PMC:3342329 / 29851-31727 JSON TXT

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pmc-enju-pas

UBERON-AE

{"project":"UBERON-AE","denotations":[{"id":"T14659","span":{"begin":1413,"end":1420},"obj":"http://purl.obolibrary.org/obo/UBERON_0000479"},{"id":"T14658","span":{"begin":680,"end":685},"obj":"http://purl.obolibrary.org/obo/UBERON_0001977"},{"id":"T14657","span":{"begin":513,"end":518},"obj":"http://purl.obolibrary.org/obo/UBERON_0001977"}],"text":"All specimens were fixed in formalin and embedded in paraffin for examination. Sections (4 µm thick) were stained with H\u0026E and analyzed by immunohistochemistry. The paraffin-embedded sections were deparaffinized and rehydrated, washed in distilled water, and then subjected to heat-mediated antigen retrieval. Endogenous peroxidase activity was quenched by incubation in 3% hydrogen peroxide in methanol for 15 min, followed by clearing in PBS for 5 min. The sections were blocked for 30 min with 3% normal horse serum diluted in PBS, blotted, and incubated with primary mouse anti-mouse proliferating cell nuclear antigen (PCNA, 1∶200 dilution) monoclonal antibodies in blocking serum for 4 h at room temperature. Thereafter, the slides were washed three times for 5 min each in PBS and incubated with biotinylated anti-mouse and anti-rabbit antibodies for 2 h. The slides were washed in PBS, followed by the addition of the avidin biotin peroxidase complex (ABC kit; Vector Laboratories, Burlingame, CA, USA). The slides were washed and the peroxidase reaction was developed with diaminobenzidine (DAB) and peroxide, followed by counterstaining with hematoxylin, mounting in aqua-mount, and evaluation under a light microscope (magnification×200; Olympus, Tokyo, Japan). A negative control was included in all experiments by omitting the primary antibody. For the detection of apoptotic cell death in the tumor tissues, the paraffin-embedded sections were incubated in a mixture of the labeling solution (540 µl) and enzyme solution (60 µl) for 1 h at 37°C, and then washed three times in 0.1 M PBS for 5 min each, according to the manufacturer’s instructions. Next, the sections were incubated with 4′,6-diamidino-2-phenylindole (DAPI) for 15 min at 37°C. Finally, the sections were rinsed, mounted on slides, and cover-slipped for fluorescence microscopy (DAS microscope)."}

GO-BP

{"project":"GO-BP","denotations":[{"id":"T14678","span":{"begin":1394,"end":1399},"obj":"http://purl.obolibrary.org/obo/GO_0016265"},{"id":"T14677","span":{"begin":1389,"end":1399},"obj":"http://purl.obolibrary.org/obo/GO_0008219"},{"id":"T14676","span":{"begin":1379,"end":1399},"obj":"http://purl.obolibrary.org/obo/GO_0006915"},{"id":"T14675","span":{"begin":1366,"end":1393},"obj":"http://purl.obolibrary.org/obo/GO_0043654"},{"id":"T14674","span":{"begin":1002,"end":1004},"obj":"http://purl.obolibrary.org/obo/GO_0033968"},{"id":"T14673","span":{"begin":1043,"end":1062},"obj":"http://purl.obolibrary.org/obo/GO_0004601"},{"id":"T14672","span":{"begin":321,"end":340},"obj":"http://purl.obolibrary.org/obo/GO_0004601"}],"text":"All specimens were fixed in formalin and embedded in paraffin for examination. Sections (4 µm thick) were stained with H\u0026E and analyzed by immunohistochemistry. The paraffin-embedded sections were deparaffinized and rehydrated, washed in distilled water, and then subjected to heat-mediated antigen retrieval. Endogenous peroxidase activity was quenched by incubation in 3% hydrogen peroxide in methanol for 15 min, followed by clearing in PBS for 5 min. The sections were blocked for 30 min with 3% normal horse serum diluted in PBS, blotted, and incubated with primary mouse anti-mouse proliferating cell nuclear antigen (PCNA, 1∶200 dilution) monoclonal antibodies in blocking serum for 4 h at room temperature. Thereafter, the slides were washed three times for 5 min each in PBS and incubated with biotinylated anti-mouse and anti-rabbit antibodies for 2 h. The slides were washed in PBS, followed by the addition of the avidin biotin peroxidase complex (ABC kit; Vector Laboratories, Burlingame, CA, USA). The slides were washed and the peroxidase reaction was developed with diaminobenzidine (DAB) and peroxide, followed by counterstaining with hematoxylin, mounting in aqua-mount, and evaluation under a light microscope (magnification×200; Olympus, Tokyo, Japan). A negative control was included in all experiments by omitting the primary antibody. For the detection of apoptotic cell death in the tumor tissues, the paraffin-embedded sections were incubated in a mixture of the labeling solution (540 µl) and enzyme solution (60 µl) for 1 h at 37°C, and then washed three times in 0.1 M PBS for 5 min each, according to the manufacturer’s instructions. Next, the sections were incubated with 4′,6-diamidino-2-phenylindole (DAPI) for 15 min at 37°C. Finally, the sections were rinsed, mounted on slides, and cover-slipped for fluorescence microscopy (DAS microscope)."}

GO-MF

{"project":"GO-MF","denotations":[{"id":"T14692","span":{"begin":1002,"end":1004},"obj":"http://purl.obolibrary.org/obo/GO_0033968"},{"id":"T14691","span":{"begin":1348,"end":1356},"obj":"http://purl.obolibrary.org/obo/GO_0003823"},{"id":"T14690","span":{"begin":843,"end":853},"obj":"http://purl.obolibrary.org/obo/GO_0003823"},{"id":"T14689","span":{"begin":657,"end":667},"obj":"http://purl.obolibrary.org/obo/GO_0003823"},{"id":"T14688","span":{"begin":1043,"end":1062},"obj":"http://purl.obolibrary.org/obo/GO_0004601"},{"id":"T14687","span":{"begin":321,"end":340},"obj":"http://purl.obolibrary.org/obo/GO_0004601"}],"text":"All specimens were fixed in formalin and embedded in paraffin for examination. Sections (4 µm thick) were stained with H\u0026E and analyzed by immunohistochemistry. The paraffin-embedded sections were deparaffinized and rehydrated, washed in distilled water, and then subjected to heat-mediated antigen retrieval. Endogenous peroxidase activity was quenched by incubation in 3% hydrogen peroxide in methanol for 15 min, followed by clearing in PBS for 5 min. The sections were blocked for 30 min with 3% normal horse serum diluted in PBS, blotted, and incubated with primary mouse anti-mouse proliferating cell nuclear antigen (PCNA, 1∶200 dilution) monoclonal antibodies in blocking serum for 4 h at room temperature. Thereafter, the slides were washed three times for 5 min each in PBS and incubated with biotinylated anti-mouse and anti-rabbit antibodies for 2 h. The slides were washed in PBS, followed by the addition of the avidin biotin peroxidase complex (ABC kit; Vector Laboratories, Burlingame, CA, USA). The slides were washed and the peroxidase reaction was developed with diaminobenzidine (DAB) and peroxide, followed by counterstaining with hematoxylin, mounting in aqua-mount, and evaluation under a light microscope (magnification×200; Olympus, Tokyo, Japan). A negative control was included in all experiments by omitting the primary antibody. For the detection of apoptotic cell death in the tumor tissues, the paraffin-embedded sections were incubated in a mixture of the labeling solution (540 µl) and enzyme solution (60 µl) for 1 h at 37°C, and then washed three times in 0.1 M PBS for 5 min each, according to the manufacturer’s instructions. Next, the sections were incubated with 4′,6-diamidino-2-phenylindole (DAPI) for 15 min at 37°C. Finally, the sections were rinsed, mounted on slides, and cover-slipped for fluorescence microscopy (DAS microscope)."}

GO-CC

{"project":"GO-CC","denotations":[{"id":"T14686","span":{"begin":1348,"end":1356},"obj":"http://purl.obolibrary.org/obo/GO_0042571"},{"id":"T14685","span":{"begin":843,"end":853},"obj":"http://purl.obolibrary.org/obo/GO_0042571"},{"id":"T14684","span":{"begin":657,"end":667},"obj":"http://purl.obolibrary.org/obo/GO_0042571"},{"id":"T14683","span":{"begin":1348,"end":1356},"obj":"http://purl.obolibrary.org/obo/GO_0019815"},{"id":"T14682","span":{"begin":843,"end":853},"obj":"http://purl.obolibrary.org/obo/GO_0019815"},{"id":"T14681","span":{"begin":657,"end":667},"obj":"http://purl.obolibrary.org/obo/GO_0019815"},{"id":"T14680","span":{"begin":1389,"end":1393},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T14679","span":{"begin":602,"end":606},"obj":"http://purl.obolibrary.org/obo/GO_0005623"}],"text":"All specimens were fixed in formalin and embedded in paraffin for examination. Sections (4 µm thick) were stained with H\u0026E and analyzed by immunohistochemistry. The paraffin-embedded sections were deparaffinized and rehydrated, washed in distilled water, and then subjected to heat-mediated antigen retrieval. Endogenous peroxidase activity was quenched by incubation in 3% hydrogen peroxide in methanol for 15 min, followed by clearing in PBS for 5 min. The sections were blocked for 30 min with 3% normal horse serum diluted in PBS, blotted, and incubated with primary mouse anti-mouse proliferating cell nuclear antigen (PCNA, 1∶200 dilution) monoclonal antibodies in blocking serum for 4 h at room temperature. Thereafter, the slides were washed three times for 5 min each in PBS and incubated with biotinylated anti-mouse and anti-rabbit antibodies for 2 h. The slides were washed in PBS, followed by the addition of the avidin biotin peroxidase complex (ABC kit; Vector Laboratories, Burlingame, CA, USA). The slides were washed and the peroxidase reaction was developed with diaminobenzidine (DAB) and peroxide, followed by counterstaining with hematoxylin, mounting in aqua-mount, and evaluation under a light microscope (magnification×200; Olympus, Tokyo, Japan). A negative control was included in all experiments by omitting the primary antibody. For the detection of apoptotic cell death in the tumor tissues, the paraffin-embedded sections were incubated in a mixture of the labeling solution (540 µl) and enzyme solution (60 µl) for 1 h at 37°C, and then washed three times in 0.1 M PBS for 5 min each, according to the manufacturer’s instructions. Next, the sections were incubated with 4′,6-diamidino-2-phenylindole (DAPI) for 15 min at 37°C. Finally, the sections were rinsed, mounted on slides, and cover-slipped for fluorescence microscopy (DAS microscope)."}

sentences

{"project":"sentences","denotations":[{"id":"T14671","span":{"begin":1663,"end":1876},"obj":"Sentence"},{"id":"T14670","span":{"begin":1358,"end":1662},"obj":"Sentence"},{"id":"T14669","span":{"begin":1273,"end":1357},"obj":"Sentence"},{"id":"T14668","span":{"begin":1012,"end":1272},"obj":"Sentence"},{"id":"T14667","span":{"begin":863,"end":1011},"obj":"Sentence"},{"id":"T14666","span":{"begin":715,"end":862},"obj":"Sentence"},{"id":"T14665","span":{"begin":455,"end":714},"obj":"Sentence"},{"id":"T14664","span":{"begin":310,"end":454},"obj":"Sentence"},{"id":"T14663","span":{"begin":161,"end":309},"obj":"Sentence"},{"id":"T14662","span":{"begin":79,"end":160},"obj":"Sentence"},{"id":"T14661","span":{"begin":0,"end":78},"obj":"Sentence"},{"id":"T227","span":{"begin":0,"end":78},"obj":"Sentence"},{"id":"T228","span":{"begin":79,"end":160},"obj":"Sentence"},{"id":"T229","span":{"begin":161,"end":309},"obj":"Sentence"},{"id":"T230","span":{"begin":310,"end":454},"obj":"Sentence"},{"id":"T231","span":{"begin":455,"end":714},"obj":"Sentence"},{"id":"T232","span":{"begin":715,"end":862},"obj":"Sentence"},{"id":"T233","span":{"begin":863,"end":1011},"obj":"Sentence"},{"id":"T234","span":{"begin":1012,"end":1272},"obj":"Sentence"},{"id":"T235","span":{"begin":1273,"end":1357},"obj":"Sentence"},{"id":"T236","span":{"begin":1358,"end":1662},"obj":"Sentence"},{"id":"T237","span":{"begin":1663,"end":1758},"obj":"Sentence"},{"id":"T238","span":{"begin":1759,"end":1876},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"All specimens were fixed in formalin and embedded in paraffin for examination. Sections (4 µm thick) were stained with H\u0026E and analyzed by immunohistochemistry. The paraffin-embedded sections were deparaffinized and rehydrated, washed in distilled water, and then subjected to heat-mediated antigen retrieval. Endogenous peroxidase activity was quenched by incubation in 3% hydrogen peroxide in methanol for 15 min, followed by clearing in PBS for 5 min. The sections were blocked for 30 min with 3% normal horse serum diluted in PBS, blotted, and incubated with primary mouse anti-mouse proliferating cell nuclear antigen (PCNA, 1∶200 dilution) monoclonal antibodies in blocking serum for 4 h at room temperature. Thereafter, the slides were washed three times for 5 min each in PBS and incubated with biotinylated anti-mouse and anti-rabbit antibodies for 2 h. The slides were washed in PBS, followed by the addition of the avidin biotin peroxidase complex (ABC kit; Vector Laboratories, Burlingame, CA, USA). The slides were washed and the peroxidase reaction was developed with diaminobenzidine (DAB) and peroxide, followed by counterstaining with hematoxylin, mounting in aqua-mount, and evaluation under a light microscope (magnification×200; Olympus, Tokyo, Japan). A negative control was included in all experiments by omitting the primary antibody. For the detection of apoptotic cell death in the tumor tissues, the paraffin-embedded sections were incubated in a mixture of the labeling solution (540 µl) and enzyme solution (60 µl) for 1 h at 37°C, and then washed three times in 0.1 M PBS for 5 min each, according to the manufacturer’s instructions. Next, the sections were incubated with 4′,6-diamidino-2-phenylindole (DAPI) for 15 min at 37°C. Finally, the sections were rinsed, mounted on slides, and cover-slipped for fluorescence microscopy (DAS microscope)."}

bionlp-st-ge-2016-test-ihmc

bionlp-st-ge-2016-spacy-parsed

bionlp-st-ge-2016-test-tees

{"project":"bionlp-st-ge-2016-test-tees","denotations":[{"id":"T15025","span":{"begin":1043,"end":1053},"obj":"Protein"},{"id":"T15024","span":{"begin":926,"end":950},"obj":"Protein"},{"id":"T15023","span":{"begin":310,"end":331},"obj":"Protein"}],"text":"All specimens were fixed in formalin and embedded in paraffin for examination. Sections (4 µm thick) were stained with H\u0026E and analyzed by immunohistochemistry. The paraffin-embedded sections were deparaffinized and rehydrated, washed in distilled water, and then subjected to heat-mediated antigen retrieval. Endogenous peroxidase activity was quenched by incubation in 3% hydrogen peroxide in methanol for 15 min, followed by clearing in PBS for 5 min. The sections were blocked for 30 min with 3% normal horse serum diluted in PBS, blotted, and incubated with primary mouse anti-mouse proliferating cell nuclear antigen (PCNA, 1∶200 dilution) monoclonal antibodies in blocking serum for 4 h at room temperature. Thereafter, the slides were washed three times for 5 min each in PBS and incubated with biotinylated anti-mouse and anti-rabbit antibodies for 2 h. The slides were washed in PBS, followed by the addition of the avidin biotin peroxidase complex (ABC kit; Vector Laboratories, Burlingame, CA, USA). The slides were washed and the peroxidase reaction was developed with diaminobenzidine (DAB) and peroxide, followed by counterstaining with hematoxylin, mounting in aqua-mount, and evaluation under a light microscope (magnification×200; Olympus, Tokyo, Japan). A negative control was included in all experiments by omitting the primary antibody. For the detection of apoptotic cell death in the tumor tissues, the paraffin-embedded sections were incubated in a mixture of the labeling solution (540 µl) and enzyme solution (60 µl) for 1 h at 37°C, and then washed three times in 0.1 M PBS for 5 min each, according to the manufacturer’s instructions. Next, the sections were incubated with 4′,6-diamidino-2-phenylindole (DAPI) for 15 min at 37°C. Finally, the sections were rinsed, mounted on slides, and cover-slipped for fluorescence microscopy (DAS microscope)."}

PMC:3342329 / 29851-31727 JSONTXT

Annnotations TAB JSON ListView MergeView

PMC:3342329 / 29851-31727 JSON TXT