2Of sequence,for
R7151 T9134 T9132 arg1Of sequence,the
R7152 T9134 T9133 arg1Of sequence,entire
R7153 T9134 T9135 arg1Of sequence,of
R7154 T9140 T9135 arg2Of clone,of
R7155 T9140 T9136 arg1Of clone,the
R7156 T9140 T9137 arg1Of clone,parental
R7157 T9140 T9138 arg1Of clone,HIV-1Lai
R7158 T9140 T9139 arg1Of clone,infectious
R7159 T9142 T9141 arg1Of for,except
R7160 T9144 T9142 arg2Of substitution,for
R7161 T9144 T9143 arg1Of substitution,the
R7162 T9144 T9145 arg1Of substitution,of
R7163 T9144 T9152 arg1Of substitution,in
R7164 T9151 T9145 arg2Of region,of
R7165 T9151 T9146 arg1Of region,the
R7166 T9151 T9147 arg1Of region,HIV-1Bal
R7167 T9151 T9148 arg1Of region,envelope
R7168 T9151 T9149 arg1Of region,co-receptor
R7169 T9151 T9150 arg1Of region,binding
R7170 T9153 T9152 arg2Of place,in
R7171 T9153 T9154 arg1Of place,of
R7172 T9160 T9154 arg2Of region,of
R7173 T9160 T9155 arg1Of region,the
R7174 T9160 T9156 arg1Of region,HIV-1Lai
R7175 T9160 T9157 arg1Of region,envelope
R7176 T9160 T9158 arg1Of region,co-receptor
R7177 T9160 T9159 arg1Of region,binding
R7178 T9161 T9162 arg1Of We,note
R7179 T9164 T9165 arg1Of we,confirmed
R7180 T9165 T9162 arg2Of confirmed,note
R7181 T9165 T9163 arg1Of confirmed,that
R7182 T9167 T9168 arg1Of HIV-1Lai/Bal-Env,grew
R7183 T9168 T9165 arg2Of grew,confirmed
R7184 T9168 T9166 arg1Of grew,that
R7185 T9168 T9169 arg1Of grew,in
R7186 T9168 T9171 arg1Of grew,at
R7187 T9168 T9178 arg1Of grew,","
R7188 T9168 T9179 modOf grew,indicating
R7189 T9170 T9169 arg2Of PBMC,in
R7190 T9174 T9171 arg2Of rate,at
R7191 T9174 T9172 arg1Of rate,a
R7192 T9174 T9173 arg1Of rate,similar
R7193 T9174 T9175 arg1Of rate,to
R7194 T9177 T9175 arg2Of HIV-1Bal,to
R7195 T9177 T9176 arg1Of HIV-1Bal,wild-type
R7196 T9182 T9180 arg1Of engagement,proper
R7197 T9182 T9181 arg1Of engagement,co-receptor
R7198 T9182 T9183 arg1Of engagement,and
R7199 T9183 T9179 arg2Of and,indicating
R7200 T9184 T9183 arg2Of internalization,and
R7201 T9184 T9185 arg1Of internalization,of
R7202 T9184 T9189 arg1Of internalization,(
R7203 T9188 T9185 arg2Of clone,of
R7204 T9188 T9186 arg1Of clone,this
R7205 T9188 T9187 arg1Of clone,infectious
R7206 T9190 T9189 arg2Of data,(
R7207 T9190 T9192 arg2Of data,shown
R7208 T9192 T9191 arg1Of shown,not
R7209 T9193 T9189 arg3Of ),(

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T8908 1045-1048 Protein denotes Env
T8907 964-972 Protein denotes envelope
T8906 903-911 Protein denotes envelope
T8905 760-763 Protein denotes Env
T8904 543-548 Protein denotes NFAT5
T8903 413-416 Protein denotes env
T8902 359-363 Protein denotes CCR5
T8901 159-164 Protein denotes NFAT5

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T9460 543-548 http://www.uniprot.org/uniprot/O94916 denotes NFAT5
T9459 159-164 http://www.uniprot.org/uniprot/O94916 denotes NFAT5
T9473 413-416 http://www.uniprot.org/uniprot/P04578 denotes env
T9472 359-363 http://www.uniprot.org/uniprot/P51681 denotes CCR5

GO-BP

Id Subject Object Predicate Lexical cue
T8927 714-731 http://purl.obolibrary.org/obo/GO_0019079 denotes viral replication
T8926 714-731 http://purl.obolibrary.org/obo/GO_0019058 denotes viral replication
T8925 673-683 http://purl.obolibrary.org/obo/GO_0065007 denotes regulation

GO-MF

Id Subject Object Predicate Lexical cue
T8933 985-992 http://purl.obolibrary.org/obo/GO_0005488 denotes binding
T8932 924-931 http://purl.obolibrary.org/obo/GO_0005488 denotes binding
T8931 976-992 http://purl.obolibrary.org/obo/GO_0005102 denotes receptor binding
T8930 915-931 http://purl.obolibrary.org/obo/GO_0005102 denotes receptor binding
T8929 973-992 http://purl.obolibrary.org/obo/GO_0039706 denotes co-receptor binding
T8928 912-931 http://purl.obolibrary.org/obo/GO_0039706 denotes co-receptor binding

GO-CC

Id Subject Object Predicate Lexical cue
T8936 964-972 http://purl.obolibrary.org/obo/GO_0009274 denotes envelope
T8935 903-911 http://purl.obolibrary.org/obo/GO_0009274 denotes envelope
T8934 371-379 http://purl.obolibrary.org/obo/GO_0009274 denotes envelope

sentences

Id Subject Object Predicate Lexical cue
T8856 1001-1206 Sentence denotes We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown).
T8855 743-1000 Sentence denotes The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region.
T8854 467-742 Sentence denotes We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46].
T8853 280-466 Sentence denotes To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM.
T8852 0-279 Sentence denotes To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb.
T152 0-279 Sentence denotes To extend the results we obtained in the reporter assays to a physiological TB/HIV co-infection model, we next tested the effect of siRNA-mediated ablation of NFAT5 mRNA levels in MDM co-infected with a subtype B HIV-1Lai infectious molecular clone and a clinical isolate of MTb.
T153 280-466 Sentence denotes To perform this experiment, we first constructed an HIV-1Lai clone bearing the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env) so that it would efficiently infect primary MDM.
T154 467-742 Sentence denotes We used this approach to ensure that our analysis of the roles of NF-κB and NFAT5 in MTb-induced HIV-1 replication could be interpreted in the proper context of previous research findings that examined LTR regulation in the context of full-length viral replication [41]–[46].
T155 743-1000 Sentence denotes The HIV-1Lai/Bal-Env infectious clone is isogenic for the entire sequence of the parental HIV-1Lai infectious clone except for the substitution of the HIV-1Bal envelope co-receptor binding region in place of the HIV-1Lai envelope co-receptor binding region.
T156 1001-1206 Sentence denotes We note that we confirmed that HIV-1Lai/Bal-Env grew in PBMC at a similar rate to wild-type HIV-1Bal, indicating proper co-receptor engagement and internalization of this infectious clone (data not shown).

simple1

Id Subject Object Predicate Lexical cue
T8975 1045-1048 Protein denotes Env
T8974 964-972 Protein denotes envelope
T8973 903-911 Protein denotes envelope
T8972 760-763 Protein denotes Env
T8971 543-548 Protein denotes NFAT5
T8970 413-416 Protein denotes env
T8969 359-363 Protein denotes CCR5
T8968 159-164 Protein denotes NFAT5

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T10179 170-176 Transcription denotes levels
T10178 147-155 Negative_regulation denotes ablation
T10162 1045-1048 Protein denotes Env
T10161 964-972 Protein denotes envelope
T10160 903-911 Protein denotes envelope
T10159 760-763 Protein denotes Env
T10158 543-548 Protein denotes NFAT5
T10157 413-416 Protein denotes env
T10156 359-363 Protein denotes CCR5
T10155 159-164 Protein denotes NFAT5
R8043 T10155 T10178 themeOf NFAT5,ablation
R8044 T10155 T10179 themeOf NFAT5,levels

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T9559 1045-1048 Protein denotes Env
T9558 964-972 Protein denotes envelope
T9557 903-911 Protein denotes envelope
T9556 760-763 Protein denotes Env
T9555 543-548 Protein denotes NFAT5
T9554 413-416 Protein denotes env
T9553 359-363 Protein denotes CCR5
T9552 159-164 Protein denotes NFAT5
T9579 985-992 Binding denotes binding
T9578 924-931 Binding denotes binding
T9577 122-128 Regulation denotes effect
T9576 147-155 Negative_regulation denotes ablation
T9575 132-146 Positive_regulation denotes siRNA-mediated
R7516 T9552 T9576 themeOf NFAT5,ablation
R7517 T9557 T9578 themeOf envelope,binding
R7518 T9558 T9579 themeOf envelope,binding
R7526 T9576 T9577 themeOf ablation,effect
R7527 T9576 T9575 themeOf ablation,siRNA-mediated

DLUT931

Id Subject Object Predicate Lexical cue
T9537 985-992 Binding denotes binding
T9536 924-931 Binding denotes binding
T9535 874-886 Negative_regulation denotes substitution
T9534 132-146 Positive_regulation denotes siRNA-mediated
T9533 122-128 Regulation denotes effect
T9532 147-155 Negative_regulation denotes ablation
T9514 1045-1048 Protein denotes Env
T9513 964-972 Protein denotes envelope
T9512 903-911 Protein denotes envelope
T9511 760-763 Protein denotes Env
T9510 543-548 Protein denotes NFAT5
T9509 413-416 Protein denotes env
T9508 359-363 Protein denotes CCR5
T9507 159-164 Protein denotes NFAT5
R7492 T9513 T9537 themeOf envelope,binding
R7493 T9513 T9536 themeOf envelope,binding
R7494 T9513 T9536 themeOf envelope,binding
R7507 T9534 T9532 themeOf siRNA-mediated,ablation
R7508 T9536 T9535 themeOf binding,substitution
R7509 T9536 T9535 themeOf binding,substitution
R7510 T9536 T9535 themeOf binding,substitution
R7485 T9507 T9532 themeOf NFAT5,ablation
R7486 T9511 T9536 themeOf Env,binding
R7488 T9512 T9535 themeOf envelope,substitution
R7505 T9532 T9533 themeOf ablation,effect
R7506 T9532 T9534 themeOf ablation,siRNA-mediated
R7487 T9511 T9536 themeOf Env,binding
R7489 T9512 T9536 themeOf envelope,binding
R7490 T9512 T9537 themeOf envelope,binding
R7491 T9512 T9536 themeOf envelope,binding

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T10254 180-212 Regulation denotes MDM co-infected with a subtype B
T10252 1057-1061 Entity denotes PBMC
T10251 165-169 Protein denotes mRNA
T10249 912-923 Protein denotes co-receptor
T10243 756-774 Protein denotes Bal-Env infectious
T10242 159-164 Protein denotes NFAT5
T10238 1114-1143 Protein denotes proper co-receptor engagement
T10237 533-538 Protein denotes NF-κB
T10235 355-417 Protein denotes the CCR5-tropic envelope region of HIV-1Bal (HIV-1Lai/Bal-env)
T10226 454-465 Protein denotes primary MDM
T10222 275-278 Protein denotes MTb
T10215 973-984 Protein denotes co-receptor
T10214 552-563 Protein denotes MTb-induced
T10213 887-911 Protein denotes of the HIV-1Bal envelope
T10212 951-992 Protein denotes the HIV-1Lai envelope co-receptor binding
T10211 543-548 Protein denotes NFAT5
T10208 756-774 Protein denotes Bal-Env infectious
T10198 180-212 Protein denotes MDM co-infected with a subtype B
T10196 37-56 Entity denotes the reporter assays
R8060 T10198 T10254 themeOf MDM co-infected with a subtype B,MDM co-infected with a subtype B

bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T9873 1205-1206 . denotes .
T9872 1204-1205 -RRB- denotes )
T9871 1199-1204 VBN denotes shown
T9870 1195-1198 RB denotes not
T9869 1190-1194 NNS denotes data
T9868 1189-1190 -LRB- denotes (
T9867 1183-1188 NN denotes clone
T9866 1172-1182 JJ denotes infectious
T9865 1167-1171 DT denotes this
T9864 1164-1166 IN denotes of
T9863 1148-1163 NN denotes internalization
T9862 1144-1147 CC denotes and
T9861 1133-1143 NN denotes engagement
T9860 1121-1132 NN denotes co-receptor
T9859 1114-1120 JJ denotes proper
T9858 1103-1113 VBG denotes indicating
T9857 1101-1102 , denotes ,
T9856 1093-1101 JJ denotes HIV-1Bal
T9855 1083-1092 JJ denotes wild-type
T9854 1080-1082 TO denotes to
T9853 1075-1079 NN denotes rate
T9852 1067-1074 JJ denotes similar
T9851 1065-1066 DT denotes a
T9850 1062-1064 IN denotes at
T9849 1057-1061 NNP denotes PBMC
T9848 1054-1056 IN denotes in
T9847 1049-1053 VBD denotes grew
T9846 1041-1048 NNP denotes Bal-Env
T9845 1040-1041 NN denotes /
T9844 1032-1040 JJ denotes HIV-1Lai
T9843 1027-1031 IN denotes that
T9842 1017-1026 VBD denotes confirmed
T9841 1014-1016 PRP denotes we
T9840 1009-1013 IN denotes that
T9839 1004-1008 VBP denotes note
T9838 1001-1003 PRP denotes We
T9837 999-1000 . denotes .
T9836 993-999 NN denotes region
T9835 985-992 JJ denotes binding
T9834 973-984 NN denotes co-receptor
T9833 964-972 NN denotes envelope
T9832 955-963 JJ denotes HIV-1Lai
T9831 951-954 DT denotes the
T9830 948-950 IN denotes of
T9829 942-947 NN denotes place
T9828 939-941 IN denotes in
T9827 932-938 NN denotes region
T9826 924-931 JJ denotes binding
T9825 912-923 NN denotes co-receptor
T9824 903-911 NN denotes envelope
T9823 894-902 JJ denotes HIV-1Bal
T9822 890-893 DT denotes the
T9821 887-889 IN denotes of
T9820 874-886 NN denotes substitution
T9819 870-873 DT denotes the
T9818 866-869 IN denotes for
T9817 859-865 IN denotes except
T9816 853-858 NN denotes clone
T9815 842-852 JJ denotes infectious
T9814 833-841 JJ denotes HIV-1Lai
T9813 824-832 JJ denotes parental
T9812 820-823 DT denotes the
T9811 817-819 IN denotes of
T9810 808-816 NN denotes sequence
T9809 801-807 JJ denotes entire
T9808 797-800 DT denotes the
T9807 793-796 IN denotes for
T9806 784-792 JJ denotes isogenic
T9805 781-783 VBZ denotes is
T9804 775-780 NN denotes clone
T9803 764-774 JJ denotes infectious
T9802 756-763 NNP denotes Bal-Env
T9801 755-756 NN denotes /
T9800 747-755 JJ denotes HIV-1Lai
T9799 743-746 DT denotes The
T9798 741-742 . denotes .
T9797 740-741 NNP denotes ]
T9796 738-740 CD denotes 46
T9795 737-738 NNP denotes [
T9794 735-736 NNP denotes ]
T9793 733-735 CD denotes 41
T9792 732-733 NNP denotes [
T9791 720-731 NN denotes replication
T9751 470-474 VBD denotes used
T9750 467-469 PRP denotes We
T9749 465-466 . denotes .
T9748 462-465 NNP denotes MDM
T9747 454-461 JJ denotes primary
T9746 447-453 VB denotes infect
T9745 435-446 RB denotes efficiently
T9744 429-434 MD denotes would
T9743 426-428 PRP denotes it
T9742 421-425 IN denotes that
T9741 418-420 RB denotes so
T9740 416-417 -RRB- denotes )
T9739 409-416 NN denotes Bal-env
T9738 408-409 NN denotes /
T9737 400-408 JJ denotes HIV-1Lai
T9736 399-400 -LRB- denotes (
T9735 390-398 JJ denotes HIV-1Bal
T9734 387-389 IN denotes of
T9733 380-386 NN denotes region
T9732 371-379 NN denotes envelope
T9731 359-370 JJ denotes CCR5-tropic
T9730 355-358 DT denotes the
T9729 347-354 VBG denotes bearing
T9728 341-346 NN denotes clone
T9727 332-340 JJ denotes HIV-1Lai
T9726 329-331 DT denotes an
T9725 317-328 VBD denotes constructed
T9724 311-316 RB denotes first
T9723 308-310 PRP denotes we
T9722 306-307 , denotes ,
T9721 296-306 NN denotes experiment
T9720 291-295 DT denotes this
T9719 283-290 VB denotes perform
T9718 280-282 TO denotes To
T9717 278-279 . denotes .
T9716 275-278 NNP denotes MTb
T9715 272-274 IN denotes of
T9714 264-271 VB denotes isolate
T9713 255-263 JJ denotes clinical
T9712 253-254 DT denotes a
T9711 249-252 CC denotes and
T9710 243-248 NN denotes clone
T9709 233-242 JJ denotes molecular
T9708 222-232 JJ denotes infectious
T9707 213-221 NNP denotes HIV-1Lai
T9706 211-212 NNP denotes B
T9705 203-210 NN denotes subtype
T9704 201-202 DT denotes a
T9703 196-200 IN denotes with
T9702 184-195 VBD denotes co-infected
T9701 180-183 NNP denotes MDM
T9700 177-179 IN denotes in
T9699 170-176 NNS denotes levels
T9698 165-169 NNP denotes mRNA
T9697 159-164 NNP denotes NFAT5
T9696 156-158 IN denotes of
T9695 147-155 NN denotes ablation
T9694 132-146 JJ denotes siRNA-mediated
T9693 129-131 IN denotes of
T9692 122-128 NN denotes effect
T9691 118-121 DT denotes the
T9690 111-117 VBN denotes tested
T9689 106-110 JJ denotes next
T9688 103-105 PRP denotes we
T9687 101-102 , denotes ,
T9686 96-101 NN denotes model
T9685 83-95 NN denotes co-infection
T9684 76-82 NNP denotes TB/HIV
T9683 62-75 JJ denotes physiological
T9682 60-61 DT denotes a
T9681 57-59 TO denotes to
T9680 50-56 VBZ denotes assays
T9679 41-49 NN denotes reporter
T9678 37-40 DT denotes the
T9677 34-36 IN denotes in
T9676 25-33 VBD denotes obtained
T9675 22-24 PRP denotes we
T9674 14-21 NNS denotes results
T9673 10-13 DT denotes the
T9672 3-9 VB denotes extend
T9671 0-2 TO denotes To
T9769 570-581 NN denotes replication
T9768 564-569 NNP denotes HIV-1
T9767 552-563 NNP denotes MTb-induced
T9766 549-551 IN denotes in
T9765 543-548 NNP denotes NFAT5
T9764 539-542 CC denotes and
T9763 533-538 NNP denotes NF-κB
T9762 530-532 IN denotes of
T9761 524-529 NNS denotes roles
T9760 520-523 DT denotes the
T9759 517-519 IN denotes of
T9758 508-516 NN denotes analysis
T9757 504-507 PRP$ denotes our
T9756 499-503 IN denotes that
T9755 492-498 VB denotes ensure
T9754 489-491 TO denotes to
T9753 480-488 NN denotes approach
T9752 475-479 DT denotes this
T9790 714-719 JJ denotes viral
T9789 702-713 JJ denotes full-length
T9788 699-701 IN denotes of
T9787 691-698 NN denotes context
T9786 687-690 DT denotes the
T9785 684-686 IN denotes in
T9784 673-683 NN denotes regulation
T9783 669-672 NNP denotes LTR
T9782 660-668 VBD denotes examined
T9781 655-659 WDT denotes that
T9780 646-654 NNS denotes findings
T9779 637-645 NN denotes research
T9778 628-636 JJ denotes previous
T9777 625-627 IN denotes of
T9776 617-624 NN denotes context
T9775 610-616 JJ denotes proper
T9774 606-609 DT denotes the
T9773 603-605 IN denotes in
T9772 591-602 VBN denotes interpreted
T9771 588-590 VB denotes be
T9770 582-587 MD denotes could
R7560 T9671 T9672 aux To,extend
R7562 T9673 T9674 det the,results
R7563 T9674 T9672 dobj results,extend
R7564 T9675 T9676 nsubj we,obtained
R7565 T9676 T9674 relcl obtained,results
R7566 T9677 T9676 prep in,obtained
R7567 T9678 T9679 det the,reporter
R7568 T9679 T9680 compound reporter,assays
R7569 T9680 T9677 pobj assays,in
R7570 T9681 T9680 prep to,assays
R7571 T9682 T9686 det a,model
R7572 T9683 T9686 amod physiological,model
R7573 T9684 T9686 nmod TB/HIV,model
R7574 T9685 T9686 compound co-infection,model
R7575 T9686 T9681 pobj model,to
R7576 T9687 T9690 punct ",",tested
R7577 T9688 T9690 nsubj we,tested
R7578 T9689 T9690 advmod next,tested
R7580 T9691 T9692 det the,effect
R7581 T9692 T9690 dobj effect,tested
R7582 T9693 T9692 prep of,effect
R7583 T9694 T9695 amod siRNA-mediated,ablation
R7584 T9695 T9693 pobj ablation,of
R7585 T9696 T9695 prep of,ablation
R7586 T9697 T9698 compound NFAT5,mRNA
R7587 T9698 T9699 compound mRNA,levels
R7588 T9699 T9696 pobj levels,of
R7589 T9700 T9699 prep in,levels
R7590 T9701 T9700 pobj MDM,in
R7591 T9702 T9692 acl co-infected,effect
R7592 T9703 T9702 prep with,co-infected
R7593 T9704 T9710 det a,clone
R7594 T9705 T9707 compound subtype,HIV-1Lai
R7595 T9706 T9707 compound B,HIV-1Lai
R7596 T9707 T9710 nmod HIV-1Lai,clone
R7597 T9708 T9710 amod infectious,clone
R7598 T9709 T9710 amod molecular,clone
R7599 T9710 T9703 pobj clone,with
R7600 T9711 T9710 cc and,clone
R7601 T9712 T9714 det a,isolate
R7602 T9713 T9714 amod clinical,isolate
R7603 T9714 T9710 conj isolate,clone
R7604 T9715 T9714 prep of,isolate
R7605 T9716 T9715 pobj MTb,of
R7606 T9717 T9690 punct .,tested
R7607 T9718 T9719 aux To,perform
R7608 T9719 T9725 advcl perform,constructed
R7609 T9720 T9721 det this,experiment
R7610 T9721 T9719 dobj experiment,perform
R7611 T9722 T9725 punct ",",constructed
R7612 T9723 T9725 nsubj we,constructed
R7613 T9724 T9725 advmod first,constructed
R7614 T9725 T9725 ROOT constructed,constructed
R7615 T9726 T9728 det an,clone
R7616 T9727 T9728 amod HIV-1Lai,clone
R7617 T9728 T9725 dobj clone,constructed
R7618 T9729 T9728 acl bearing,clone
R7619 T9730 T9733 det the,region
R7620 T9731 T9733 amod CCR5-tropic,region
R7621 T9732 T9733 compound envelope,region
R7622 T9733 T9729 dobj region,bearing
R7623 T9734 T9733 prep of,region
R7624 T9735 T9734 pobj HIV-1Bal,of
R7625 T9736 T9739 punct (,Bal-env
R7626 T9737 T9739 amod HIV-1Lai,Bal-env
R7627 T9738 T9739 compound /,Bal-env
R7628 T9739 T9735 appos Bal-env,HIV-1Bal
R7629 T9740 T9725 punct ),constructed
R7630 T9741 T9746 mark so,infect
R7631 T9742 T9746 mark that,infect
R7632 T9743 T9746 nsubj it,infect
R7633 T9744 T9746 aux would,infect
R7634 T9745 T9746 advmod efficiently,infect
R7635 T9746 T9725 advcl infect,constructed
R7636 T9747 T9748 amod primary,MDM
R7637 T9748 T9746 dobj MDM,infect
R7638 T9749 T9725 punct .,constructed
R7639 T9750 T9751 nsubj We,used
R7640 T9751 T9751 ROOT used,used
R7641 T9752 T9753 det this,approach
R7642 T9753 T9751 dobj approach,used
R7643 T9754 T9755 aux to,ensure
R7644 T9755 T9751 xcomp ensure,used
R7645 T9756 T9772 mark that,interpreted
R7646 T9757 T9758 poss our,analysis
R7647 T9758 T9772 nsubjpass analysis,interpreted
R7648 T9759 T9758 prep of,analysis
R7649 T9760 T9761 det the,roles
R7650 T9761 T9759 pobj roles,of
R7651 T9762 T9761 prep of,roles
R7652 T9763 T9762 pobj NF-κB,of
R7653 T9764 T9763 cc and,NF-κB
R7654 T9765 T9763 conj NFAT5,NF-κB
R7655 T9766 T9761 prep in,roles
R7656 T9767 T9768 compound MTb-induced,HIV-1
R7657 T9768 T9769 compound HIV-1,replication
R7658 T9769 T9766 pobj replication,in
R7659 T9770 T9772 aux could,interpreted
R7660 T9771 T9772 auxpass be,interpreted
R7661 T9772 T9755 ccomp interpreted,ensure
R7662 T9773 T9772 prep in,interpreted
R7663 T9774 T9776 det the,context
R7664 T9775 T9776 amod proper,context
R7665 T9776 T9773 pobj context,in
R7666 T9777 T9776 prep of,context
R7667 T9778 T9780 amod previous,findings
R7668 T9779 T9780 compound research,findings
R7669 T9780 T9777 pobj findings,of
R7670 T9781 T9782 nsubj that,examined
R7671 T9782 T9780 relcl examined,findings
R7672 T9783 T9784 compound LTR,regulation
R7673 T9784 T9782 dobj regulation,examined
R7674 T9785 T9784 prep in,regulation
R7675 T9786 T9787 det the,context
R7676 T9787 T9785 pobj context,in
R7677 T9788 T9787 prep of,context
R7678 T9789 T9791 amod full-length,replication
R7679 T9790 T9791 amod viral,replication
R7680 T9791 T9788 pobj replication,of
R7681 T9792 T9794 compound [,]
R7682 T9793 T9794 compound 41,]
R7683 T9794 T9787 appos ],context
R7684 T9795 T9797 nmod [,]
R7685 T9796 T9797 nummod 46,]
R7686 T9797 T9794 appos ],]
R7687 T9798 T9751 punct .,used
R7688 T9799 T9804 det The,clone
R7689 T9800 T9801 compound HIV-1Lai,/
R7690 T9801 T9804 nmod /,clone
R7691 T9802 T9804 amod Bal-Env,clone
R7692 T9803 T9804 amod infectious,clone
R7693 T9804 T9805 nsubj clone,is
R7694 T9805 T9805 ROOT is,is
R7695 T9806 T9805 acomp isogenic,is
R7696 T9807 T9806 prep for,isogenic
R7697 T9808 T9810 det the,sequence
R7698 T9809 T9810 amod entire,sequence
R7699 T9810 T9807 pobj sequence,for
R7700 T9811 T9810 prep of,sequence
R7701 T9812 T9816 det the,clone
R7702 T9813 T9816 amod parental,clone
R7703 T9814 T9816 amod HIV-1Lai,clone
R7704 T9815 T9816 amod infectious,clone
R7705 T9816 T9811 pobj clone,of
R7706 T9817 T9810 prep except,sequence
R7707 T9818 T9817 prep for,except
R7708 T9819 T9820 det the,substitution
R7709 T9820 T9818 pobj substitution,for
R7710 T9821 T9820 prep of,substitution
R7711 T9822 T9824 det the,envelope
R7712 T9823 T9824 amod HIV-1Bal,envelope
R7713 T9824 T9827 nmod envelope,region
R7714 T9825 T9827 amod co-receptor,region
R7715 T9826 T9827 amod binding,region
R7716 T9827 T9821 pobj region,of
R7717 T9828 T9820 prep in,substitution
R7718 T9829 T9828 pobj place,in
R7719 T9830 T9829 prep of,place
R7720 T9831 T9836 det the,region
R7721 T9832 T9833 amod HIV-1Lai,envelope
R7722 T9833 T9836 nmod envelope,region
R7723 T9834 T9836 nmod co-receptor,region
R7724 T9835 T9836 amod binding,region
R7725 T9836 T9830 pobj region,of
R7726 T9837 T9805 punct .,is
R7727 T9838 T9839 nsubj We,note
R7728 T9839 T9839 ROOT note,note
R7729 T9840 T9842 mark that,confirmed
R7730 T9841 T9842 nsubj we,confirmed
R7731 T9842 T9839 ccomp confirmed,note
R7732 T9843 T9847 mark that,grew
R7733 T9844 T9846 compound HIV-1Lai,Bal-Env
R7734 T9845 T9846 compound /,Bal-Env
R7735 T9846 T9847 nsubj Bal-Env,grew
R7736 T9847 T9842 ccomp grew,confirmed
R7737 T9848 T9847 prep in,grew
R7738 T9849 T9848 pobj PBMC,in
R7739 T9850 T9847 prep at,grew
R7740 T9851 T9853 det a,rate
R7741 T9852 T9853 amod similar,rate
R7742 T9853 T9850 pobj rate,at
R7743 T9854 T9847 prep to,grew
R7744 T9855 T9856 amod wild-type,HIV-1Bal
R7745 T9856 T9854 pobj HIV-1Bal,to
R7746 T9857 T9847 punct ",",grew
R7747 T9858 T9847 advcl indicating,grew
R7748 T9859 T9861 amod proper,engagement
R7749 T9860 T9861 compound co-receptor,engagement
R7750 T9861 T9858 dobj engagement,indicating
R7751 T9862 T9861 cc and,engagement
R7752 T9863 T9861 conj internalization,engagement
R7753 T9864 T9861 prep of,engagement
R7754 T9865 T9867 det this,clone
R7755 T9866 T9867 amod infectious,clone
R7756 T9867 T9864 pobj clone,of
R7757 T9868 T9871 punct (,shown
R7758 T9869 T9871 nsubjpass data,shown
R7759 T9870 T9871 neg not,shown
R7760 T9871 T9861 parataxis shown,engagement
R7761 T9872 T9871 punct ),shown
R7762 T9873 T9839 punct .,note

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T9598 1045-1048 Protein denotes Env
T9597 955-984 Protein denotes HIV-1Lai envelope co-receptor
T9596 894-938 Protein denotes HIV-1Bal envelope co-receptor binding region
T9595 552-555 Protein denotes MTb
T9594 543-548 Protein denotes NFAT5
T9593 533-538 Protein denotes NF-κB
T9592 413-416 Protein denotes env
T9591 359-386 Protein denotes CCR5-tropic envelope region
T9590 159-169 Protein denotes NFAT5 mRNA

testone

Id Subject Object Predicate Lexical cue
T8783 1045-1048 Protein denotes Env
T8782 964-972 Protein denotes envelope
T8781 903-911 Protein denotes envelope
T8780 760-763 Protein denotes Env
T8779 543-548 Protein denotes NFAT5
T8778 413-416 Protein denotes env
T8777 359-363 Protein denotes CCR5
T8776 159-164 Protein denotes NFAT5

test3

Id Subject Object Predicate Lexical cue
T8835 1045-1048 Protein denotes Env
T8834 964-972 Protein denotes envelope
T8833 903-911 Protein denotes envelope
T8832 760-763 Protein denotes Env
T8831 543-548 Protein denotes NFAT5
T8830 413-416 Protein denotes env
T8829 359-363 Protein denotes CCR5
T8828 159-164 Protein denotes NFAT5
T8811 1045-1048 Protein denotes Env
T8810 964-972 Protein denotes envelope
T8809 903-911 Protein denotes envelope
T8808 760-763 Protein denotes Env
T8807 543-548 Protein denotes NFAT5
T8806 413-416 Protein denotes env
T8805 359-363 Protein denotes CCR5
T8804 159-164 Protein denotes NFAT5