PMC:3589482 / 4117-4342 JSONTXT

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    bionlp-st-ge-2016-spacy-parsed

    {"project":"bionlp-st-ge-2016-spacy-parsed","denotations":[{"id":"T2957","span":{"begin":224,"end":225},"obj":"."},{"id":"T2956","span":{"begin":223,"end":224},"obj":"NNP"},{"id":"T2955","span":{"begin":221,"end":223},"obj":"CD"},{"id":"T2954","span":{"begin":220,"end":221},"obj":"NNP"},{"id":"T2953","span":{"begin":211,"end":219},"obj":"NNS"},{"id":"T2952","span":{"begin":201,"end":210},"obj":"NNP"},{"id":"T2951","span":{"begin":197,"end":200},"obj":"CD"},{"id":"T2950","span":{"begin":193,"end":196},"obj":"CC"},{"id":"T2949","span":{"begin":187,"end":192},"obj":"NNP"},{"id":"T2948","span":{"begin":186,"end":187},"obj":"NNP"},{"id":"T2947","span":{"begin":182,"end":186},"obj":"NNP"},{"id":"T2946","span":{"begin":178,"end":181},"obj":"DT"},{"id":"T2945","span":{"begin":175,"end":177},"obj":"IN"},{"id":"T2944","span":{"begin":163,"end":174},"obj":"NN"},{"id":"T2943","span":{"begin":160,"end":162},"obj":"IN"},{"id":"T2942","span":{"begin":148,"end":159},"obj":"VBN"},{"id":"T2941","span":{"begin":144,"end":147},"obj":"VBD"},{"id":"T2940","span":{"begin":133,"end":143},"obj":"NN"},{"id":"T2939","span":{"begin":127,"end":132},"obj":"WP$"},{"id":"T2938","span":{"begin":120,"end":126},"obj":"NN"},{"id":"T2937","span":{"begin":118,"end":119},"obj":"DT"},{"id":"T2936","span":{"begin":115,"end":117},"obj":"IN"},{"id":"T2935","span":{"begin":104,"end":114},"obj":"VBN"},{"id":"T2934","span":{"begin":100,"end":103},"obj":"VBD"},{"id":"T2933","span":{"begin":91,"end":99},"obj":"NNP"},{"id":"T2932","span":{"begin":89,"end":90},"obj":","},{"id":"T2931","span":{"begin":85,"end":89},"obj":"NNP"},{"id":"T2930","span":{"begin":81,"end":84},"obj":"CD"},{"id":"T2929","span":{"begin":78,"end":80},"obj":"IN"},{"id":"T2928","span":{"begin":67,"end":77},"obj":"JJ"},{"id":"T2927","span":{"begin":59,"end":66},"obj":"NNS"},{"id":"T2926","span":{"begin":46,"end":58},"obj":"JJ"},{"id":"T2925","span":{"begin":32,"end":45},"obj":"JJ"},{"id":"T2924","span":{"begin":20,"end":31},"obj":"VBG"},{"id":"T2923","span":{"begin":17,"end":19},"obj":"IN"},{"id":"T2922","span":{"begin":11,"end":16},"obj":"VBN"},{"id":"T2921","span":{"begin":3,"end":10},"obj":"NNS"},{"id":"T2920","span":{"begin":0,"end":2},"obj":"IN"}],"relations":[{"id":"R2042","pred":"prep","subj":"T2920","obj":"T2935"},{"id":"R2044","pred":"pobj","subj":"T2921","obj":"T2920"},{"id":"R2045","pred":"acl","subj":"T2922","obj":"T2921"},{"id":"R2046","pred":"prep","subj":"T2923","obj":"T2922"},{"id":"R2048","pred":"pcomp","subj":"T2924","obj":"T2923"},{"id":"R2049","pred":"amod","subj":"T2925","obj":"T2927"},{"id":"R2050","pred":"amod","subj":"T2926","obj":"T2927"},{"id":"R2054","pred":"dobj","subj":"T2927","obj":"T2924"},{"id":"R2055","pred":"amod","subj":"T2928","obj":"T2927"},{"id":"R2056","pred":"prep","subj":"T2929","obj":"T2928"},{"id":"R2058","pred":"nummod","subj":"T2930","obj":"T2931"},{"id":"R2059","pred":"pobj","subj":"T2931","obj":"T2929"},{"id":"R2060","pred":"punct","subj":"T2932","obj":"T2935"},{"id":"R2061","pred":"nsubjpass","subj":"T2933","obj":"T2935"},{"id":"R2062","pred":"auxpass","subj":"T2934","obj":"T2935"},{"id":"R2064","pred":"ROOT","subj":"T2935","obj":"T2935"},{"id":"R2065","pred":"prep","subj":"T2936","obj":"T2935"},{"id":"R2066","pred":"det","subj":"T2937","obj":"T2938"},{"id":"R2067","pred":"pobj","subj":"T2938","obj":"T2936"},{"id":"R2069","pred":"poss","subj":"T2939","obj":"T2940"},{"id":"R2070","pred":"nsubjpass","subj":"T2940","obj":"T2942"},{"id":"R2071","pred":"auxpass","subj":"T2941","obj":"T2942"},{"id":"R2073","pred":"advcl","subj":"T2942","obj":"T2935"},{"id":"R2074","pred":"agent","subj":"T2943","obj":"T2942"},{"id":"R2075","pred":"pobj","subj":"T2944","obj":"T2943"},{"id":"R2077","pred":"prep","subj":"T2945","obj":"T2944"},{"id":"R2078","pred":"det","subj":"T2946","obj":"T2949"},{"id":"R2080","pred":"compound","subj":"T2947","obj":"T2949"},{"id":"R2081","pred":"compound","subj":"T2948","obj":"T2949"},{"id":"R2083","pred":"pobj","subj":"T2949","obj":"T2945"},{"id":"R2084","pred":"cc","subj":"T2950","obj":"T2949"},{"id":"R2085","pred":"nummod","subj":"T2951","obj":"T2953"},{"id":"R2086","pred":"compound","subj":"T2952","obj":"T2953"},{"id":"R2088","pred":"conj","subj":"T2953","obj":"T2944"},{"id":"R2089","pred":"nmod","subj":"T2954","obj":"T2956"},{"id":"R2091","pred":"nummod","subj":"T2955","obj":"T2956"},{"id":"R2092","pred":"appos","subj":"T2956","obj":"T2953"},{"id":"R2093","pred":"punct","subj":"T2957","obj":"T2935"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    pmc-enju-pas

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    bionlp-st-ge-2016-coref

    {"project":"bionlp-st-ge-2016-coref","denotations":[{"id":"T1294","span":{"begin":118,"end":126},"obj":"Antecedent"},{"id":"T1293","span":{"begin":127,"end":132},"obj":"Anaphor"},{"id":"T1292","span":{"begin":91,"end":99},"obj":"Antecedent"},{"id":"T1291","span":{"begin":118,"end":126},"obj":"Anaphor"}],"relations":[{"id":"R821","pred":"boundBy","subj":"T1291","obj":"T1292"},{"id":"R822","pred":"boundBy","subj":"T1293","obj":"T1291"}],"namespaces":[{"prefix":"_base","uri":"https://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    bionlp-st-ge-2016-test-proteins

    {"project":"bionlp-st-ge-2016-test-proteins","denotations":[{"id":"T1312","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T1311","span":{"begin":91,"end":99},"obj":"Protein"}],"namespaces":[{"prefix":"_base","uri":"http://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    bionlp-st-ge-2016-uniprot

    {"project":"bionlp-st-ge-2016-uniprot","denotations":[{"id":"T2111","span":{"begin":91,"end":99},"obj":"http://www.uniprot.org/uniprot/P05120"},{"id":"T2127","span":{"begin":206,"end":210},"obj":"http://www.uniprot.org/uniprot/O43889"},{"id":"T2126","span":{"begin":206,"end":210},"obj":"http://www.uniprot.org/uniprot/P16220"},{"id":"T2125","span":{"begin":206,"end":210},"obj":"http://www.uniprot.org/uniprot/Q8TEY5"},{"id":"T2124","span":{"begin":206,"end":210},"obj":"http://www.uniprot.org/uniprot/P18848"},{"id":"T2123","span":{"begin":182,"end":186},"obj":"http://www.uniprot.org/uniprot/O14920"},{"id":"T2129","span":{"begin":206,"end":210},"obj":"http://www.uniprot.org/uniprot/Q02930"},{"id":"T2128","span":{"begin":206,"end":210},"obj":"http://www.uniprot.org/uniprot/P15336"}],"namespaces":[{"prefix":"_base","uri":"http://www.uniprot.org/uniprot/"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    GO-BP

    {"project":"GO-BP","denotations":[{"id":"T1373","span":{"begin":46,"end":58},"obj":"http://purl.obolibrary.org/obo/GO_0043066"},{"id":"T1372","span":{"begin":197,"end":200},"obj":"http://purl.obolibrary.org/obo/GO_0004707"},{"id":"T1371","span":{"begin":81,"end":84},"obj":"http://purl.obolibrary.org/obo/GO_0004707"},{"id":"T1370","span":{"begin":85,"end":89},"obj":"http://purl.obolibrary.org/obo/GO_0004707"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    GO-MF

    {"project":"GO-MF","denotations":[{"id":"T1387","span":{"begin":197,"end":200},"obj":"http://purl.obolibrary.org/obo/GO_0004707"},{"id":"T1386","span":{"begin":81,"end":84},"obj":"http://purl.obolibrary.org/obo/GO_0004707"},{"id":"T1385","span":{"begin":85,"end":89},"obj":"http://purl.obolibrary.org/obo/GO_0004707"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    sentences

    {"project":"sentences","denotations":[{"id":"T1217","span":{"begin":0,"end":225},"obj":"Sentence"},{"id":"T27","span":{"begin":0,"end":225},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    simple1

    {"project":"simple1","denotations":[{"id":"T1410","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T1409","span":{"begin":91,"end":99},"obj":"Protein"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    BioNLP16_DUT

    {"project":"BioNLP16_DUT","denotations":[{"id":"T2068","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T2067","span":{"begin":91,"end":99},"obj":"Protein"},{"id":"T2089","span":{"begin":133,"end":143},"obj":"Gene_expression"},{"id":"T2088","span":{"begin":148,"end":159},"obj":"Positive_regulation"}],"relations":[{"id":"R1455","pred":"themeOf","subj":"T2067","obj":"T2089"},{"id":"R1456","pred":"themeOf","subj":"T2067","obj":"T2088"},{"id":"R1469","pred":"themeOf","subj":"T2089","obj":"T2088"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    BioNLP16_Messiy

    {"project":"BioNLP16_Messiy","denotations":[{"id":"T2227","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T2226","span":{"begin":91,"end":99},"obj":"Protein"},{"id":"T2248","span":{"begin":148,"end":159},"obj":"Positive_regulation"},{"id":"T2247","span":{"begin":133,"end":143},"obj":"Gene_expression"}],"relations":[{"id":"R1516","pred":"themeOf","subj":"T2226","obj":"T2247"},{"id":"R1517","pred":"causeOf","subj":"T2226","obj":"T2248"},{"id":"R1521","pred":"themeOf","subj":"T2247","obj":"T2248"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    DLUT931

    {"project":"DLUT931","denotations":[{"id":"T2168","span":{"begin":148,"end":159},"obj":"Positive_regulation"},{"id":"T2167","span":{"begin":133,"end":143},"obj":"Gene_expression"},{"id":"T2146","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T2145","span":{"begin":91,"end":99},"obj":"Protein"}],"relations":[{"id":"R1483","pred":"themeOf","subj":"T2145","obj":"T2167"},{"id":"R1495","pred":"themeOf","subj":"T2167","obj":"T2168"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    bionlp-st-ge-2016-test-ihmc

    {"project":"bionlp-st-ge-2016-test-ihmc","denotations":[{"id":"T2478","span":{"begin":127,"end":159},"obj":"Positive_regulation"},{"id":"T2455","span":{"begin":201,"end":210},"obj":"Protein"},{"id":"T2454","span":{"begin":182,"end":192},"obj":"Protein"},{"id":"T2450","span":{"begin":91,"end":99},"obj":"Protein"},{"id":"T2447","span":{"begin":81,"end":89},"obj":"Protein"},{"id":"T2445","span":{"begin":81,"end":84},"obj":"Protein"},{"id":"T2441","span":{"begin":182,"end":192},"obj":"Protein"},{"id":"T2419","span":{"begin":187,"end":192},"obj":"Protein"},{"id":"T2412","span":{"begin":206,"end":210},"obj":"Protein"},{"id":"T2377","span":{"begin":201,"end":210},"obj":"Protein"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    bionlp-st-ge-2016-test-tees

    {"project":"bionlp-st-ge-2016-test-tees","denotations":[{"id":"T2296","span":{"begin":148,"end":159},"obj":"Positive_regulation"},{"id":"T2295","span":{"begin":148,"end":159},"obj":"Positive_regulation"},{"id":"T2294","span":{"begin":148,"end":159},"obj":"Positive_regulation"},{"id":"T2293","span":{"begin":163,"end":174},"obj":"Gene_expression"},{"id":"T2292","span":{"begin":163,"end":174},"obj":"Gene_expression"},{"id":"T2291","span":{"begin":163,"end":174},"obj":"Gene_expression"},{"id":"T2290","span":{"begin":133,"end":143},"obj":"Gene_expression"},{"id":"T2289","span":{"begin":206,"end":210},"obj":"Protein"},{"id":"T2288","span":{"begin":197,"end":205},"obj":"Protein"},{"id":"T2287","span":{"begin":182,"end":192},"obj":"Protein"},{"id":"T2286","span":{"begin":91,"end":99},"obj":"Protein"},{"id":"T2285","span":{"begin":81,"end":89},"obj":"Protein"}],"relations":[{"id":"R1547","pred":"themeOf","subj":"T2286","obj":"T2290"},{"id":"R1553","pred":"themeOf","subj":"T2287","obj":"T2291"},{"id":"R1554","pred":"themeOf","subj":"T2288","obj":"T2292"},{"id":"R1555","pred":"themeOf","subj":"T2289","obj":"T2293"},{"id":"R1556","pred":"themeOf","subj":"T2290","obj":"T2294"},{"id":"R1557","pred":"themeOf","subj":"T2290","obj":"T2295"},{"id":"R1559","pred":"themeOf","subj":"T2290","obj":"T2296"},{"id":"R1560","pred":"causeOf","subj":"T2291","obj":"T2294"},{"id":"R1561","pred":"causeOf","subj":"T2292","obj":"T2295"},{"id":"R1562","pred":"causeOf","subj":"T2293","obj":"T2296"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    testone

    {"project":"testone","denotations":[{"id":"T1125","span":{"begin":148,"end":159},"obj":"Positive_regulation"},{"id":"T1107","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T1106","span":{"begin":91,"end":99},"obj":"Protein"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}

    test3

    {"project":"test3","denotations":[{"id":"T1176","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T1175","span":{"begin":91,"end":99},"obj":"Protein"},{"id":"T1148","span":{"begin":182,"end":186},"obj":"Protein"},{"id":"T1147","span":{"begin":91,"end":99},"obj":"Protein"}],"text":"In studies aimed at identifying LPS-inducible pro-survival factors downstream of p38 MAPK, SerpinB2 was identified as a factor whose expression was upregulated by cooperation of the IKKβ/NF-κB and p38 MAPK/CREB pathways [16]."}