PMC:3589482 / 43023-43245 JSONTXT

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    bionlp-st-ge-2016-spacy-parsed

    {"project":"bionlp-st-ge-2016-spacy-parsed","denotations":[{"id":"T21574","span":{"begin":221,"end":222},"obj":"."},{"id":"T21573","span":{"begin":220,"end":221},"obj":"NNP"},{"id":"T21572","span":{"begin":218,"end":220},"obj":"CD"},{"id":"T21571","span":{"begin":217,"end":218},"obj":"NNP"},{"id":"T21570","span":{"begin":205,"end":216},"obj":"NNS"},{"id":"T21569","span":{"begin":195,"end":204},"obj":"JJ"},{"id":"T21568","span":{"begin":192,"end":194},"obj":"TO"},{"id":"T21567","span":{"begin":183,"end":191},"obj":"VBN"},{"id":"T21566","span":{"begin":174,"end":182},"obj":"VBN"},{"id":"T21565","span":{"begin":165,"end":173},"obj":"RB"},{"id":"T21564","span":{"begin":161,"end":164},"obj":"VBD"},{"id":"T21563","span":{"begin":156,"end":160},"obj":"NNP"},{"id":"T21562","span":{"begin":152,"end":155},"obj":"CC"},{"id":"T21561","span":{"begin":148,"end":151},"obj":"NNP"},{"id":"T21560","span":{"begin":145,"end":147},"obj":"IN"},{"id":"T21559","span":{"begin":133,"end":144},"obj":"NNS"},{"id":"T21558","span":{"begin":122,"end":132},"obj":"JJ"},{"id":"T21557","span":{"begin":110,"end":121},"obj":"JJ"},{"id":"T21556","span":{"begin":109,"end":110},"obj":":"},{"id":"T21555","span":{"begin":104,"end":109},"obj":"NNP"},{"id":"T21554","span":{"begin":101,"end":103},"obj":"IN"},{"id":"T21553","span":{"begin":91,"end":100},"obj":"NN"},{"id":"T21552","span":{"begin":85,"end":90},"obj":"WP$"},{"id":"T21551","span":{"begin":80,"end":84},"obj":"NN"},{"id":"T21550","span":{"begin":77,"end":79},"obj":"IN"},{"id":"T21549","span":{"begin":66,"end":76},"obj":"VBN"},{"id":"T21548","span":{"begin":62,"end":65},"obj":"VBD"},{"id":"T21547","span":{"begin":53,"end":61},"obj":"NNP"},{"id":"T21546","span":{"begin":51,"end":52},"obj":","},{"id":"T21545","span":{"begin":46,"end":51},"obj":"NN"},{"id":"T21544","span":{"begin":36,"end":45},"obj":"VBG"},{"id":"T21543","span":{"begin":25,"end":35},"obj":"NN"},{"id":"T21542","span":{"begin":14,"end":24},"obj":"NN"},{"id":"T21541","span":{"begin":5,"end":13},"obj":"JJ"},{"id":"T21540","span":{"begin":3,"end":4},"obj":"DT"},{"id":"T21539","span":{"begin":0,"end":2},"obj":"IN"}],"relations":[{"id":"R15400","pred":"prep","subj":"T21539","obj":"T21549"},{"id":"R15401","pred":"det","subj":"T21540","obj":"T21543"},{"id":"R15402","pred":"amod","subj":"T21541","obj":"T21543"},{"id":"R15403","pred":"compound","subj":"T21542","obj":"T21543"},{"id":"R15404","pred":"pobj","subj":"T21543","obj":"T21539"},{"id":"R15405","pred":"acl","subj":"T21544","obj":"T21543"},{"id":"R15406","pred":"dobj","subj":"T21545","obj":"T21544"},{"id":"R15407","pred":"punct","subj":"T21546","obj":"T21549"},{"id":"R15408","pred":"pobj","subj":"T21561","obj":"T21560"},{"id":"R15409","pred":"nsubjpass","subj":"T21547","obj":"T21549"},{"id":"R15410","pred":"cc","subj":"T21562","obj":"T21561"},{"id":"R15411","pred":"auxpass","subj":"T21548","obj":"T21549"},{"id":"R15412","pred":"conj","subj":"T21563","obj":"T21561"},{"id":"R15413","pred":"auxpass","subj":"T21564","obj":"T21566"},{"id":"R15414","pred":"ROOT","subj":"T21549","obj":"T21549"},{"id":"R15415","pred":"prep","subj":"T21550","obj":"T21549"},{"id":"R15416","pred":"advmod","subj":"T21565","obj":"T21566"},{"id":"R15417","pred":"pobj","subj":"T21551","obj":"T21550"},{"id":"R15418","pred":"conj","subj":"T21566","obj":"T21549"},{"id":"R15419","pred":"prep","subj":"T21567","obj":"T21566"},{"id":"R15420","pred":"poss","subj":"T21552","obj":"T21553"},{"id":"R15421","pred":"prep","subj":"T21568","obj":"T21567"},{"id":"R15422","pred":"amod","subj":"T21569","obj":"T21570"},{"id":"R15423","pred":"pobj","subj":"T21570","obj":"T21568"},{"id":"R15424","pred":"nsubjpass","subj":"T21553","obj":"T21566"},{"id":"R15425","pred":"nmod","subj":"T21571","obj":"T21573"},{"id":"R15426","pred":"nummod","subj":"T21572","obj":"T21573"},{"id":"R15427","pred":"prep","subj":"T21554","obj":"T21553"},{"id":"R15428","pred":"appos","subj":"T21573","obj":"T21570"},{"id":"R15429","pred":"punct","subj":"T21574","obj":"T21566"},{"id":"R15431","pred":"pobj","subj":"T21555","obj":"T21554"},{"id":"R15435","pred":"punct","subj":"T21556","obj":"T21557"},{"id":"R15438","pred":"amod","subj":"T21557","obj":"T21559"},{"id":"R15445","pred":"amod","subj":"T21558","obj":"T21559"},{"id":"R15448","pred":"conj","subj":"T21559","obj":"T21553"},{"id":"R15450","pred":"prep","subj":"T21560","obj":"T21553"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    pmc-enju-pas

    {"project":"pmc-enju-pas","denotations":[{"id":"T19338","span":{"begin":220,"end":221},"obj":"-RRB-"},{"id":"T19337","span":{"begin":218,"end":220},"obj":"CD"},{"id":"T19336","span":{"begin":217,"end":218},"obj":"-LRB-"},{"id":"T19335","span":{"begin":205,"end":216},"obj":"NN"},{"id":"T19334","span":{"begin":195,"end":204},"obj":"JJ"},{"id":"T19333","span":{"begin":192,"end":194},"obj":"TO"},{"id":"T19332","span":{"begin":183,"end":191},"obj":"VB"},{"id":"T19331","span":{"begin":174,"end":182},"obj":"JJ"},{"id":"T19330","span":{"begin":165,"end":173},"obj":"RB"},{"id":"T19329","span":{"begin":161,"end":164},"obj":"VB"},{"id":"T19328","span":{"begin":156,"end":160},"obj":"NN"},{"id":"T19327","span":{"begin":152,"end":155},"obj":"CC"},{"id":"T19326","span":{"begin":148,"end":151},"obj":"NN"},{"id":"T19325","span":{"begin":145,"end":147},"obj":"IN"},{"id":"T19324","span":{"begin":133,"end":144},"obj":"NN"},{"id":"T19323","span":{"begin":122,"end":132},"obj":"JJ"},{"id":"T19322","span":{"begin":104,"end":121},"obj":"JJ"},{"id":"T19321","span":{"begin":101,"end":103},"obj":"IN"},{"id":"T19320","span":{"begin":91,"end":100},"obj":"NN"},{"id":"T19319","span":{"begin":85,"end":90},"obj":"WP-DOLLAR-"},{"id":"T19318","span":{"begin":80,"end":84},"obj":"NN"},{"id":"T19317","span":{"begin":77,"end":79},"obj":"IN"},{"id":"T19316","span":{"begin":66,"end":76},"obj":"VB"},{"id":"T19315","span":{"begin":62,"end":65},"obj":"VB"},{"id":"T19314","span":{"begin":53,"end":61},"obj":"NN"},{"id":"T19313","span":{"begin":51,"end":52},"obj":"-COMMA-"},{"id":"T19312","span":{"begin":46,"end":51},"obj":"NN"},{"id":"T19311","span":{"begin":36,"end":45},"obj":"NN"},{"id":"T19310","span":{"begin":25,"end":35},"obj":"NN"},{"id":"T19309","span":{"begin":14,"end":24},"obj":"NN"},{"id":"T19308","span":{"begin":5,"end":13},"obj":"JJ"},{"id":"T19307","span":{"begin":3,"end":4},"obj":"DT"},{"id":"T19306","span":{"begin":0,"end":2},"obj":"IN"}],"relations":[{"id":"R13782","pred":"arg2Of","subj":"T19312","obj":"T19306"},{"id":"R13783","pred":"arg1Of","subj":"T19312","obj":"T19307"},{"id":"R13784","pred":"arg1Of","subj":"T19312","obj":"T19308"},{"id":"R13785","pred":"arg1Of","subj":"T19312","obj":"T19309"},{"id":"R13786","pred":"arg1Of","subj":"T19312","obj":"T19310"},{"id":"R13787","pred":"arg1Of","subj":"T19312","obj":"T19311"},{"id":"R13788","pred":"arg1Of","subj":"T19314","obj":"T19315"},{"id":"R13789","pred":"arg2Of","subj":"T19314","obj":"T19316"},{"id":"R13790","pred":"arg1Of","subj":"T19316","obj":"T19306"},{"id":"R13791","pred":"arg1Of","subj":"T19316","obj":"T19313"},{"id":"R13792","pred":"arg2Of","subj":"T19316","obj":"T19315"},{"id":"R13793","pred":"arg1Of","subj":"T19316","obj":"T19317"},{"id":"R13794","pred":"arg1Of","subj":"T19316","obj":"T19332"},{"id":"R13795","pred":"arg2Of","subj":"T19318","obj":"T19317"},{"id":"R13796","pred":"arg2Of","subj":"T19318","obj":"T19319"},{"id":"R13797","pred":"arg1Of","subj":"T19320","obj":"T19319"},{"id":"R13798","pred":"arg1Of","subj":"T19320","obj":"T19321"},{"id":"R13799","pred":"arg1Of","subj":"T19320","obj":"T19325"},{"id":"R13800","pred":"arg1Of","subj":"T19320","obj":"T19329"},{"id":"R13801","pred":"arg1Of","subj":"T19320","obj":"T19331"},{"id":"R13802","pred":"arg2Of","subj":"T19324","obj":"T19321"},{"id":"R13803","pred":"arg1Of","subj":"T19324","obj":"T19322"},{"id":"R13804","pred":"arg1Of","subj":"T19324","obj":"T19323"},{"id":"R13805","pred":"arg1Of","subj":"T19326","obj":"T19327"},{"id":"R13806","pred":"arg2Of","subj":"T19327","obj":"T19325"},{"id":"R13807","pred":"arg2Of","subj":"T19328","obj":"T19327"},{"id":"R13808","pred":"arg1Of","subj":"T19329","obj":"T19330"},{"id":"R13809","pred":"arg2Of","subj":"T19331","obj":"T19329"},{"id":"R13810","pred":"arg2Of","subj":"T19333","obj":"T19332"},{"id":"R13811","pred":"arg2Of","subj":"T19335","obj":"T19333"},{"id":"R13812","pred":"arg1Of","subj":"T19335","obj":"T19334"},{"id":"R13813","pred":"arg1Of","subj":"T19335","obj":"T19336"},{"id":"R13814","pred":"arg2Of","subj":"T19337","obj":"T19336"},{"id":"R13815","pred":"arg3Of","subj":"T19338","obj":"T19336"}],"namespaces":[{"prefix":"_base","uri":"http://kmcs.nii.ac.jp/enju/"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    bionlp-st-ge-2016-coref

    {"project":"bionlp-st-ge-2016-coref","denotations":[{"id":"T18712","span":{"begin":80,"end":84},"obj":"Antecedent"},{"id":"T18711","span":{"begin":85,"end":90},"obj":"Anaphor"}],"relations":[{"id":"R13382","pred":"boundBy","subj":"T18711","obj":"T18712"}],"namespaces":[{"prefix":"_base","uri":"https://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    bionlp-st-ge-2016-test-proteins

    {"project":"bionlp-st-ge-2016-test-proteins","denotations":[{"id":"T18741","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T18740","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T18739","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T18738","span":{"begin":53,"end":61},"obj":"Protein"}],"namespaces":[{"prefix":"_base","uri":"http://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    bionlp-st-ge-2016-uniprot

    {"project":"bionlp-st-ge-2016-uniprot","denotations":[{"id":"T20251","span":{"begin":104,"end":111},"obj":"http://www.uniprot.org/uniprot/P28033"},{"id":"T20220","span":{"begin":53,"end":61},"obj":"http://www.uniprot.org/uniprot/P05120"}],"namespaces":[{"prefix":"_base","uri":"http://www.uniprot.org/uniprot/"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    sentences

    {"project":"sentences","denotations":[{"id":"T18493","span":{"begin":0,"end":222},"obj":"Sentence"},{"id":"T258","span":{"begin":0,"end":222},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    simple1

    {"project":"simple1","denotations":[{"id":"T18878","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T18877","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T18876","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T18875","span":{"begin":53,"end":61},"obj":"Protein"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    BioNLP16_DUT

    {"project":"BioNLP16_DUT","denotations":[{"id":"T20086","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T20085","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T20084","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T20083","span":{"begin":53,"end":61},"obj":"Protein"},{"id":"T20163","span":{"begin":174,"end":182},"obj":"Negative_regulation"},{"id":"T20162","span":{"begin":112,"end":121},"obj":"Negative_regulation"},{"id":"T20161","span":{"begin":91,"end":100},"obj":"Positive_regulation"}],"relations":[{"id":"R14526","pred":"themeOf","subj":"T20083","obj":"T20161"},{"id":"R14527","pred":"themeOf","subj":"T20084","obj":"T20161"},{"id":"R14528","pred":"themeOf","subj":"T20085","obj":"T20161"},{"id":"R14529","pred":"themeOf","subj":"T20085","obj":"T20162"},{"id":"R14530","pred":"themeOf","subj":"T20086","obj":"T20161"},{"id":"R14587","pred":"themeOf","subj":"T20161","obj":"T20162"},{"id":"R14588","pred":"themeOf","subj":"T20161","obj":"T20162"},{"id":"R14590","pred":"themeOf","subj":"T20161","obj":"T20163"},{"id":"R14591","pred":"themeOf","subj":"T20161","obj":"T20163"},{"id":"R14592","pred":"themeOf","subj":"T20161","obj":"T20163"},{"id":"R14593","pred":"themeOf","subj":"T20161","obj":"T20163"},{"id":"R14586","pred":"themeOf","subj":"T20161","obj":"T20162"},{"id":"R14589","pred":"themeOf","subj":"T20161","obj":"T20162"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    BioNLP16_Messiy

    {"project":"BioNLP16_Messiy","denotations":[{"id":"T20536","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T20535","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T20534","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T20533","span":{"begin":53,"end":61},"obj":"Protein"},{"id":"T20603","span":{"begin":112,"end":121},"obj":"Negative_regulation"},{"id":"T20602","span":{"begin":91,"end":100},"obj":"Positive_regulation"},{"id":"T20601","span":{"begin":174,"end":182},"obj":"Negative_regulation"}],"relations":[{"id":"R14742","pred":"themeOf","subj":"T20534","obj":"T20602"},{"id":"R14743","pred":"themeOf","subj":"T20534","obj":"T20601"},{"id":"R14744","pred":"themeOf","subj":"T20535","obj":"T20603"},{"id":"R14745","pred":"themeOf","subj":"T20536","obj":"T20602"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    DLUT931

    {"project":"DLUT931","denotations":[{"id":"T20383","span":{"begin":174,"end":182},"obj":"Negative_regulation"},{"id":"T20382","span":{"begin":112,"end":121},"obj":"Negative_regulation"},{"id":"T20381","span":{"begin":91,"end":100},"obj":"Positive_regulation"},{"id":"T20310","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T20309","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T20308","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T20307","span":{"begin":53,"end":61},"obj":"Protein"}],"relations":[{"id":"R14631","pred":"themeOf","subj":"T20308","obj":"T20381"},{"id":"R14632","pred":"themeOf","subj":"T20309","obj":"T20382"},{"id":"R14633","pred":"themeOf","subj":"T20310","obj":"T20381"},{"id":"R14678","pred":"themeOf","subj":"T20381","obj":"T20383"},{"id":"R14679","pred":"themeOf","subj":"T20381","obj":"T20382"},{"id":"R14680","pred":"themeOf","subj":"T20381","obj":"T20382"},{"id":"R14681","pred":"themeOf","subj":"T20381","obj":"T20383"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    bionlp-st-ge-2016-test-ihmc

    {"project":"bionlp-st-ge-2016-test-ihmc","denotations":[{"id":"T21089","span":{"begin":91,"end":182},"obj":"Negative_regulation"},{"id":"T21060","span":{"begin":53,"end":61},"obj":"Protein"},{"id":"T21052","span":{"begin":148,"end":151},"obj":"Entity"},{"id":"T21047","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T21037","span":{"begin":192,"end":221},"obj":"Entity"},{"id":"T21032","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T20975","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T20911","span":{"begin":112,"end":144},"obj":"Entity"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    bionlp-st-ge-2016-test-tees

    {"project":"bionlp-st-ge-2016-test-tees","denotations":[{"id":"T20687","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T20686","span":{"begin":104,"end":111},"obj":"Protein"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    testone

    {"project":"testone","denotations":[{"id":"T18252","span":{"begin":174,"end":182},"obj":"Negative_regulation"},{"id":"T18251","span":{"begin":112,"end":121},"obj":"Negative_regulation"},{"id":"T18189","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T18188","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T18187","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T18186","span":{"begin":53,"end":61},"obj":"Protein"}],"relations":[{"id":"R13120","pred":"themeOf","subj":"T18188","obj":"T18251"},{"id":"R13121","pred":"themeOf","subj":"T18189","obj":"T18187"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}

    test3

    {"project":"test3","denotations":[{"id":"T18394","span":{"begin":174,"end":182},"obj":"Negative_regulation"},{"id":"T18393","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T18392","span":{"begin":112,"end":121},"obj":"Negative_regulation"},{"id":"T18391","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T18390","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T18389","span":{"begin":53,"end":61},"obj":"Protein"},{"id":"T18306","span":{"begin":156,"end":160},"obj":"Protein"},{"id":"T18305","span":{"begin":104,"end":111},"obj":"Protein"},{"id":"T18304","span":{"begin":80,"end":84},"obj":"Protein"},{"id":"T18303","span":{"begin":53,"end":61},"obj":"Protein"}],"relations":[{"id":"R13178","pred":"themeOf","subj":"T18389","obj":"T18390"},{"id":"R13179","pred":"themeOf","subj":"T18390","obj":"T18394"},{"id":"R13180","pred":"themeOf","subj":"T18391","obj":"T18392"},{"id":"R13181","pred":"themeOf","subj":"T18393","obj":"T18390"}],"text":"In a previous microarray expression profiling study, SerpinB2 was identified as gene whose induction in C/EBP-β-deficient peritoneal macrophages by LPS and IFNγ was severely impaired compared to wild-type macrophages [68]."}