PMC:3279418 / 28265-29509 JSON TXT

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pmc-enju-pas

bionlp-st-ge-2016-spacy-parsed

UBERON-AE

{"project":"UBERON-AE","denotations":[{"id":"T10421","span":{"begin":222,"end":227},"obj":"http://purl.obolibrary.org/obo/UBERON_0001977"},{"id":"T10422","span":{"begin":698,"end":705},"obj":"http://purl.obolibrary.org/obo/UBERON_0002106"}],"text":"Phenotype of BMDC and splenic DC subsets\nThe phenotype of BMDC was determined before and after 24 hour culture in the presence of 100 ng/mL LPS. The cells were incubated in PBS with 0.1% NaN3, 1% BSA and 10% normal rabbit serum for 20 minutes on ice, washed and incubated for 30 minutes on ice with Alex Fluor-labeled anti-CD11c (MCD11C20, CALTAG) in combination with PE- anti-CD40 (3/23, BD Biosciences), PE-anti-CD80 (16-10A1, eBioscience), PE-anti-CD86 (P03.1, eBioscience), PE-anti-CD14 (Sa2.8, eBioscience) and biotinylated anti-TLR4 (BioLegend). The cells incubated with biotinylated anti-TLR4/MD-2 were washed twice and incubated for 30 minutes on ice with avidin-PE. To isolate splenic DC, spleens were collagenase digested and subject to Percoll gradient centrifugation. The bands at the 35–55% interface were collected to stain with PE-anti-CD11c (HL3, BioLegend), APC-anti-PDCA-1 (927, BioLegend) and FITC-anti-CD8α (53–6.7, BD BioScience). The cells were washed twice, fixed in 2% paraformaldehyde, and stored at 4°C until analysis. Flow cytometry was performed in an Excel (Coulter) instrument. Dead cells were omitted from the analysis by gating on forward and 90° light scatter, and 10,000 cells were analyzed by FlowJo software."}

GO-CC

{"project":"GO-CC","denotations":[{"id":"T10919","span":{"begin":149,"end":154},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T10920","span":{"begin":556,"end":561},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T10921","span":{"begin":956,"end":961},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T10922","span":{"begin":1113,"end":1118},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T10923","span":{"begin":1205,"end":1210},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T10924","span":{"begin":875,"end":878},"obj":"http://purl.obolibrary.org/obo/GO_0005680"}],"text":"Phenotype of BMDC and splenic DC subsets\nThe phenotype of BMDC was determined before and after 24 hour culture in the presence of 100 ng/mL LPS. The cells were incubated in PBS with 0.1% NaN3, 1% BSA and 10% normal rabbit serum for 20 minutes on ice, washed and incubated for 30 minutes on ice with Alex Fluor-labeled anti-CD11c (MCD11C20, CALTAG) in combination with PE- anti-CD40 (3/23, BD Biosciences), PE-anti-CD80 (16-10A1, eBioscience), PE-anti-CD86 (P03.1, eBioscience), PE-anti-CD14 (Sa2.8, eBioscience) and biotinylated anti-TLR4 (BioLegend). The cells incubated with biotinylated anti-TLR4/MD-2 were washed twice and incubated for 30 minutes on ice with avidin-PE. To isolate splenic DC, spleens were collagenase digested and subject to Percoll gradient centrifugation. The bands at the 35–55% interface were collected to stain with PE-anti-CD11c (HL3, BioLegend), APC-anti-PDCA-1 (927, BioLegend) and FITC-anti-CD8α (53–6.7, BD BioScience). The cells were washed twice, fixed in 2% paraformaldehyde, and stored at 4°C until analysis. Flow cytometry was performed in an Excel (Coulter) instrument. Dead cells were omitted from the analysis by gating on forward and 90° light scatter, and 10,000 cells were analyzed by FlowJo software."}

sentences

{"project":"sentences","denotations":[{"id":"T10423","span":{"begin":0,"end":40},"obj":"Sentence"},{"id":"T10424","span":{"begin":41,"end":144},"obj":"Sentence"},{"id":"T10425","span":{"begin":145,"end":551},"obj":"Sentence"},{"id":"T10426","span":{"begin":552,"end":674},"obj":"Sentence"},{"id":"T10427","span":{"begin":675,"end":779},"obj":"Sentence"},{"id":"T10428","span":{"begin":780,"end":951},"obj":"Sentence"},{"id":"T10429","span":{"begin":952,"end":1044},"obj":"Sentence"},{"id":"T10430","span":{"begin":1045,"end":1107},"obj":"Sentence"},{"id":"T10431","span":{"begin":1108,"end":1244},"obj":"Sentence"},{"id":"T195","span":{"begin":0,"end":40},"obj":"Sentence"},{"id":"T196","span":{"begin":41,"end":144},"obj":"Sentence"},{"id":"T197","span":{"begin":145,"end":551},"obj":"Sentence"},{"id":"T198","span":{"begin":552,"end":674},"obj":"Sentence"},{"id":"T199","span":{"begin":675,"end":779},"obj":"Sentence"},{"id":"T200","span":{"begin":780,"end":951},"obj":"Sentence"},{"id":"T201","span":{"begin":952,"end":1044},"obj":"Sentence"},{"id":"T202","span":{"begin":1045,"end":1107},"obj":"Sentence"},{"id":"T203","span":{"begin":1108,"end":1244},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Phenotype of BMDC and splenic DC subsets\nThe phenotype of BMDC was determined before and after 24 hour culture in the presence of 100 ng/mL LPS. The cells were incubated in PBS with 0.1% NaN3, 1% BSA and 10% normal rabbit serum for 20 minutes on ice, washed and incubated for 30 minutes on ice with Alex Fluor-labeled anti-CD11c (MCD11C20, CALTAG) in combination with PE- anti-CD40 (3/23, BD Biosciences), PE-anti-CD80 (16-10A1, eBioscience), PE-anti-CD86 (P03.1, eBioscience), PE-anti-CD14 (Sa2.8, eBioscience) and biotinylated anti-TLR4 (BioLegend). The cells incubated with biotinylated anti-TLR4/MD-2 were washed twice and incubated for 30 minutes on ice with avidin-PE. To isolate splenic DC, spleens were collagenase digested and subject to Percoll gradient centrifugation. The bands at the 35–55% interface were collected to stain with PE-anti-CD11c (HL3, BioLegend), APC-anti-PDCA-1 (927, BioLegend) and FITC-anti-CD8α (53–6.7, BD BioScience). The cells were washed twice, fixed in 2% paraformaldehyde, and stored at 4°C until analysis. Flow cytometry was performed in an Excel (Coulter) instrument. Dead cells were omitted from the analysis by gating on forward and 90° light scatter, and 10,000 cells were analyzed by FlowJo software."}

bionlp-st-ge-2016-reference-tees

{"project":"bionlp-st-ge-2016-reference-tees","denotations":[{"id":"T10925","span":{"begin":323,"end":328},"obj":"Protein"},{"id":"T10926","span":{"begin":330,"end":338},"obj":"Protein"},{"id":"T10927","span":{"begin":478,"end":485},"obj":"Protein"},{"id":"T10928","span":{"begin":486,"end":490},"obj":"Protein"},{"id":"T10929","span":{"begin":664,"end":673},"obj":"Protein"},{"id":"T10930","span":{"begin":711,"end":722},"obj":"Protein"},{"id":"T10931","span":{"begin":851,"end":856},"obj":"Protein"},{"id":"T10932","span":{"begin":858,"end":861},"obj":"Protein"},{"id":"T10933","span":{"begin":912,"end":921},"obj":"Protein"},{"id":"T10934","span":{"begin":922,"end":926},"obj":"Protein"}],"text":"Phenotype of BMDC and splenic DC subsets\nThe phenotype of BMDC was determined before and after 24 hour culture in the presence of 100 ng/mL LPS. The cells were incubated in PBS with 0.1% NaN3, 1% BSA and 10% normal rabbit serum for 20 minutes on ice, washed and incubated for 30 minutes on ice with Alex Fluor-labeled anti-CD11c (MCD11C20, CALTAG) in combination with PE- anti-CD40 (3/23, BD Biosciences), PE-anti-CD80 (16-10A1, eBioscience), PE-anti-CD86 (P03.1, eBioscience), PE-anti-CD14 (Sa2.8, eBioscience) and biotinylated anti-TLR4 (BioLegend). The cells incubated with biotinylated anti-TLR4/MD-2 were washed twice and incubated for 30 minutes on ice with avidin-PE. To isolate splenic DC, spleens were collagenase digested and subject to Percoll gradient centrifugation. The bands at the 35–55% interface were collected to stain with PE-anti-CD11c (HL3, BioLegend), APC-anti-PDCA-1 (927, BioLegend) and FITC-anti-CD8α (53–6.7, BD BioScience). The cells were washed twice, fixed in 2% paraformaldehyde, and stored at 4°C until analysis. Flow cytometry was performed in an Excel (Coulter) instrument. Dead cells were omitted from the analysis by gating on forward and 90° light scatter, and 10,000 cells were analyzed by FlowJo software."}

bionlp-st-ge-2016-uniprot

{"project":"bionlp-st-ge-2016-uniprot","denotations":[{"id":"T10902","span":{"begin":323,"end":328},"obj":"P20702"},{"id":"T10903","span":{"begin":377,"end":381},"obj":"P25942"},{"id":"T10904","span":{"begin":414,"end":418},"obj":"P33681"},{"id":"T10905","span":{"begin":451,"end":455},"obj":"P42081"},{"id":"T10906","span":{"begin":486,"end":490},"obj":"P08571"},{"id":"T10907","span":{"begin":534,"end":538},"obj":"O00206"},{"id":"T10908","span":{"begin":595,"end":599},"obj":"O00206"},{"id":"T10909","span":{"begin":851,"end":856},"obj":"P20702"}],"namespaces":[{"prefix":"_base","uri":"http://www.uniprot.org/uniprot/"}],"text":"Phenotype of BMDC and splenic DC subsets\nThe phenotype of BMDC was determined before and after 24 hour culture in the presence of 100 ng/mL LPS. The cells were incubated in PBS with 0.1% NaN3, 1% BSA and 10% normal rabbit serum for 20 minutes on ice, washed and incubated for 30 minutes on ice with Alex Fluor-labeled anti-CD11c (MCD11C20, CALTAG) in combination with PE- anti-CD40 (3/23, BD Biosciences), PE-anti-CD80 (16-10A1, eBioscience), PE-anti-CD86 (P03.1, eBioscience), PE-anti-CD14 (Sa2.8, eBioscience) and biotinylated anti-TLR4 (BioLegend). The cells incubated with biotinylated anti-TLR4/MD-2 were washed twice and incubated for 30 minutes on ice with avidin-PE. To isolate splenic DC, spleens were collagenase digested and subject to Percoll gradient centrifugation. The bands at the 35–55% interface were collected to stain with PE-anti-CD11c (HL3, BioLegend), APC-anti-PDCA-1 (927, BioLegend) and FITC-anti-CD8α (53–6.7, BD BioScience). The cells were washed twice, fixed in 2% paraformaldehyde, and stored at 4°C until analysis. Flow cytometry was performed in an Excel (Coulter) instrument. Dead cells were omitted from the analysis by gating on forward and 90° light scatter, and 10,000 cells were analyzed by FlowJo software."}