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bionlp-st-ge-2016-spacy-parsed

pmc-enju-pas

bionlp-st-ge-2016-test-proteins

{"project":"bionlp-st-ge-2016-test-proteins","denotations":[{"id":"T7825","span":{"begin":133,"end":157},"obj":"Protein"}],"namespaces":[{"prefix":"_base","uri":"http://bionlp.dbcls.jp/ontology/ge.owl#"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

bionlp-st-ge-2016-uniprot

{"project":"bionlp-st-ge-2016-uniprot","denotations":[{"id":"T8012","span":{"begin":876,"end":883},"obj":"http://www.uniprot.org/uniprot/P28033"}],"namespaces":[{"prefix":"_base","uri":"http://www.uniprot.org/uniprot/"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

GO-BP

{"project":"GO-BP","denotations":[{"id":"T7826","span":{"begin":233,"end":238},"obj":"http://purl.obolibrary.org/obo/GO_0019835"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

GO-MF

{"project":"GO-MF","denotations":[{"id":"T7830","span":{"begin":796,"end":804},"obj":"http://purl.obolibrary.org/obo/GO_0003823"},{"id":"T7829","span":{"begin":527,"end":534},"obj":"http://purl.obolibrary.org/obo/GO_0005488"},{"id":"T7828","span":{"begin":256,"end":263},"obj":"http://purl.obolibrary.org/obo/GO_0005488"},{"id":"T7827","span":{"begin":252,"end":263},"obj":"http://purl.obolibrary.org/obo/GO_0003677"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

GO-CC

{"project":"GO-CC","denotations":[{"id":"T7832","span":{"begin":796,"end":804},"obj":"http://purl.obolibrary.org/obo/GO_0042571"},{"id":"T7831","span":{"begin":796,"end":804},"obj":"http://purl.obolibrary.org/obo/GO_0019815"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

sentences

{"project":"sentences","denotations":[{"id":"T7823","span":{"begin":806,"end":942},"obj":"Sentence"},{"id":"T7822","span":{"begin":696,"end":805},"obj":"Sentence"},{"id":"T7821","span":{"begin":527,"end":695},"obj":"Sentence"},{"id":"T7820","span":{"begin":252,"end":526},"obj":"Sentence"},{"id":"T7819","span":{"begin":175,"end":251},"obj":"Sentence"},{"id":"T7818","span":{"begin":38,"end":174},"obj":"Sentence"},{"id":"T7817","span":{"begin":0,"end":37},"obj":"Sentence"},{"id":"T91","span":{"begin":0,"end":37},"obj":"Sentence"},{"id":"T92","span":{"begin":38,"end":174},"obj":"Sentence"},{"id":"T93","span":{"begin":175,"end":251},"obj":"Sentence"},{"id":"T94","span":{"begin":252,"end":526},"obj":"Sentence"},{"id":"T95","span":{"begin":527,"end":695},"obj":"Sentence"},{"id":"T96","span":{"begin":696,"end":805},"obj":"Sentence"},{"id":"T97","span":{"begin":806,"end":942},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

simple1

{"project":"simple1","denotations":[{"id":"T7834","span":{"begin":133,"end":157},"obj":"Protein"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

BioNLP16_DUT

{"project":"BioNLP16_DUT","denotations":[{"id":"T8011","span":{"begin":133,"end":157},"obj":"Protein"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

BioNLP16_Messiy

{"project":"BioNLP16_Messiy","denotations":[{"id":"T8015","span":{"begin":133,"end":157},"obj":"Protein"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

DLUT931

{"project":"DLUT931","denotations":[{"id":"T8013","span":{"begin":133,"end":157},"obj":"Protein"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

bionlp-st-ge-2016-test-ihmc

{"project":"bionlp-st-ge-2016-test-ihmc","denotations":[{"id":"T8058","span":{"begin":806,"end":847},"obj":"Binding"},{"id":"T8057","span":{"begin":764,"end":804},"obj":"Entity"},{"id":"T8056","span":{"begin":175,"end":201},"obj":"Entity"},{"id":"T8055","span":{"begin":432,"end":435},"obj":"Protein"},{"id":"T8054","span":{"begin":337,"end":349},"obj":"Entity"},{"id":"T8053","span":{"begin":394,"end":410},"obj":"Entity"},{"id":"T8052","span":{"begin":653,"end":663},"obj":"Entity"},{"id":"T8051","span":{"begin":293,"end":311},"obj":"Entity"},{"id":"T8050","span":{"begin":741,"end":804},"obj":"Protein"},{"id":"T8049","span":{"begin":837,"end":842},"obj":"Protein"},{"id":"T8048","span":{"begin":118,"end":157},"obj":"Protein"},{"id":"T8047","span":{"begin":894,"end":915},"obj":"Protein"},{"id":"T8046","span":{"begin":719,"end":735},"obj":"Entity"},{"id":"T8045","span":{"begin":790,"end":795},"obj":"Protein"},{"id":"T8044","span":{"begin":53,"end":84},"obj":"Entity"},{"id":"T8043","span":{"begin":700,"end":717},"obj":"Entity"},{"id":"T8042","span":{"begin":636,"end":648},"obj":"Entity"},{"id":"T8041","span":{"begin":806,"end":816},"obj":"Entity"},{"id":"T8040","span":{"begin":367,"end":384},"obj":"Entity"},{"id":"T8039","span":{"begin":649,"end":663},"obj":"Protein"},{"id":"T8038","span":{"begin":612,"end":626},"obj":"Entity"},{"id":"T8037","span":{"begin":133,"end":135},"obj":"Entity"},{"id":"T8036","span":{"begin":778,"end":804},"obj":"Entity"},{"id":"T8035","span":{"begin":322,"end":350},"obj":"Entity"},{"id":"T8034","span":{"begin":649,"end":663},"obj":"Entity"},{"id":"T8033","span":{"begin":609,"end":631},"obj":"Entity"},{"id":"T8032","span":{"begin":773,"end":804},"obj":"Entity"},{"id":"T8031","span":{"begin":169,"end":173},"obj":"Entity"},{"id":"T8030","span":{"begin":216,"end":250},"obj":"Entity"}],"relations":[{"id":"R5780","pred":"themeOf","subj":"T8041","obj":"T8058"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

bionlp-st-ge-2016-test-tees

{"project":"bionlp-st-ge-2016-test-tees","denotations":[{"id":"T8022","span":{"begin":920,"end":932},"obj":"Protein"},{"id":"T8021","span":{"begin":894,"end":906},"obj":"Protein"},{"id":"T8020","span":{"begin":871,"end":883},"obj":"Protein"},{"id":"T8019","span":{"begin":849,"end":861},"obj":"Protein"},{"id":"T8018","span":{"begin":790,"end":804},"obj":"Protein"},{"id":"T8017","span":{"begin":669,"end":672},"obj":"Protein"},{"id":"T8016","span":{"begin":133,"end":157},"obj":"Protein"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

testone

{"project":"testone","denotations":[{"id":"T7814","span":{"begin":133,"end":157},"obj":"Protein"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

test3

{"project":"test3","denotations":[{"id":"T7816","span":{"begin":133,"end":157},"obj":"Protein"},{"id":"T7815","span":{"begin":133,"end":157},"obj":"Protein"}],"text":"Electrophoretic Mobility Shift Assays\nRadiolabelled, double-stranded oligonucleotide probes for gel shift assays were prepared using T4 polynucleotide kinase and [γ-32P]-ATP. RAW 264.7 nuclear extracts were prepared by the detergent lysis method [41]. DNA binding reactions (25 µl) containing 10 mM HEPES pH 7.9, 10 µg/ml BSA, 2 mM DTT, 30% glycerol, 20% Ficoll-400, 1 µg poly (dI-dC), 6 µg of nuclear extracts and 10,000 to 20,000 cpm (0.05 to 0.2 ng) of radiolabelled probe were performed for 20 minutes at room temperature. Binding reaction products were resolved by electrophoresis at room temperature on 5% polyacrylamide gels (29∶1 acrylamide:bis-acrylamide (Bio-Rad)) in 1x TBE at 10V/cm. For supershift assays, nuclear extracts were pre-incubated 2 hrs on ice with 4 µg of specific C/EBP antibody. Antibodies were purchased from Santa Cruz: anti-C/EBP-α (sc-61), anti-C/EBP-β (sc-150), anti-C/EBP-δ (sc-151) and anti-C/EBP-ε (sc-158)."}

PMC:3589482 / 14837-15779 JSONTXT

Annnotations TAB JSON ListView MergeView

PMC:3589482 / 14837-15779 JSON TXT