PMC:7252096 / 87678-88387 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7252096","sourcedb":"PMC","sourceid":"7252096","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7252096","text":"NHP Lymphoid Organs, Bone Marrow, PBMCs\nAll lymph nodes, spleen, and bone marrow were ground through a metal strainer, transferred to a conical in RPMI + 10% FBS, and pelleted by centrifugation at 400 g x 10 min. LN-derived cells were resuspended in RPMI + 10% FBS, counted and prepared as a single cell suspension. Spleen, bone marrow, and PBMCs were subjected to ACK lysis for 10 min at room temperature, quenched with RPMI + 10% FBS. PBMCs and bone marrow derived cells were purified over a ficoll gradient (GE Healthcare) by centrifuging at 400 g for 20 min at room temperature with no brake. Cells were then resuspended in RPMI + 10% FBS, counted, and diluted for scRNA-seq using Seq-Well v1 (see below).","divisions":[{"label":"title","span":{"begin":0,"end":39}}],"tracks":[{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T989","span":{"begin":13,"end":19},"obj":"Body_part"},{"id":"T990","span":{"begin":21,"end":32},"obj":"Body_part"},{"id":"T991","span":{"begin":44,"end":55},"obj":"Body_part"},{"id":"T992","span":{"begin":44,"end":49},"obj":"Body_part"},{"id":"T993","span":{"begin":57,"end":63},"obj":"Body_part"},{"id":"T994","span":{"begin":69,"end":80},"obj":"Body_part"},{"id":"T995","span":{"begin":224,"end":229},"obj":"Body_part"},{"id":"T996","span":{"begin":299,"end":303},"obj":"Body_part"},{"id":"T997","span":{"begin":316,"end":322},"obj":"Body_part"},{"id":"T998","span":{"begin":324,"end":335},"obj":"Body_part"},{"id":"T999","span":{"begin":447,"end":458},"obj":"Body_part"},{"id":"T1000","span":{"begin":467,"end":472},"obj":"Body_part"},{"id":"T1001","span":{"begin":597,"end":602},"obj":"Body_part"},{"id":"T1002","span":{"begin":694,"end":696},"obj":"Body_part"}],"attributes":[{"id":"A989","pred":"fma_id","subj":"T989","obj":"http://purl.org/sig/ont/fma/fma67498"},{"id":"A990","pred":"fma_id","subj":"T990","obj":"http://purl.org/sig/ont/fma/fma9608"},{"id":"A991","pred":"fma_id","subj":"T991","obj":"http://purl.org/sig/ont/fma/fma5034"},{"id":"A992","pred":"fma_id","subj":"T992","obj":"http://purl.org/sig/ont/fma/fma9671"},{"id":"A993","pred":"fma_id","subj":"T993","obj":"http://purl.org/sig/ont/fma/fma7196"},{"id":"A994","pred":"fma_id","subj":"T994","obj":"http://purl.org/sig/ont/fma/fma9608"},{"id":"A995","pred":"fma_id","subj":"T995","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A996","pred":"fma_id","subj":"T996","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A997","pred":"fma_id","subj":"T997","obj":"http://purl.org/sig/ont/fma/fma7196"},{"id":"A998","pred":"fma_id","subj":"T998","obj":"http://purl.org/sig/ont/fma/fma9608"},{"id":"A999","pred":"fma_id","subj":"T999","obj":"http://purl.org/sig/ont/fma/fma9608"},{"id":"A1000","pred":"fma_id","subj":"T1000","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A1001","pred":"fma_id","subj":"T1001","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A1002","pred":"fma_id","subj":"T1002","obj":"http://purl.org/sig/ont/fma/fma13444"},{"id":"A1003","pred":"fma_id","subj":"T1002","obj":"http://purl.org/sig/ont/fma/fma68614"},{"subj":"T989","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T990","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T991","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T992","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T993","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T994","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T995","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T996","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T997","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T998","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T999","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T1000","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T1001","pred":"source","obj":"LitCovid-PD-FMA-UBERON"},{"subj":"T1002","pred":"source","obj":"LitCovid-PD-FMA-UBERON"}]},{"project":"LitCovid-PD-UBERON","denotations":[{"id":"T191","span":{"begin":13,"end":19},"obj":"Body_part"},{"id":"T192","span":{"begin":21,"end":32},"obj":"Body_part"},{"id":"T193","span":{"begin":44,"end":55},"obj":"Body_part"},{"id":"T194","span":{"begin":44,"end":49},"obj":"Body_part"},{"id":"T195","span":{"begin":57,"end":63},"obj":"Body_part"},{"id":"T196","span":{"begin":69,"end":80},"obj":"Body_part"},{"id":"T197","span":{"begin":316,"end":322},"obj":"Body_part"},{"id":"T198","span":{"begin":324,"end":335},"obj":"Body_part"},{"id":"T199","span":{"begin":447,"end":458},"obj":"Body_part"}],"attributes":[{"id":"A191","pred":"uberon_id","subj":"T191","obj":"http://purl.obolibrary.org/obo/UBERON_0000062"},{"id":"A192","pred":"uberon_id","subj":"T192","obj":"http://purl.obolibrary.org/obo/UBERON_0002371"},{"id":"A193","pred":"uberon_id","subj":"T193","obj":"http://purl.obolibrary.org/obo/UBERON_0000029"},{"id":"A194","pred":"uberon_id","subj":"T194","obj":"http://purl.obolibrary.org/obo/UBERON_0002391"},{"id":"A195","pred":"uberon_id","subj":"T195","obj":"http://purl.obolibrary.org/obo/UBERON_0002106"},{"id":"A196","pred":"uberon_id","subj":"T196","obj":"http://purl.obolibrary.org/obo/UBERON_0002371"},{"id":"A197","pred":"uberon_id","subj":"T197","obj":"http://purl.obolibrary.org/obo/UBERON_0002106"},{"id":"A198","pred":"uberon_id","subj":"T198","obj":"http://purl.obolibrary.org/obo/UBERON_0002371"},{"id":"A199","pred":"uberon_id","subj":"T199","obj":"http://purl.obolibrary.org/obo/UBERON_0002371"},{"subj":"T191","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T192","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T193","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T194","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T195","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T196","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T197","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T198","pred":"source","obj":"LitCovid-PD-UBERON"},{"subj":"T199","pred":"source","obj":"LitCovid-PD-UBERON"}]},{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T350","span":{"begin":213,"end":215},"obj":"Disease"}],"attributes":[{"id":"A350","pred":"mondo_id","subj":"T350","obj":"http://purl.obolibrary.org/obo/MONDO_0002486"},{"subj":"T350","pred":"source","obj":"LitCovid-PD-MONDO"}]},{"project":"LitCovid-PD-CLO","denotations":[{"id":"T1454","span":{"begin":4,"end":19},"obj":"http://purl.obolibrary.org/obo/UBERON_0004177"},{"id":"T1455","span":{"begin":21,"end":25},"obj":"http://purl.obolibrary.org/obo/UBERON_0002481"},{"id":"T1456","span":{"begin":44,"end":55},"obj":"http://purl.obolibrary.org/obo/UBERON_0000029"},{"id":"T1457","span":{"begin":57,"end":63},"obj":"http://purl.obolibrary.org/obo/UBERON_0002106"},{"id":"T1458","span":{"begin":69,"end":73},"obj":"http://purl.obolibrary.org/obo/UBERON_0002481"},{"id":"T1459","span":{"begin":101,"end":102},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1460","span":{"begin":134,"end":135},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1461","span":{"begin":224,"end":229},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1462","span":{"begin":290,"end":291},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1463","span":{"begin":299,"end":303},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1464","span":{"begin":316,"end":322},"obj":"http://purl.obolibrary.org/obo/UBERON_0002106"},{"id":"T1465","span":{"begin":324,"end":328},"obj":"http://purl.obolibrary.org/obo/UBERON_0002481"},{"id":"T1466","span":{"begin":447,"end":451},"obj":"http://purl.obolibrary.org/obo/UBERON_0002481"},{"id":"T1467","span":{"begin":467,"end":472},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1468","span":{"begin":492,"end":493},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1469","span":{"begin":597,"end":602},"obj":"http://purl.obolibrary.org/obo/GO_0005623"}],"attributes":[{"subj":"T1454","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1455","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1456","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1457","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1458","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1459","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1460","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1461","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1462","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1463","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1464","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1465","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1466","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1467","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1468","pred":"source","obj":"LitCovid-PD-CLO"},{"subj":"T1469","pred":"source","obj":"LitCovid-PD-CLO"}]},{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T37446","span":{"begin":213,"end":215},"obj":"Chemical"},{"id":"T49328","span":{"begin":511,"end":513},"obj":"Chemical"}],"attributes":[{"id":"A98409","pred":"chebi_id","subj":"T37446","obj":"http://purl.obolibrary.org/obo/CHEBI_17571"},{"id":"A67265","pred":"chebi_id","subj":"T37446","obj":"http://purl.obolibrary.org/obo/CHEBI_73529"},{"id":"A52471","pred":"chebi_id","subj":"T49328","obj":"http://purl.obolibrary.org/obo/CHEBI_73801"},{"subj":"T37446","pred":"source","obj":"LitCovid-PD-CHEBI"},{"subj":"T49328","pred":"source","obj":"LitCovid-PD-CHEBI"}]},{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T57","span":{"begin":369,"end":374},"obj":"http://purl.obolibrary.org/obo/GO_0019835"}],"attributes":[{"subj":"T57","pred":"source","obj":"LitCovid-PD-GO-BP"}]},{"project":"LitCovid-sentences","denotations":[{"id":"T623","span":{"begin":0,"end":39},"obj":"Sentence"},{"id":"T624","span":{"begin":40,"end":212},"obj":"Sentence"},{"id":"T625","span":{"begin":213,"end":315},"obj":"Sentence"},{"id":"T626","span":{"begin":316,"end":436},"obj":"Sentence"},{"id":"T627","span":{"begin":437,"end":596},"obj":"Sentence"},{"id":"T628","span":{"begin":597,"end":709},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"attributes":[{"subj":"T623","pred":"source","obj":"LitCovid-sentences"},{"subj":"T624","pred":"source","obj":"LitCovid-sentences"},{"subj":"T625","pred":"source","obj":"LitCovid-sentences"},{"subj":"T626","pred":"source","obj":"LitCovid-sentences"},{"subj":"T627","pred":"source","obj":"LitCovid-sentences"},{"subj":"T628","pred":"source","obj":"LitCovid-sentences"}]},{"project":"LitCovid-PubTator","denotations":[{"id":"2439","span":{"begin":365,"end":368},"obj":"Gene"},{"id":"2440","span":{"begin":147,"end":151},"obj":"Chemical"},{"id":"2441","span":{"begin":250,"end":254},"obj":"Chemical"},{"id":"2442","span":{"begin":421,"end":425},"obj":"Chemical"},{"id":"2443","span":{"begin":628,"end":632},"obj":"Chemical"}],"attributes":[{"id":"A2439","pred":"tao:has_database_id","subj":"2439","obj":"Gene:10188"},{"subj":"2439","pred":"source","obj":"LitCovid-PubTator"},{"subj":"2440","pred":"source","obj":"LitCovid-PubTator"},{"subj":"2441","pred":"source","obj":"LitCovid-PubTator"},{"subj":"2442","pred":"source","obj":"LitCovid-PubTator"},{"subj":"2443","pred":"source","obj":"LitCovid-PubTator"}],"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_"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-PD-FMA-UBERON","color":"#ecca93","default":true},{"id":"LitCovid-PD-UBERON","color":"#b093ec"},{"id":"LitCovid-PD-MONDO","color":"#93ec96"},{"id":"LitCovid-PD-CLO","color":"#ec93a9"},{"id":"LitCovid-PD-CHEBI","color":"#93c3ec"},{"id":"LitCovid-PD-GO-BP","color":"#ddec93"},{"id":"LitCovid-sentences","color":"#e093ec"},{"id":"LitCovid-PubTator","color":"#93ecc6"}]}]}}