PMC:7402624 / 63458-64078 JSONTXT

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T516","span":{"begin":29,"end":34},"obj":"Body_part"},{"id":"T517","span":{"begin":61,"end":68},"obj":"Body_part"},{"id":"T518","span":{"begin":133,"end":139},"obj":"Body_part"},{"id":"T519","span":{"begin":177,"end":182},"obj":"Body_part"}],"attributes":[{"id":"A516","pred":"fma_id","subj":"T516","obj":"http://purl.org/sig/ont/fma/fma9670"},{"id":"A517","pred":"fma_id","subj":"T517","obj":"http://purl.org/sig/ont/fma/fma82839"},{"id":"A518","pred":"fma_id","subj":"T518","obj":"http://purl.org/sig/ont/fma/fma62970"},{"id":"A519","pred":"fma_id","subj":"T519","obj":"http://purl.org/sig/ont/fma/fma9670"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}

{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T34","span":{"begin":29,"end":34},"obj":"Body_part"},{"id":"T35","span":{"begin":177,"end":182},"obj":"Body_part"},{"id":"T36","span":{"begin":250,"end":254},"obj":"Body_part"}],"attributes":[{"id":"A34","pred":"uberon_id","subj":"T34","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"A35","pred":"uberon_id","subj":"T35","obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"A36","pred":"uberon_id","subj":"T36","obj":"http://purl.obolibrary.org/obo/UBERON_0000025"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}

{"project":"LitCovid-PubTator","denotations":[{"id":"1976","span":{"begin":487,"end":490},"obj":"Gene"},{"id":"1977","span":{"begin":61,"end":68},"obj":"Chemical"},{"id":"1978","span":{"begin":207,"end":211},"obj":"Chemical"},{"id":"1979","span":{"begin":442,"end":446},"obj":"Chemical"}],"attributes":[{"id":"A1976","pred":"tao:has_database_id","subj":"1976","obj":"Gene:10188"},{"id":"A1977","pred":"tao:has_database_id","subj":"1977","obj":"MESH:D006493"}],"namespaces":[{"prefix":"Tax","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"},{"prefix":"MESH","uri":"https://id.nlm.nih.gov/mesh/"},{"prefix":"Gene","uri":"https://www.ncbi.nlm.nih.gov/gene/"},{"prefix":"CVCL","uri":"https://web.expasy.org/cellosaurus/CVCL_"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T420","span":{"begin":76,"end":78},"obj":"Disease"}],"attributes":[{"id":"A420","pred":"mondo_id","subj":"T420","obj":"http://purl.obolibrary.org/obo/MONDO_0007191"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T941","span":{"begin":29,"end":34},"obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"T942","span":{"begin":29,"end":34},"obj":"http://www.ebi.ac.uk/efo/EFO_0000296"},{"id":"T943","span":{"begin":69,"end":74},"obj":"http://purl.obolibrary.org/obo/UBERON_0000025"},{"id":"T944","span":{"begin":93,"end":98},"obj":"http://purl.obolibrary.org/obo/UBERON_0000025"},{"id":"T945","span":{"begin":133,"end":139},"obj":"http://purl.obolibrary.org/obo/UBERON_0001969"},{"id":"T946","span":{"begin":171,"end":182},"obj":"http://purl.obolibrary.org/obo/UBERON_0000178"},{"id":"T947","span":{"begin":171,"end":182},"obj":"http://www.ebi.ac.uk/efo/EFO_0000296"},{"id":"T948","span":{"begin":195,"end":198},"obj":"http://purl.obolibrary.org/obo/CLO_0053733"},{"id":"T949","span":{"begin":240,"end":241},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T950","span":{"begin":250,"end":254},"obj":"http://purl.obolibrary.org/obo/UBERON_0000025"},{"id":"T951","span":{"begin":360,"end":365},"obj":"http://purl.obolibrary.org/obo/UBERON_0000025"},{"id":"T952","span":{"begin":568,"end":569},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T61508","span":{"begin":54,"end":60},"obj":"Chemical"},{"id":"T55","span":{"begin":61,"end":68},"obj":"Chemical"},{"id":"T23659","span":{"begin":497,"end":503},"obj":"Chemical"}],"attributes":[{"id":"A44311","pred":"chebi_id","subj":"T61508","obj":"http://purl.obolibrary.org/obo/CHEBI_26708"},{"id":"A67679","pred":"chebi_id","subj":"T55","obj":"http://purl.obolibrary.org/obo/CHEBI_28304"},{"id":"A81969","pred":"chebi_id","subj":"T23659","obj":"http://purl.obolibrary.org/obo/CHEBI_35225"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T134","span":{"begin":491,"end":496},"obj":"http://purl.obolibrary.org/obo/GO_0019835"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}

{"project":"LitCovid-sentences","denotations":[{"id":"T373","span":{"begin":0,"end":17},"obj":"Sentence"},{"id":"T374","span":{"begin":18,"end":92},"obj":"Sentence"},{"id":"T375","span":{"begin":93,"end":160},"obj":"Sentence"},{"id":"T376","span":{"begin":161,"end":351},"obj":"Sentence"},{"id":"T377","span":{"begin":352,"end":540},"obj":"Sentence"},{"id":"T378","span":{"begin":541,"end":620},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Sample processing\nPeripheral blood was collected into sodium heparin tubes (BD, Cat#367874). Tubes were spun (15 min, 3000 rpm, RT), plasma removed, and banked. Remaining whole blood was diluted 1:1 with 1% RPMI (table S7) and layered into a SEPMATE tube (STEMCELL Technologies, Cat#85450) pre-loaded with lymphoprep (Alere Technologies, Cat#1114547). SEPMATE tubes were spun (10 min, 1200xg, RT) and the PBMC layer collected, washed with 1% RPMI (10 min, 1600 rpm, RT) and treated with ACK lysis buffer (5 min, ThermoFisher, Cat#A1049201). Samples were filtered with a 70 μm filter, counted, and aliquoted for staining."}