PMC:1310901 / 21139-21336 JSONTXT

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    bionlp-st-ge-2016-reference-eval

    {"project":"bionlp-st-ge-2016-reference-eval","denotations":[{"id":"T10829","span":{"begin":170,"end":178},"obj":"Gene_expression"},{"id":"T10853","span":{"begin":156,"end":164},"obj":"Gene_expression"},{"id":"T10855","span":{"begin":150,"end":155},"obj":"Protein"},{"id":"T10860","span":{"begin":65,"end":70},"obj":"Protein"},{"id":"T10861","span":{"begin":72,"end":78},"obj":"Protein"},{"id":"T10862","span":{"begin":83,"end":89},"obj":"Protein"},{"id":"T10863","span":{"begin":99,"end":103},"obj":"Protein"},{"id":"T10864","span":{"begin":105,"end":109},"obj":"Protein"},{"id":"T10865","span":{"begin":111,"end":115},"obj":"Protein"},{"id":"T10866","span":{"begin":120,"end":124},"obj":"Protein"},{"id":"T10867","span":{"begin":131,"end":141},"obj":"Gene_expression"},{"id":"T10868","span":{"begin":131,"end":141},"obj":"Gene_expression"},{"id":"T10869","span":{"begin":131,"end":141},"obj":"Gene_expression"},{"id":"T10870","span":{"begin":131,"end":141},"obj":"Gene_expression"},{"id":"T10871","span":{"begin":131,"end":141},"obj":"Gene_expression"},{"id":"T10872","span":{"begin":131,"end":141},"obj":"Gene_expression"}],"relations":[{"id":"R8956","pred":"themeOf","subj":"T10855","obj":"T10853"},{"id":"R8957","pred":"themeOf","subj":"T10855","obj":"T10829"},{"id":"R8965","pred":"themeOf","subj":"T10860","obj":"T10867"},{"id":"R8969","pred":"themeOf","subj":"T10861","obj":"T10868"},{"id":"R8973","pred":"themeOf","subj":"T10862","obj":"T10869"},{"id":"R8977","pred":"themeOf","subj":"T10863","obj":"T10870"},{"id":"R8981","pred":"themeOf","subj":"T10864","obj":"T10871"},{"id":"R8988","pred":"themeOf","subj":"T10866","obj":"T10872"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    events-check-again

    {"project":"events-check-again","denotations":[{"id":"T10737","span":{"begin":65,"end":70},"obj":"Protein"},{"id":"T10738","span":{"begin":72,"end":78},"obj":"Protein"},{"id":"T10739","span":{"begin":83,"end":89},"obj":"Protein"},{"id":"T10740","span":{"begin":99,"end":103},"obj":"Protein"},{"id":"T10741","span":{"begin":105,"end":109},"obj":"Protein"},{"id":"T10742","span":{"begin":111,"end":115},"obj":"Protein"},{"id":"T10743","span":{"begin":120,"end":124},"obj":"Protein"},{"id":"T10744","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10745","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10746","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10747","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10748","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10749","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10750","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10751","span":{"begin":150,"end":155},"obj":"Protein"},{"id":"T10752","span":{"begin":156,"end":164},"obj":"Gene_expression"},{"id":"T10753","span":{"begin":170,"end":178},"obj":"Gene_expression"}],"relations":[{"id":"R8895","pred":"themeOf","subj":"T10737","obj":"T10747"},{"id":"R8899","pred":"themeOf","subj":"T10738","obj":"T10750"},{"id":"R8903","pred":"themeOf","subj":"T10739","obj":"T10749"},{"id":"R8907","pred":"themeOf","subj":"T10740","obj":"T10748"},{"id":"R8911","pred":"themeOf","subj":"T10741","obj":"T10745"},{"id":"R8915","pred":"themeOf","subj":"T10742","obj":"T10744"},{"id":"R8919","pred":"themeOf","subj":"T10743","obj":"T10746"},{"id":"R8923","pred":"themeOf","subj":"T10751","obj":"T10752"},{"id":"R8924","pred":"themeOf","subj":"T10751","obj":"T10753"}],"attributes":[{"id":"M228","pred":"Negation","subj":"T10753","obj":"true"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    GO-CC

    {"project":"GO-CC","denotations":[{"id":"T10592","span":{"begin":179,"end":184},"obj":"http://purl.obolibrary.org/obo/GO_0005623"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    sentences

    {"project":"sentences","denotations":[{"id":"T10246","span":{"begin":0,"end":197},"obj":"Sentence"},{"id":"T150","span":{"begin":0,"end":197},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    pmc-enju-pas

    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this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    bionlp-st-ge-2016-coref

    {"project":"bionlp-st-ge-2016-coref","denotations":[{"id":"T10406","span":{"begin":105,"end":109},"obj":"Antecedent"},{"id":"T10407","span":{"begin":111,"end":115},"obj":"Antecedent"},{"id":"T10408","span":{"begin":120,"end":124},"obj":"Antecedent"},{"id":"T10401","span":{"begin":65,"end":70},"obj":"Antecedent"},{"id":"T10402","span":{"begin":72,"end":78},"obj":"Antecedent"},{"id":"T10403","span":{"begin":83,"end":89},"obj":"Antecedent"},{"id":"T10405","span":{"begin":99,"end":103},"obj":"Antecedent"}],"namespaces":[{"prefix":"_base","uri":"https://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    bionlp-st-ge-2016-spacy-parsed

    {"project":"bionlp-st-ge-2016-spacy-parsed","denotations":[{"id":"T10486","span":{"begin":0,"end":2},"obj":"TO"},{"id":"T10487","span":{"begin":3,"end":7},"obj":"DT"},{"id":"T10488","span":{"begin":8,"end":11},"obj":"NN"},{"id":"T10489","span":{"begin":11,"end":12},"obj":","},{"id":"T10490","span":{"begin":13,"end":15},"obj":"PRP"},{"id":"T10491","span":{"begin":16,"end":19},"obj":"VBD"},{"id":"T10492","span":{"begin":20,"end":23},"obj":"RB"},{"id":"T10493","span":{"begin":24,"end":30},"obj":"VB"},{"id":"T10494","span":{"begin":31,"end":32},"obj":"DT"},{"id":"T10495","span":{"begin":33,"end":44},"obj":"JJ"},{"id":"T10496","span":{"begin":45,"end":55},"obj":"NN"},{"id":"T10497","span":{"begin":56,"end":58},"obj":"IN"},{"id":"T10498","span":{"begin":59,"end":63},"obj":"NNP"},{"id":"T10499","span":{"begin":64,"end":65},"obj":"-LRB-"},{"id":"T10500","span":{"begin":65,"end":70},"obj":"NNP"},{"id":"T10501","span":{"begin":70,"end":71},"obj":","},{"id":"T10502","span":{"begin":72,"end":78},"obj":"NNP"},{"id":"T10503","span":{"begin":79,"end":82},"obj":"CC"},{"id":"T10504","span":{"begin":83,"end":89},"obj":"NNP"},{"id":"T10505","span":{"begin":89,"end":90},"obj":"-RRB-"},{"id":"T10506","span":{"begin":91,"end":93},"obj":"CC"},{"id":"T10507","span":{"begin":94,"end":97},"obj":"NNP"},{"id":"T10508","span":{"begin":98,"end":99},"obj":"-LRB-"},{"id":"T10509","span":{"begin":99,"end":103},"obj":"NNP"},{"id":"T10510","span":{"begin":103,"end":104},"obj":","},{"id":"T10511","span":{"begin":105,"end":109},"obj":"NNP"},{"id":"T10512","span":{"begin":109,"end":110},"obj":","},{"id":"T10513","span":{"begin":111,"end":115},"obj":"NNP"},{"id":"T10514","span":{"begin":116,"end":119},"obj":"CC"},{"id":"T10515","span":{"begin":120,"end":124},"obj":"NNP"},{"id":"T10516","span":{"begin":124,"end":125},"obj":"-RRB-"},{"id":"T10517","span":{"begin":126,"end":130},"obj":"NNP"},{"id":"T10518","span":{"begin":131,"end":141},"obj":"NN"},{"id":"T10519","span":{"begin":142,"end":149},"obj":"IN"},{"id":"T10520","span":{"begin":150,"end":164},"obj":"JJ"},{"id":"T10521","span":{"begin":165,"end":168},"obj":"CC"},{"id":"T10522","span":{"begin":169,"end":170},"obj":":"},{"id":"T10523","span":{"begin":170,"end":178},"obj":"JJ"},{"id":"T10524","span":{"begin":179,"end":184},"obj":"NNS"},{"id":"T10525","span":{"begin":185,"end":186},"obj":"-LRB-"},{"id":"T10526","span":{"begin":186,"end":192},"obj":"NN"},{"id":"T10527","span":{"begin":193,"end":195},"obj":"CD"},{"id":"T10528","span":{"begin":195,"end":196},"obj":"-RRB-"},{"id":"T10529","span":{"begin":196,"end":197},"obj":"."}],"relations":[{"id":"R8698","pred":"aux","subj":"T10491","obj":"T10493"},{"id":"R8699","pred":"neg","subj":"T10492","obj":"T10493"},{"id":"R8700","pred":"ROOT","subj":"T10493","obj":"T10493"},{"id":"R8701","pred":"det","subj":"T10494","obj":"T10496"},{"id":"R8702","pred":"amod","subj":"T10495","obj":"T10496"},{"id":"R8703","pred":"dobj","subj":"T10496","obj":"T10493"},{"id":"R8704","pred":"prep","subj":"T10497","obj":"T10496"},{"id":"R8705","pred":"pobj","subj":"T10498","obj":"T10497"},{"id":"R8706","pred":"punct","subj":"T10499","obj":"T10500"},{"id":"R8707","pred":"appos","subj":"T10500","obj":"T10498"},{"id":"R8708","pred":"punct","subj":"T10501","obj":"T10500"},{"id":"R8709","pred":"conj","subj":"T10502","obj":"T10500"},{"id":"R8710","pred":"cc","subj":"T10503","obj":"T10502"},{"id":"R8725","pred":"conj","subj":"T10518","obj":"T10496"},{"id":"R8726","pred":"prep","subj":"T10519","obj":"T10518"},{"id":"R8727","pred":"pobj","subj":"T10520","obj":"T10519"},{"id":"R8728","pred":"cc","subj":"T10521","obj":"T10520"},{"id":"R8729","pred":"punct","subj":"T10522","obj":"T10523"},{"id":"R8730","pred":"amod","subj":"T10523","obj":"T10524"},{"id":"R8731","pred":"conj","subj":"T10524","obj":"T10520"},{"id":"R8732","pred":"punct","subj":"T10525","obj":"T10526"},{"id":"R8733","pred":"appos","subj":"T10526","obj":"T10524"},{"id":"R8734","pred":"nummod","subj":"T10527","obj":"T10526"},{"id":"R8735","pred":"punct","subj":"T10528","obj":"T10526"},{"id":"R8736","pred":"punct","subj":"T10529","obj":"T10493"},{"id":"R8693","pred":"prep","subj":"T10486","obj":"T10493"},{"id":"R8694","pred":"det","subj":"T10487","obj":"T10488"},{"id":"R8695","pred":"pobj","subj":"T10488","obj":"T10486"},{"id":"R8696","pred":"punct","subj":"T10489","obj":"T10493"},{"id":"R8697","pred":"nsubj","subj":"T10490","obj":"T10493"},{"id":"R8711","pred":"conj","subj":"T10504","obj":"T10502"},{"id":"R8712","pred":"punct","subj":"T10505","obj":"T10504"},{"id":"R8713","pred":"cc","subj":"T10506","obj":"T10504"},{"id":"R8714","pred":"conj","subj":"T10507","obj":"T10504"},{"id":"R8715","pred":"punct","subj":"T10508","obj":"T10509"},{"id":"R8716","pred":"conj","subj":"T10509","obj":"T10504"},{"id":"R8717","pred":"punct","subj":"T10510","obj":"T10509"},{"id":"R8718","pred":"conj","subj":"T10511","obj":"T10509"},{"id":"R8719","pred":"punct","subj":"T10512","obj":"T10511"},{"id":"R8720","pred":"conj","subj":"T10513","obj":"T1051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this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    bionlp-st-ge-2016-reference-tees

    {"project":"bionlp-st-ge-2016-reference-tees","denotations":[{"id":"T10791","span":{"begin":59,"end":63},"obj":"Protein"},{"id":"T10792","span":{"begin":65,"end":70},"obj":"Protein"},{"id":"T10793","span":{"begin":72,"end":78},"obj":"Protein"},{"id":"T10794","span":{"begin":83,"end":89},"obj":"Protein"},{"id":"T10795","span":{"begin":94,"end":97},"obj":"Protein"},{"id":"T10796","span":{"begin":99,"end":103},"obj":"Protein"},{"id":"T10797","span":{"begin":105,"end":109},"obj":"Protein"},{"id":"T10798","span":{"begin":111,"end":115},"obj":"Protein"},{"id":"T10799","span":{"begin":120,"end":124},"obj":"Protein"},{"id":"T10800","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10801","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10802","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10803","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10804","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10805","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10806","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10807","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10808","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10809","span":{"begin":131,"end":141},"obj":"Transcription"},{"id":"T10810","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10811","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10812","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10813","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10814","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10815","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10816","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10817","span":{"begin":45,"end":55},"obj":"Regulation"},{"id":"T10818","span":{"begin":45,"end":55},"obj":"Regulation"}],"relations":[{"id":"R8933","pred":"themeOf","subj":"T10791","obj":"T10800"},{"id":"R8934","pred":"themeOf","subj":"T10791","obj":"T10801"},{"id":"R8935","pred":"themeOf","subj":"T10792","obj":"T10802"},{"id":"R8936","pred":"themeOf","subj":"T10793","obj":"T10803"},{"id":"R8937","pred":"themeOf","subj":"T10794","obj":"T10804"},{"id":"R8938","pred":"themeOf","subj":"T10795","obj":"T10805"},{"id":"R8939","pred":"themeOf","subj":"T10796","obj":"T10806"},{"id":"R8940","pred":"themeOf","subj":"T10797","obj":"T10807"},{"id":"R8941","pred":"themeOf","subj":"T10798","obj":"T10808"},{"id":"R8942","pred":"themeOf","subj":"T10799","obj":"T10809"},{"id":"R8943","pred":"themeOf","subj":"T10801","obj":"T10810"},{"id":"R8944","pred":"themeOf","subj":"T10802","obj":"T10811"},{"id":"R8945","pred":"themeOf","subj":"T10803","obj":"T10812"},{"id":"R8946","pred":"themeOf","subj":"T10804","obj":"T10813"},{"id":"R8947","pred":"themeOf","subj":"T10805","obj":"T10814"},{"id":"R8948","pred":"themeOf","subj":"T10806","obj":"T10815"},{"id":"R8949","pred":"themeOf","subj":"T10807","obj":"T10816"},{"id":"R8950","pred":"themeOf","subj":"T10808","obj":"T10817"},{"id":"R8951","pred":"themeOf","subj":"T10809","obj":"T10818"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    bionlp-st-ge-2016-reference

    {"project":"bionlp-st-ge-2016-reference","denotations":[{"id":"T10212","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10213","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10214","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10215","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10216","span":{"begin":150,"end":155},"obj":"Protein"},{"id":"T10217","span":{"begin":156,"end":164},"obj":"Gene_expression"},{"id":"T10218","span":{"begin":170,"end":178},"obj":"Gene_expression"},{"id":"T10202","span":{"begin":65,"end":70},"obj":"Protein"},{"id":"T10203","span":{"begin":72,"end":78},"obj":"Protein"},{"id":"T10204","span":{"begin":83,"end":89},"obj":"Protein"},{"id":"T10205","span":{"begin":99,"end":103},"obj":"Protein"},{"id":"T10206","span":{"begin":105,"end":109},"obj":"Protein"},{"id":"T10207","span":{"begin":111,"end":115},"obj":"Protein"},{"id":"T10208","span":{"begin":120,"end":124},"obj":"Protein"},{"id":"T10209","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10210","span":{"begin":126,"end":141},"obj":"Transcription"},{"id":"T10211","span":{"begin":126,"end":141},"obj":"Transcription"}],"relations":[{"id":"R8452","pred":"themeOf","subj":"T10203","obj":"T10215"},{"id":"R8456","pred":"themeOf","subj":"T10204","obj":"T10214"},{"id":"R8460","pred":"themeOf","subj":"T10205","obj":"T10213"},{"id":"R8464","pred":"themeOf","subj":"T10206","obj":"T10210"},{"id":"R8468","pred":"themeOf","subj":"T10207","obj":"T10209"},{"id":"R8472","pred":"themeOf","subj":"T10208","obj":"T10211"},{"id":"R8476","pred":"themeOf","subj":"T10216","obj":"T10217"},{"id":"R8477","pred":"themeOf","subj":"T10216","obj":"T10218"},{"id":"R8448","pred":"themeOf","subj":"T10202","obj":"T10212"}],"attributes":[{"id":"M220","pred":"Negation","subj":"T10218","obj":"true"}],"namespaces":[{"prefix":"_base","uri":"http://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}

    bionlp-st-ge-2016-uniprot

    {"project":"bionlp-st-ge-2016-uniprot","denotations":[{"id":"T10421","span":{"begin":59,"end":63},"obj":"P26358"},{"id":"T10422","span":{"begin":65,"end":70},"obj":"P26358"},{"id":"T10423","span":{"begin":72,"end":78},"obj":"Q9Y6K1"},{"id":"T10424","span":{"begin":83,"end":89},"obj":"Q9UBC3"},{"id":"T10425","span":{"begin":99,"end":103},"obj":"Q9UIS9"},{"id":"T10426","span":{"begin":105,"end":109},"obj":"Q9UBB5"},{"id":"T10427","span":{"begin":111,"end":115},"obj":"O95243"},{"id":"T10428","span":{"begin":120,"end":124},"obj":"P51608"},{"id":"T10429","span":{"begin":150,"end":155},"obj":"Q15306"}],"namespaces":[{"prefix":"_base","uri":"http://www.uniprot.org/uniprot/"}],"text":"To this end, we did not detect a significant difference in DNMT (DNMT1, DNMT3A and DNMT3B) or MBP (MBD1, MBD2, MBD4 and MeCP) mRNA expression between IRF-4-positive and -negative cells (Figure 5D)."}