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PMC:3589482 / 12644-13790 JSONTXT

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bionlp-st-ge-2016-spacy-parsed

Id Subject Object Predicate Lexical cue
T7141 1145-1146 . denotes .
T7140 1137-1145 NN denotes analysis
T7139 1132-1136 NN denotes blot
T7138 1124-1131 JJ denotes western
T7137 1121-1123 IN denotes by
T7136 1111-1120 VBN denotes confirmed
T7135 1107-1110 VBD denotes was
T7134 1097-1106 NN denotes knockdown
T7133 1095-1096 NN denotes β
T7132 1094-1095 : denotes -
T7131 1089-1094 SYM denotes C/EBP
T7130 1087-1088 . denotes .
T7129 1078-1087 NN denotes knockdown
T7128 1073-1077 NN denotes gene
T7127 1063-1072 JJ denotes effective
T7126 1059-1062 IN denotes for
T7125 1053-1058 VB denotes allow
T7124 1050-1052 TO denotes to
T7123 1046-1049 NNS denotes hrs
T7122 1043-1045 CD denotes 72
T7121 1039-1042 IN denotes for
T7120 1031-1038 RBR denotes further
T7119 1021-1030 VBD denotes incubated
T7118 1017-1020 CC denotes and
T7117 1011-1016 NNS denotes media
T7116 1004-1010 NN denotes growth
T7115 998-1003 JJ denotes fresh
T7114 993-997 IN denotes with
T7113 984-992 VBN denotes replaced
T7112 980-983 VBD denotes was
T7111 968-979 NN denotes supernatant
T7110 957-967 JJ denotes lentiviral
T7109 953-956 DT denotes The
T7108 951-952 . denotes .
T7107 948-951 NNS denotes hrs
T7106 945-947 CD denotes 24
T7105 941-944 IN denotes for
T7104 939-940 -RRB- denotes )
T7103 926-939 NNP denotes Bioanalytical
T7102 917-925 NNP denotes American
T7101 916-917 -LRB- denotes (
T7100 906-915 NNP denotes Polybrene
T7099 903-905 NN denotes ml
T7098 902-903 NN denotes /
T7097 900-902 NN denotes µg
T7096 898-899 CD denotes 8
T7095 894-897 CC denotes and
T7094 882-893 NN denotes supernatant
T7093 871-881 JJ denotes lentiviral
T7092 867-870 DT denotes the
T7091 862-866 IN denotes with
T7090 854-861 VBN denotes treated
T7089 849-853 VBD denotes were
T7088 843-848 NNS denotes cells
T7087 836-842 NN denotes target
T7086 832-835 DT denotes The
T7085 830-831 . denotes .
T7084 824-830 NN denotes filter
T7083 821-823 NN denotes µm
T7082 816-820 CD denotes 0.45
T7081 814-815 DT denotes a
T7080 806-813 IN denotes through
T7079 799-805 VBN denotes passed
T7078 795-798 CC denotes and
T7077 790-794 NNS denotes mins
T7076 787-789 CD denotes 10
T7075 783-786 IN denotes for
T7074 781-782 NN denotes g
T7073 775-780 CD denotes 2,000
T7072 772-774 IN denotes at
T7071 757-771 NN denotes centrifugation
T7070 754-756 IN denotes by
T7069 746-753 VBN denotes cleared
T7068 744-745 , denotes ,
T7067 732-744 NN denotes transfection
T7066 726-731 IN denotes after
T7065 722-725 NNS denotes hrs
T7064 719-721 CD denotes 48
T7063 709-718 VBN denotes collected
T7062 705-708 VBD denotes was
T7061 693-704 NN denotes supernatant
T7060 682-692 JJ denotes lentiviral
T7059 678-681 DT denotes The
T7058 676-677 . denotes .
T7057 675-676 -RRB- denotes )
T7056 665-675 NNP denotes Invitrogen
T7055 664-665 -LRB- denotes (
T7054 656-663 NN denotes reagent
T7053 651-655 CD denotes 2000
T7052 637-650 NNP denotes Lipofectamine
T7051 631-636 VBG denotes using
T7050 629-630 -RRB- denotes )
T7049 627-629 NN denotes µg
T7048 622-626 CD denotes 0.25
T7047 621-622 -LRB- denotes (
T7046 613-620 NN denotes plasmid
T7045 604-612 NN denotes envelope
T7044 593-603 NNP denotes pCMV-VSV-G
T7043 589-592 CC denotes and
T7042 587-588 , denotes ,
T7041 586-587 -RRB- denotes )
T7040 584-586 NN denotes µg
T7039 579-583 CD denotes 0.75
T7038 578-579 -LRB- denotes (
T7037 570-577 NN denotes plasmid
T7036 560-569 NN denotes packaging
T7035 555-559 NN denotes dvpr
T7034 553-555 CD denotes .2
T7033 545-553 JJ denotes pCMV-ΔR8
T7032 543-544 , denotes ,
T7031 542-543 -RRB- denotes )
T7030 540-542 NN denotes µg
T7029 538-539 CD denotes 1
T7028 537-538 -LRB- denotes (
T6999 373-380 NN denotes control
T6998 371-372 DT denotes a
T6997 368-370 IN denotes as
T6996 362-367 NNP denotes shRNA
T6995 356-361 NNP denotes CEBPB
T6994 350-355 JJ denotes human
T6993 346-349 DT denotes the
T6992 341-345 VBD denotes used
T6991 338-340 PRP denotes we
T6990 328-337 RB denotes therefore
T6989 326-327 : denotes ;
T6988 319-326 NNS denotes species
T6987 313-318 JJ denotes other
T6986 309-312 DT denotes the
T6985 306-308 IN denotes of
T6984 300-305 NNS denotes cells
T6983 297-299 IN denotes on
T6982 292-296 VBN denotes used
T6981 287-291 WRB denotes when
T6980 285-286 NN denotes β
T6979 284-285 : denotes -
T6978 279-284 NNP denotes C/EBP
T6977 268-278 JJ denotes endogenous
T6976 265-267 IN denotes of
T6975 254-264 NN denotes expression
T6974 244-253 VB denotes knockdown
T6973 240-243 RB denotes not
T6972 237-240 MD denotes can
T6971 230-236 NNS denotes shRNAs
T6970 213-229 JJ denotes species-specific
T6969 207-212 DT denotes these
T6968 205-206 , denotes ,
T6967 196-205 JJ denotes identical
T6966 192-195 RB denotes not
T6965 188-191 VBP denotes are
T6964 180-187 NNS denotes regions
T6963 167-179 JJ denotes untranslated
T6962 165-166 NN denotes ′
T6961 164-165 CD denotes 3
T6960 158-163 NN denotes cebpb
T6959 152-157 NN denotes mouse
T6958 148-151 CC denotes and
T6957 142-147 JJ denotes human
T6956 138-141 DT denotes the
T6955 130-137 IN denotes Because
T6954 128-129 . denotes .
T6953 121-128 NNS denotes studies
T6952 115-120 DT denotes these
T6951 112-114 IN denotes in
T6950 107-111 VBN denotes used
T6949 102-106 VBD denotes were
T6948 96-101 NN denotes cebpb
T6947 90-95 NN denotes mouse
T6946 86-89 CC denotes and
T6945 80-85 JJ denotes human
T6944 76-79 IN denotes for
T6943 67-75 NN denotes specific
T6942 65-66 -RRB- denotes )
T6941 60-65 NNP denotes shRNA
T6940 59-60 -LRB- denotes (
T6939 54-58 NNS denotes RNAs
T6938 46-53 NN denotes hairpin
T6937 40-45 JJ denotes short
T6936 31-39 VBG denotes carrying
T6935 23-30 NNS denotes vectors
T6934 12-22 JJ denotes lentiviral
T6933 0-11 NN denotes pLKO.1-puro
T7027 529-536 NN denotes plasmid
T7026 518-528 NN denotes expression
T7025 512-517 NN denotes shRNA
T7024 507-511 DT denotes each
T7023 505-506 : denotes :
T7022 497-505 NNS denotes plasmids
T7021 494-496 IN denotes of
T7020 486-493 NN denotes mixture
T7019 484-485 DT denotes a
T7018 479-483 IN denotes with
T7017 467-478 VBN denotes transfected
T7016 462-466 VBD denotes were
T7015 456-461 NNS denotes cells
T7014 447-455 JJ denotes HEK-293T
T7013 445-446 , denotes ,
T7012 436-445 NNS denotes particles
T7011 425-435 JJ denotes lentiviral
T7010 417-424 VB denotes produce
T7009 414-416 TO denotes To
T7008 412-413 . denotes .
T7007 411-412 NNP denotes ]
T7006 409-411 CD denotes 38
T7005 408-409 NNP denotes [
T7004 405-407 IN denotes in
T7003 402-404 IN denotes as
T7002 390-401 NNS denotes experiments
T7001 384-389 DT denotes these
T7000 381-383 IN denotes in
R4976 T6934 T6935 amod lentiviral,vectors
R4978 T6936 T6935 acl carrying,vectors
R4979 T6937 T6939 amod short,RNAs
R4980 T6938 T6939 compound hairpin,RNAs
R4981 T6939 T6936 dobj RNAs,carrying
R4982 T6940 T6939 punct (,RNAs
R4983 T6941 T6939 appos shRNA,RNAs
R4984 T6942 T6939 punct ),RNAs
R4985 T6943 T6935 conj specific,vectors
R4986 T6944 T6943 prep for,specific
R4987 T6945 T6948 amod human,cebpb
R4988 T6946 T6945 cc and,human
R4989 T6947 T6945 conj mouse,human
R4990 T6948 T6944 pobj cebpb,for
R4991 T6949 T6950 auxpass were,used
R4992 T6950 T6950 ROOT used,used
R4993 T6951 T6950 prep in,used
R4994 T6952 T6953 det these,studies
R4995 T6953 T6951 pobj studies,in
R4996 T6954 T6950 punct .,used
R4997 T6955 T6965 mark Because,are
R4998 T6956 T6964 det the,regions
R4999 T6957 T6960 amod human,cebpb
R5000 T6958 T6957 cc and,human
R5001 T6959 T6957 conj mouse,human
R5002 T6960 T6964 nmod cebpb,regions
R5003 T6961 T6962 nummod 3,′
R5004 T6962 T6964 compound ′,regions
R5005 T6963 T6964 compound untranslated,regions
R5006 T6964 T6965 nsubj regions,are
R5007 T6965 T6974 advcl are,knockdown
R5008 T6966 T6965 neg not,are
R5009 T6967 T6965 acomp identical,are
R5010 T6968 T6974 punct ",",knockdown
R5011 T6969 T6971 det these,shRNAs
R5012 T6970 T6971 amod species-specific,shRNAs
R5013 T6971 T6974 nsubj shRNAs,knockdown
R5014 T6972 T6974 aux can,knockdown
R5015 T6973 T6974 neg not,knockdown
R5016 T6974 T6992 ccomp knockdown,used
R5017 T6975 T6974 dobj expression,knockdown
R5018 T6976 T6975 prep of,expression
R5019 T6977 T6980 amod endogenous,β
R5020 T6978 T6980 compound C/EBP,β
R5021 T6979 T6980 punct -,β
R5022 T6980 T6976 pobj β,of
R5023 T6981 T6982 advmod when,used
R5024 T6982 T6974 advcl used,knockdown
R5025 T6983 T6982 prep on,used
R5026 T6984 T6983 pobj cells,on
R5027 T6985 T6984 prep of,cells
R5028 T6986 T6988 det the,species
R5029 T6987 T6988 amod other,species
R5030 T6988 T6985 pobj species,of
R5031 T6989 T6992 punct ;,used
R5032 T6990 T6992 advmod therefore,used
R5033 T6991 T6992 nsubj we,used
R5034 T6992 T6992 ROOT used,used
R5035 T6993 T6996 det the,shRNA
R5036 T6994 T6996 amod human,shRNA
R5037 T6995 T6996 compound CEBPB,shRNA
R5038 T6996 T6992 dobj shRNA,used
R5039 T6997 T6992 prep as,used
R5040 T6998 T6999 det a,control
R5041 T6999 T6997 pobj control,as
R5042 T7000 T6999 prep in,control
R5043 T7001 T7002 det these,experiments
R5044 T7002 T7000 pobj experiments,in
R5045 T7003 T6999 prep as,control
R5046 T7004 T7003 prep in,as
R5047 T7005 T7004 pobj [,in
R5048 T7006 T7007 nummod 38,]
R5049 T7007 T7003 pobj ],as
R5050 T7008 T6992 punct .,used
R5051 T7009 T7010 aux To,produce
R5052 T7010 T7017 advcl produce,transfected
R5053 T7011 T7012 amod lentiviral,particles
R5054 T7012 T7010 dobj particles,produce
R5055 T7013 T7017 punct ",",transfected
R5056 T7014 T7015 amod HEK-293T,cells
R5057 T7015 T7017 nsubjpass cells,transfected
R5058 T7016 T7017 auxpass were,transfected
R5059 T7017 T7017 ROOT transfected,transfected
R5060 T7018 T7017 prep with,transfected
R5061 T7019 T7020 det a,mixture
R5062 T7020 T7018 pobj mixture,with
R5063 T7021 T7020 prep of,mixture
R5064 T7022 T7021 pobj plasmids,of
R5065 T7023 T7017 punct :,transfected
R5066 T7024 T7027 det each,plasmid
R5067 T7025 T7027 amod shRNA,plasmid
R5068 T7026 T7027 compound expression,plasmid
R5069 T7027 T7027 ROOT plasmid,plasmid
R5070 T7028 T7030 punct (,µg
R5071 T7029 T7030 nummod 1,µg
R5072 T7030 T7027 appos µg,plasmid
R5073 T7031 T7027 punct ),plasmid
R5074 T7032 T7027 punct ",",plasmid
R5075 T7033 T7037 amod pCMV-ΔR8,plasmid
R5076 T7034 T7037 nummod .2,plasmid
R5077 T7035 T7037 compound dvpr,plasmid
R5078 T7036 T7037 compound packaging,plasmid
R5079 T7037 T7027 conj plasmid,plasmid
R5080 T7038 T7037 punct (,plasmid
R5081 T7039 T7040 nummod 0.75,µg
R5082 T7040 T7037 appos µg,plasmid
R5083 T7041 T7037 punct ),plasmid
R5084 T7042 T7037 punct ",",plasmid
R5085 T7043 T7017 cc and,transfected
R5086 T7044 T7046 compound pCMV-VSV-G,plasmid
R5087 T7045 T7046 compound envelope,plasmid
R5088 T7046 T7046 ROOT plasmid,plasmid
R5089 T7047 T7046 punct (,plasmid
R5090 T7048 T7049 nummod 0.25,µg
R5091 T7049 T7046 appos µg,plasmid
R5092 T7050 T7046 punct ),plasmid
R5093 T7051 T7017 advcl using,transfected
R5094 T7052 T7054 nmod Lipofectamine,reagent
R5095 T7053 T7054 nummod 2000,reagent
R5096 T7054 T7051 dobj reagent,using
R5097 T7055 T7054 punct (,reagent
R5098 T7056 T7054 appos Invitrogen,reagent
R5099 T7057 T7054 punct ),reagent
R5100 T7058 T7017 punct .,transfected
R5101 T7059 T7061 det The,supernatant
R5102 T7060 T7061 amod lentiviral,supernatant
R5103 T7061 T7063 nsubjpass supernatant,collected
R5104 T7062 T7063 auxpass was,collected
R5105 T7063 T7063 ROOT collected,collected
R5106 T7064 T7065 nummod 48,hrs
R5107 T7065 T7063 dobj hrs,collected
R5108 T7066 T7063 prep after,collected
R5109 T7067 T7066 pobj transfection,after
R5110 T7068 T7066 punct ",",after
R5111 T7069 T7063 conj cleared,collected
R5112 T7070 T7069 agent by,cleared
R5113 T7071 T7070 pobj centrifugation,by
R5114 T7072 T7069 prep at,cleared
R5115 T7073 T7074 nummod "2,000",g
R5116 T7074 T7072 pobj g,at
R5117 T7075 T7069 prep for,cleared
R5118 T7076 T7077 nummod 10,mins
R5119 T7077 T7075 pobj mins,for
R5120 T7078 T7069 cc and,cleared
R5121 T7079 T7069 conj passed,cleared
R5122 T7080 T7079 prep through,passed
R5123 T7081 T7084 det a,filter
R5124 T7082 T7084 nummod 0.45,filter
R5125 T7083 T7084 compound µm,filter
R5126 T7084 T7080 pobj filter,through
R5127 T7085 T7063 punct .,collected
R5128 T7086 T7088 det The,cells
R5129 T7087 T7088 compound target,cells
R5130 T7088 T7090 nsubjpass cells,treated
R5131 T7089 T7090 auxpass were,treated
R5132 T7090 T7090 ROOT treated,treated
R5133 T7091 T7090 prep with,treated
R5134 T7092 T7094 det the,supernatant
R5135 T7093 T7094 amod lentiviral,supernatant
R5136 T7094 T7091 pobj supernatant,with
R5137 T7095 T7094 cc and,supernatant
R5138 T7096 T7097 nummod 8,µg
R5139 T7097 T7100 compound µg,Polybrene
R5140 T7098 T7100 compound /,Polybrene
R5141 T7099 T7100 compound ml,Polybrene
R5142 T7100 T7094 conj Polybrene,supernatant
R5143 T7101 T7100 punct (,Polybrene
R5144 T7102 T7103 compound American,Bioanalytical
R5145 T7103 T7100 appos Bioanalytical,Polybrene
R5146 T7104 T7100 punct ),Polybrene
R5147 T7105 T7100 prep for,Polybrene
R5148 T7106 T7107 nummod 24,hrs
R5149 T7107 T7105 pobj hrs,for
R5150 T7108 T7090 punct .,treated
R5151 T7109 T7111 det The,supernatant
R5152 T7110 T7111 amod lentiviral,supernatant
R5153 T7111 T7113 nsubjpass supernatant,replaced
R5154 T7112 T7113 auxpass was,replaced
R5155 T7113 T7113 ROOT replaced,replaced
R5156 T7114 T7113 prep with,replaced
R5157 T7115 T7117 amod fresh,media
R5158 T7116 T7117 compound growth,media
R5159 T7117 T7114 pobj media,with
R5160 T7118 T7113 cc and,replaced
R5161 T7119 T7113 conj incubated,replaced
R5162 T7120 T7119 advmod further,incubated
R5163 T7121 T7125 mark for,allow
R5164 T7122 T7123 nummod 72,hrs
R5165 T7123 T7125 nsubj hrs,allow
R5166 T7124 T7125 aux to,allow
R5167 T7125 T7119 advcl allow,incubated
R5168 T7126 T7125 prep for,allow
R5169 T7127 T7129 amod effective,knockdown
R5170 T7128 T7129 compound gene,knockdown
R5171 T7129 T7126 pobj knockdown,for
R5172 T7130 T7113 punct .,replaced
R5173 T7131 T7113 punct C/EBP,replaced
R5174 T7132 T7133 punct -,β
R5175 T7133 T7134 compound β,knockdown
R5176 T7134 T7136 nsubjpass knockdown,confirmed
R5177 T7135 T7136 auxpass was,confirmed
R5178 T7136 T7136 ROOT confirmed,confirmed
R5179 T7137 T7136 agent by,confirmed
R5180 T7138 T7140 amod western,analysis
R5181 T7139 T7140 compound blot,analysis
R5182 T7140 T7137 pobj analysis,by
R5183 T7141 T7136 punct .,confirmed

pmc-enju-pas

Id Subject Object Predicate Lexical cue
T6863 1137-1145 NN denotes analysis
T6862 1132-1136 NN denotes blot
T6861 1124-1131 JJ denotes western
T6860 1121-1123 IN denotes by
T6859 1111-1120 VB denotes confirmed
T6858 1107-1110 VB denotes was
T6857 1097-1106 NN denotes knockdown
T6856 1089-1096 NN denotes C/EBP-β
T6855 1078-1087 NN denotes knockdown
T6854 1073-1077 NN denotes gene
T6853 1063-1072 JJ denotes effective
T6852 1059-1062 IN denotes for
T6851 1053-1058 VB denotes allow
T6850 1050-1052 TO denotes to
T6849 1046-1049 NN denotes hrs
T6848 1043-1045 CD denotes 72
T6847 1039-1042 IN denotes for
T6846 1031-1038 RB denotes further
T6845 1021-1030 VB denotes incubated
T6844 1017-1020 CC denotes and
T6843 1011-1016 NN denotes media
T6842 1004-1010 NN denotes growth
T6841 998-1003 JJ denotes fresh
T6840 993-997 IN denotes with
T6839 984-992 VB denotes replaced
T6838 980-983 VB denotes was
T6837 968-979 NN denotes supernatant
T6836 957-967 JJ denotes lentiviral
T6835 953-956 DT denotes The
T6834 948-951 NN denotes hrs
T6833 945-947 CD denotes 24
T6832 941-944 IN denotes for
T6831 939-940 -RRB- denotes )
T6830 926-939 NNP denotes Bioanalytical
T6829 917-925 NNP denotes American
T6828 916-917 -LRB- denotes (
T6827 906-915 NN denotes Polybrene
T6826 900-905 NN denotes µg/ml
T6825 898-899 CD denotes 8
T6824 894-897 CC denotes and
T6823 882-893 NN denotes supernatant
T6822 871-881 JJ denotes lentiviral
T6821 867-870 DT denotes the
T6820 862-866 IN denotes with
T6819 854-861 VB denotes treated
T6818 849-853 VB denotes were
T6817 843-848 NN denotes cells
T6816 836-842 NN denotes target
T6815 832-835 DT denotes The
T6814 824-830 NN denotes filter
T6813 821-823 NN denotes µm
T6812 816-820 CD denotes 0.45
T6811 814-815 DT denotes a
T6810 806-813 IN denotes through
T6809 799-805 VB denotes passed
T6808 795-798 CC denotes and
T6807 790-794 NN denotes mins
T6806 787-789 CD denotes 10
T6805 783-786 IN denotes for
T6804 781-782 NN denotes g
T6803 775-780 CD denotes 2,000
T6802 772-774 IN denotes at
T6801 757-771 NN denotes centrifugation
T6800 754-756 IN denotes by
T6799 746-753 VB denotes cleared
T6798 744-745 -COMMA- denotes ,
T6797 732-744 NN denotes transfection
T6796 726-731 IN denotes after
T6795 722-725 NN denotes hrs
T6794 719-721 CD denotes 48
T6793 709-718 VB denotes collected
T6792 705-708 VB denotes was
T6791 693-704 NN denotes supernatant
T6790 682-692 JJ denotes lentiviral
T6789 678-681 DT denotes The
T6788 675-676 -RRB- denotes )
T6787 665-675 NN denotes Invitrogen
T6786 664-665 -LRB- denotes (
T6785 656-663 NN denotes reagent
T6784 651-655 CD denotes 2000
T6686 96-101 NN denotes cebpb
T6685 90-95 NN denotes mouse
T6684 86-89 CC denotes and
T6683 80-85 JJ denotes human
T6682 76-79 IN denotes for
T6681 67-75 JJ denotes specific
T6680 65-66 -RRB- denotes )
T6679 60-65 NN denotes shRNA
T6678 59-60 -LRB- denotes (
T6677 54-58 NN denotes RNAs
T6676 46-53 NN denotes hairpin
T6675 40-45 JJ denotes short
T6674 31-39 VB denotes carrying
T6673 23-30 NN denotes vectors
T6672 12-22 NN denotes lentiviral
T6671 0-11 NN denotes pLKO.1-puro
T6783 637-650 NN denotes Lipofectamine
T6782 631-636 VB denotes using
T6781 629-630 -RRB- denotes )
T6780 627-629 NN denotes µg
T6779 622-626 CD denotes 0.25
T6778 621-622 -LRB- denotes (
T6777 613-620 NN denotes plasmid
T6776 604-612 NN denotes envelope
T6775 593-603 NN denotes pCMV-VSV-G
T6774 589-592 CC denotes and
T6773 587-588 -COMMA- denotes ,
T6772 586-587 -RRB- denotes )
T6771 584-586 NN denotes µg
T6770 579-583 CD denotes 0.75
T6769 578-579 -LRB- denotes (
T6768 570-577 NN denotes plasmid
T6767 560-569 NN denotes packaging
T6766 545-559 NN denotes pCMV-ΔR8.2dvpr
T6765 543-544 -COMMA- denotes ,
T6764 542-543 -RRB- denotes )
T6763 540-542 NN denotes µg
T6762 538-539 CD denotes 1
T6761 537-538 -LRB- denotes (
T6760 529-536 NN denotes plasmid
T6759 518-528 NN denotes expression
T6758 512-517 NN denotes shRNA
T6757 507-511 DT denotes each
T6756 505-506 -COLON- denotes :
T6755 497-505 NN denotes plasmids
T6754 494-496 IN denotes of
T6753 486-493 NN denotes mixture
T6752 484-485 DT denotes a
T6751 479-483 IN denotes with
T6750 467-478 VB denotes transfected
T6749 462-466 VB denotes were
T6748 456-461 NN denotes cells
T6747 447-455 NN denotes HEK-293T
T6746 445-446 -COMMA- denotes ,
T6745 436-445 NN denotes particles
T6744 425-435 JJ denotes lentiviral
T6743 417-424 VB denotes produce
T6742 414-416 TO denotes To
T6741 411-412 -RRB- denotes ]
T6740 409-411 CD denotes 38
T6739 408-409 -LRB- denotes [
T6738 405-407 IN denotes in
T6737 402-404 IN denotes as
T6736 390-401 NN denotes experiments
T6735 384-389 DT denotes these
T6734 381-383 IN denotes in
T6733 373-380 NN denotes control
T6732 371-372 DT denotes a
T6731 368-370 IN denotes as
T6730 362-367 NN denotes shRNA
T6729 356-361 NN denotes CEBPB
T6728 350-355 JJ denotes human
T6727 346-349 DT denotes the
T6726 341-345 VB denotes used
T6725 338-340 PRP denotes we
T6724 328-337 RB denotes therefore
T6723 326-327 -COLON- denotes ;
T6722 319-326 NN denotes species
T6721 313-318 JJ denotes other
T6720 309-312 DT denotes the
T6719 306-308 IN denotes of
T6718 300-305 NN denotes cells
T6717 297-299 IN denotes on
T6716 292-296 VB denotes used
T6715 287-291 WRB denotes when
T6714 279-286 NN denotes C/EBP-β
T6713 268-278 JJ denotes endogenous
T6712 265-267 IN denotes of
T6711 254-264 NN denotes expression
T6710 244-253 VB denotes knockdown
T6709 240-243 RB denotes not
T6708 237-240 MD denotes can
T6707 230-236 NN denotes shRNAs
T6706 213-229 JJ denotes species-specific
T6705 207-212 DT denotes these
T6704 205-206 -COMMA- denotes ,
T6703 196-205 JJ denotes identical
T6702 192-195 RB denotes not
T6701 188-191 VB denotes are
T6700 180-187 NN denotes regions
T6699 167-179 JJ denotes untranslated
T6698 164-166 CD denotes 3′
T6697 158-163 NN denotes cebpb
T6696 152-157 NN denotes mouse
T6695 148-151 CC denotes and
T6694 142-147 JJ denotes human
T6693 138-141 DT denotes the
T6692 130-137 IN denotes Because
T6691 121-128 NN denotes studies
T6690 115-120 DT denotes these
T6689 112-114 IN denotes in
T6688 107-111 VB denotes used
T6687 102-106 VB denotes were
R4750 T6673 T6671 arg1Of vectors,pLKO.1-puro
R4751 T6673 T6672 arg1Of vectors,lentiviral
R4752 T6673 T6674 arg1Of vectors,carrying
R4753 T6673 T6687 arg1Of vectors,were
R4754 T6673 T6688 arg2Of vectors,used
R4755 T6677 T6674 arg2Of RNAs,carrying
R4756 T6677 T6675 arg1Of RNAs,short
R4757 T6677 T6676 arg1Of RNAs,hairpin
R4758 T6677 T6678 arg1Of RNAs,(
R4759 T6677 T6681 arg1Of RNAs,specific
R4760 T6679 T6678 arg2Of shRNA,(
R4761 T6680 T6678 arg3Of ),(
R4762 T6681 T6682 arg1Of specific,for
R4763 T6686 T6682 arg2Of cebpb,for
R4764 T6686 T6683 arg1Of cebpb,human
R4765 T6686 T6684 arg1Of cebpb,and
R4766 T6686 T6685 arg1Of cebpb,mouse
R4767 T6688 T6687 arg2Of used,were
R4768 T6688 T6689 arg1Of used,in
R4769 T6691 T6689 arg2Of studies,in
R4770 T6691 T6690 arg1Of studies,these
R4771 T6700 T6693 arg1Of regions,the
R4772 T6700 T6694 arg1Of regions,human
R4773 T6700 T6695 arg1Of regions,and
R4774 T6700 T6696 arg1Of regions,mouse
R4775 T6700 T6697 arg1Of regions,cebpb
R4776 T6700 T6698 arg1Of regions,3′
R4777 T6700 T6699 arg1Of regions,untranslated
R4778 T6700 T6701 arg1Of regions,are
R4779 T6700 T6703 arg1Of regions,identical
R4780 T6701 T6692 arg2Of are,Because
R4781 T6701 T6702 arg1Of are,not
R4782 T6703 T6701 arg2Of identical,are
R4783 T6707 T6705 arg1Of shRNAs,these
R4784 T6707 T6706 arg1Of shRNAs,species-specific
R4785 T6707 T6708 arg1Of shRNAs,can
R4786 T6707 T6710 arg1Of shRNAs,knockdown
R4787 T6707 T6716 arg1Of shRNAs,used
R4788 T6710 T6692 arg1Of knockdown,Because
R4789 T6710 T6704 arg1Of knockdown,","
R4790 T6710 T6708 arg2Of knockdown,can
R4791 T6710 T6709 arg1Of knockdown,not
R4792 T6710 T6715 arg1Of knockdown,when
R4793 T6710 T6723 arg1Of knockdown,;
R4794 T6711 T6710 arg2Of expression,knockdown
R4795 T6711 T6712 arg1Of expression,of
R4796 T6714 T6712 arg2Of C/EBP-β,of
R4797 T6714 T6713 arg1Of C/EBP-β,endogenous
R4798 T6716 T6715 arg2Of used,when
R4799 T6716 T6717 arg1Of used,on
R4800 T6718 T6717 arg2Of cells,on
R4801 T6718 T6719 arg1Of cells,of
R4802 T6722 T6719 arg2Of species,of
R4803 T6722 T6720 arg1Of species,the
R4804 T6722 T6721 arg1Of species,other
R4805 T6725 T6726 arg1Of we,used
R4806 T6726 T6723 arg2Of used,;
R4807 T6726 T6724 arg1Of used,therefore
R4808 T6726 T6731 arg1Of used,as
R4809 T6730 T6726 arg2Of shRNA,used
R4810 T6730 T6727 arg1Of shRNA,the
R4811 T6730 T6728 arg1Of shRNA,human
R4812 T6730 T6729 arg1Of shRNA,CEBPB
R4813 T6733 T6731 arg2Of control,as
R4814 T6733 T6732 arg1Of control,a
R4815 T6733 T6734 arg1Of control,in
R4816 T6736 T6734 arg2Of experiments,in
R4817 T6736 T6735 arg1Of experiments,these
R4818 T6736 T6737 arg1Of experiments,as
R4819 T6737 T6738 arg1Of as,in
R4820 T6740 T6738 arg2Of 38,in
R4821 T6740 T6739 arg2Of 38,[
R4822 T6741 T6739 arg3Of ],[
R4823 T6743 T6742 arg1Of produce,To
R4824 T6745 T6743 arg2Of particles,produce
R4825 T6745 T6744 arg1Of particles,lentiviral
R4826 T6748 T6743 arg1Of cells,produce
R4827 T6748 T6747 arg1Of cells,HEK-293T
R4828 T6748 T6749 arg1Of cells,were
R4829 T6748 T6750 arg2Of cells,transfected
R4830 T6748 T6782 arg1Of cells,using
R4831 T6750 T6742 modOf transfected,To
R4832 T6750 T6746 arg1Of transfected,","
R4833 T6750 T6749 arg2Of transfected,were
R4834 T6750 T6751 arg1Of transfected,with
R4835 T6750 T6782 modOf transfected,using
R4836 T6753 T6751 arg2Of mixture,with
R4837 T6753 T6752 arg1Of mixture,a
R4838 T6753 T6754 arg1Of mixture,of
R4839 T6753 T6756 arg1Of mixture,:
R4840 T6755 T6754 arg2Of plasmids,of
R4841 T6760 T6758 arg1Of plasmid,shRNA
R4842 T6760 T6759 arg1Of plasmid,expression
R4843 T6760 T6761 arg1Of plasmid,(
R4844 T6760 T6765 arg1Of plasmid,","
R4845 T6763 T6761 arg2Of µg,(
R4846 T6763 T6762 arg1Of µg,1
R4847 T6764 T6761 arg3Of ),(
R4848 T6765 T6774 arg1Of ",",and
R4849 T6768 T6765 arg2Of plasmid,","
R4850 T6768 T6766 arg1Of plasmid,pCMV-ΔR8.2dvpr
R4851 T6768 T6767 arg1Of plasmid,packaging
R4852 T6768 T6769 arg1Of plasmid,(
R4853 T6771 T6769 arg2Of µg,(
R4854 T6771 T6770 arg1Of µg,0.75
R4855 T6772 T6769 arg3Of ),(
R4856 T6774 T6756 arg2Of and,:
R4857 T6774 T6757 arg1Of and,each
R4858 T6774 T6773 arg1Of and,","
R4859 T6777 T6774 arg2Of plasmid,and
R4860 T6777 T6775 arg1Of plasmid,pCMV-VSV-G
R4861 T6777 T6776 arg1Of plasmid,envelope
R4862 T6777 T6778 arg1Of plasmid,(
R4863 T6780 T6778 arg2Of µg,(
R4864 T6780 T6779 arg1Of µg,0.25
R4865 T6781 T6778 arg3Of ),(
R4866 T6785 T6782 arg2Of reagent,using
R4867 T6785 T6783 arg1Of reagent,Lipofectamine
R4868 T6785 T6784 arg1Of reagent,2000
R4869 T6785 T6786 arg1Of reagent,(
R4870 T6787 T6786 arg2Of Invitrogen,(
R4871 T6788 T6786 arg3Of ),(
R4872 T6791 T6789 arg1Of supernatant,The
R4873 T6791 T6790 arg1Of supernatant,lentiviral
R4874 T6791 T6792 arg1Of supernatant,was
R4875 T6795 T6792 arg2Of hrs,was
R4876 T6795 T6793 arg2Of hrs,collected
R4877 T6795 T6794 arg1Of hrs,48
R4878 T6795 T6796 arg1Of hrs,after
R4879 T6795 T6798 arg1Of hrs,","
R4880 T6795 T6799 arg2Of hrs,cleared
R4881 T6795 T6809 arg2Of hrs,passed
R4882 T6797 T6796 arg2Of transfection,after
R4883 T6799 T6802 arg1Of cleared,at
R4884 T6799 T6808 arg1Of cleared,and
R4885 T6801 T6799 arg1Of centrifugation,cleared
R4886 T6801 T6800 arg2Of centrifugation,by
R4887 T6804 T6802 arg2Of g,at
R4888 T6804 T6803 arg1Of g,"2,000"
R4889 T6804 T6805 arg1Of g,for
R4890 T6807 T6805 arg2Of mins,for
R4891 T6807 T6806 arg1Of mins,10
R4892 T6809 T6808 arg2Of passed,and
R4893 T6809 T6810 arg1Of passed,through
R4894 T6812 T6813 arg1Of 0.45,µm
R4895 T6814 T6810 arg2Of filter,through
R4896 T6814 T6811 arg1Of filter,a
R4897 T6814 T6812 arg1Of filter,0.45
R4898 T6817 T6815 arg1Of cells,The
R4899 T6817 T6816 arg1Of cells,target
R4900 T6817 T6818 arg1Of cells,were
R4901 T6817 T6819 arg2Of cells,treated
R4902 T6819 T6818 arg2Of treated,were
R4903 T6819 T6820 arg1Of treated,with
R4904 T6823 T6824 arg1Of supernatant,and
R4905 T6825 T6824 arg2Of 8,and
R4906 T6827 T6820 arg2Of Polybrene,with
R4907 T6827 T6821 arg1Of Polybrene,the
R4908 T6827 T6822 arg1Of Polybrene,lentiviral
R4909 T6827 T6823 arg1Of Polybrene,supernatant
R4910 T6827 T6825 arg1Of Polybrene,8
R4911 T6827 T6826 arg1Of Polybrene,µg/ml
R4912 T6827 T6828 arg1Of Polybrene,(
R4913 T6827 T6832 arg1Of Polybrene,for
R4914 T6830 T6828 arg2Of Bioanalytical,(
R4915 T6830 T6829 arg1Of Bioanalytical,American
R4916 T6831 T6828 arg3Of ),(
R4917 T6834 T6832 arg2Of hrs,for
R4918 T6834 T6833 arg1Of hrs,24
R4919 T6837 T6835 arg1Of supernatant,The
R4920 T6837 T6836 arg1Of supernatant,lentiviral
R4921 T6837 T6838 arg1Of supernatant,was
R4922 T6837 T6839 arg2Of supernatant,replaced
R4923 T6837 T6845 arg2Of supernatant,incubated
R4924 T6837 T6851 arg1Of supernatant,allow
R4925 T6839 T6840 arg1Of replaced,with
R4926 T6839 T6844 arg1Of replaced,and
R4927 T6843 T6840 arg2Of media,with
R4928 T6843 T6841 arg1Of media,fresh
R4929 T6843 T6842 arg1Of media,growth
R4930 T6844 T6838 arg2Of and,was
R4931 T6845 T6844 arg2Of incubated,and
R4932 T6845 T6846 arg1Of incubated,further
R4933 T6845 T6847 arg1Of incubated,for
R4934 T6845 T6850 modOf incubated,to
R4935 T6849 T6847 arg2Of hrs,for
R4936 T6849 T6848 arg1Of hrs,72
R4937 T6851 T6850 arg1Of allow,to
R4938 T6851 T6852 arg1Of allow,for
R4939 T6855 T6852 arg2Of knockdown,for
R4940 T6855 T6853 arg1Of knockdown,effective
R4941 T6855 T6854 arg1Of knockdown,gene
R4942 T6857 T6856 arg1Of knockdown,C/EBP-β
R4943 T6857 T6858 arg1Of knockdown,was
R4944 T6857 T6859 arg2Of knockdown,confirmed
R4945 T6859 T6858 arg2Of confirmed,was
R4946 T6863 T6859 arg1Of analysis,confirmed
R4947 T6863 T6860 arg2Of analysis,by
R4948 T6863 T6861 arg1Of analysis,western
R4949 T6863 T6862 arg1Of analysis,blot

bionlp-st-ge-2016-test-proteins

Id Subject Object Predicate Lexical cue
T6650 1089-1096 Protein denotes C/EBP-β
T6649 279-286 Protein denotes C/EBP-β
T6648 158-163 Protein denotes cebpb
T6647 96-101 Protein denotes cebpb

bionlp-st-ge-2016-uniprot

Id Subject Object Predicate Lexical cue
T6874 1089-1096 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β
T6873 279-286 http://www.uniprot.org/uniprot/P28033 denotes C/EBP-β
T6872 158-163 http://www.uniprot.org/uniprot/P28033 denotes cebpb
T6871 96-101 http://www.uniprot.org/uniprot/P28033 denotes cebpb

GO-BP

Id Subject Object Predicate Lexical cue
T6652 1004-1010 http://purl.obolibrary.org/obo/GO_0040007 denotes growth

GO-CC

Id Subject Object Predicate Lexical cue
T6656 604-612 http://purl.obolibrary.org/obo/GO_0009274 denotes envelope
T6655 843-848 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T6654 456-461 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T6653 300-305 http://purl.obolibrary.org/obo/GO_0005623 denotes cells

sentences

Id Subject Object Predicate Lexical cue
T6639 1089-1146 Sentence denotes C/EBP-β knockdown was confirmed by western blot analysis.
T6638 953-1088 Sentence denotes The lentiviral supernatant was replaced with fresh growth media and incubated further for 72 hrs to allow for effective gene knockdown.
T6637 832-952 Sentence denotes The target cells were treated with the lentiviral supernatant and 8 µg/ml Polybrene (American Bioanalytical) for 24 hrs.
T6636 678-831 Sentence denotes The lentiviral supernatant was collected 48 hrs after transfection, cleared by centrifugation at 2,000 g for 10 mins and passed through a 0.45 µm filter.
T6635 414-677 Sentence denotes To produce lentiviral particles, HEK-293T cells were transfected with a mixture of plasmids: each shRNA expression plasmid (1 µg), pCMV-ΔR8.2dvpr packaging plasmid (0.75 µg), and pCMV-VSV-G envelope plasmid (0.25 µg) using Lipofectamine 2000 reagent (Invitrogen).
T6634 130-413 Sentence denotes Because the human and mouse cebpb 3′ untranslated regions are not identical, these species-specific shRNAs cannot knockdown expression of endogenous C/EBP-β when used on cells of the other species; therefore we used the human CEBPB shRNA as a control in these experiments as in [38].
T6633 0-129 Sentence denotes pLKO.1-puro lentiviral vectors carrying short hairpin RNAs (shRNA) specific for human and mouse cebpb were used in these studies.
T77 0-129 Sentence denotes pLKO.1-puro lentiviral vectors carrying short hairpin RNAs (shRNA) specific for human and mouse cebpb were used in these studies.
T78 130-413 Sentence denotes Because the human and mouse cebpb 3′ untranslated regions are not identical, these species-specific shRNAs cannot knockdown expression of endogenous C/EBP-β when used on cells of the other species; therefore we used the human CEBPB shRNA as a control in these experiments as in [38].
T79 414-677 Sentence denotes To produce lentiviral particles, HEK-293T cells were transfected with a mixture of plasmids: each shRNA expression plasmid (1 µg), pCMV-ΔR8.2dvpr packaging plasmid (0.75 µg), and pCMV-VSV-G envelope plasmid (0.25 µg) using Lipofectamine 2000 reagent (Invitrogen).
T80 678-831 Sentence denotes The lentiviral supernatant was collected 48 hrs after transfection, cleared by centrifugation at 2,000 g for 10 mins and passed through a 0.45 µm filter.
T81 832-952 Sentence denotes The target cells were treated with the lentiviral supernatant and 8 µg/ml Polybrene (American Bioanalytical) for 24 hrs.
T82 953-1088 Sentence denotes The lentiviral supernatant was replaced with fresh growth media and incubated further for 72 hrs to allow for effective gene knockdown.
T83 1089-1146 Sentence denotes C/EBP-β knockdown was confirmed by western blot analysis.

simple1

Id Subject Object Predicate Lexical cue
T6664 1089-1096 Protein denotes C/EBP-β
T6663 279-286 Protein denotes C/EBP-β
T6662 158-163 Protein denotes cebpb
T6661 96-101 Protein denotes cebpb

BioNLP16_DUT

Id Subject Object Predicate Lexical cue
T6870 1097-1106 Negative_regulation denotes knockdown
T6869 254-264 Gene_expression denotes expression
T6868 244-253 Negative_regulation denotes knockdown
T6867 1089-1096 Protein denotes C/EBP-β
T6866 279-286 Protein denotes C/EBP-β
T6865 158-163 Protein denotes cebpb
T6864 96-101 Protein denotes cebpb
R4950 T6866 T6869 themeOf C/EBP-β,expression
R4951 T6867 T6870 themeOf C/EBP-β,knockdown
R4952 T6869 T6868 themeOf expression,knockdown

BioNLP16_Messiy

Id Subject Object Predicate Lexical cue
T6893 1097-1106 Negative_regulation denotes knockdown
T6892 254-264 Gene_expression denotes expression
T6891 244-253 Negative_regulation denotes knockdown
T6890 1089-1096 Protein denotes C/EBP-β
T6889 279-286 Protein denotes C/EBP-β
T6888 158-163 Protein denotes cebpb
T6887 96-101 Protein denotes cebpb
R4957 T6889 T6891 themeOf C/EBP-β,knockdown
R4958 T6889 T6892 themeOf C/EBP-β,expression
R4959 T6890 T6893 themeOf C/EBP-β,knockdown
R4960 T6892 T6891 themeOf expression,knockdown

DLUT931

Id Subject Object Predicate Lexical cue
T6881 1097-1106 Negative_regulation denotes knockdown
T6880 244-253 Negative_regulation denotes knockdown
T6879 254-264 Gene_expression denotes expression
T6878 1089-1096 Protein denotes C/EBP-β
T6877 279-286 Protein denotes C/EBP-β
T6876 158-163 Protein denotes cebpb
T6875 96-101 Protein denotes cebpb
R4953 T6877 T6879 themeOf C/EBP-β,expression
R4954 T6878 T6881 themeOf C/EBP-β,knockdown
R4955 T6879 T6880 themeOf expression,knockdown

bionlp-st-ge-2016-test-ihmc

Id Subject Object Predicate Lexical cue
T6926 1043-1087 Protein denotes 72 hrs to allow for effective gene knockdown
T6925 158-163 Protein denotes cebpb
T6924 693-704 Entity denotes supernatant
T6923 637-676 Entity denotes Lipofectamine 2000 reagent (Invitrogen)
T6922 1089-1096 Protein denotes C/EBP-β
T6921 945-951 Protein denotes 24 hrs
T6920 719-725 Protein denotes 48 hrs
T6919 364-367 Protein denotes RNA
T6918 300-326 Entity denotes cells of the other species
T6917 832-848 Entity denotes The target cells
T6916 1073-1077 Protein denotes gene
T6915 867-893 Entity denotes the lentiviral supernatant
T6914 425-446 Entity denotes lentiviral particles,
T6913 953-979 Entity denotes The lentiviral supernatant
T6912 898-940 Entity denotes 8 µg/ml Polybrene (American Bioanalytical)
T6911 356-361 Protein denotes CEBPB
T6910 90-101 Protein denotes mouse cebpb
T6909 479-505 Entity denotes with a mixture of plasmids
T6908 265-284 Protein denotes of endogenous C/EBP

bionlp-st-ge-2016-test-tees

Id Subject Object Predicate Lexical cue
T6900 1097-1106 Negative_regulation denotes knockdown
T6899 1089-1096 Protein denotes C/EBP-β
T6898 244-253 Negative_regulation denotes knockdown
T6897 373-380 Regulation denotes control
T6896 254-264 Gene_expression denotes expression
T6895 350-367 Protein denotes human CEBPB shRNA
T6894 279-286 Protein denotes C/EBP-β
R4961 T6894 T6896 themeOf C/EBP-β,expression
R4962 T6896 T6897 themeOf expression,control
R4963 T6896 T6898 themeOf expression,knockdown
R4964 T6899 T6900 themeOf C/EBP-β,knockdown

testone

Id Subject Object Predicate Lexical cue
T6620 1097-1106 Negative_regulation denotes knockdown
T6619 417-424 Gene_expression denotes produce
T6618 254-264 Gene_expression denotes expression
T6617 244-253 Negative_regulation denotes knockdown
T6616 1089-1096 Protein denotes C/EBP-β
T6615 279-286 Protein denotes C/EBP-β
T6614 158-163 Protein denotes cebpb
T6613 96-101 Protein denotes cebpb
R4736 T6615 T6618 themeOf C/EBP-β,expression
R4737 T6616 T6620 themeOf C/EBP-β,knockdown

test3

Id Subject Object Predicate Lexical cue
T6631 1097-1106 Negative_regulation denotes knockdown
T6630 1089-1096 Protein denotes C/EBP-β
T6629 279-286 Protein denotes C/EBP-β
T6628 254-264 Gene_expression denotes expression
T6627 244-253 Negative_regulation denotes knockdown
T6626 158-163 Protein denotes cebpb
T6625 96-101 Protein denotes cebpb
T6624 1089-1096 Protein denotes C/EBP-β
T6623 279-286 Protein denotes C/EBP-β
T6622 158-163 Protein denotes cebpb
T6621 96-101 Protein denotes cebpb
R4738 T6626 T6627 causeOf cebpb,knockdown
R4739 T6628 T6627 themeOf expression,knockdown
R4740 T6629 T6628 themeOf C/EBP-β,expression
R4741 T6630 T6631 themeOf C/EBP-β,knockdown