PMC:7321036 / 92293-93357 JSONTXT

{"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T193","span":{"begin":28,"end":76},"obj":"GO:0065007"},{"id":"T194","span":{"begin":875,"end":935},"obj":"GO:0065007"},{"id":"T195","span":{"begin":940,"end":981},"obj":"SO:0000704"}],"text":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T652","span":{"begin":0,"end":4},"obj":"Body_part"},{"id":"T653","span":{"begin":34,"end":39},"obj":"Body_part"},{"id":"T654","span":{"begin":82,"end":87},"obj":"Body_part"},{"id":"T655","span":{"begin":253,"end":258},"obj":"Body_part"},{"id":"T656","span":{"begin":289,"end":294},"obj":"Body_part"},{"id":"T657","span":{"begin":398,"end":403},"obj":"Body_part"},{"id":"T658","span":{"begin":517,"end":522},"obj":"Body_part"},{"id":"T659","span":{"begin":654,"end":658},"obj":"Body_part"},{"id":"T660","span":{"begin":855,"end":860},"obj":"Body_part"}],"attributes":[{"id":"A652","pred":"fma_id","subj":"T652","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A653","pred":"fma_id","subj":"T653","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A654","pred":"fma_id","subj":"T654","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A655","pred":"fma_id","subj":"T655","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A656","pred":"fma_id","subj":"T656","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A657","pred":"fma_id","subj":"T657","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A658","pred":"fma_id","subj":"T658","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A659","pred":"fma_id","subj":"T659","obj":"http://purl.org/sig/ont/fma/fma68646"},{"id":"A660","pred":"fma_id","subj":"T660","obj":"http://purl.org/sig/ont/fma/fma68646"}],"text":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T363","span":{"begin":131,"end":139},"obj":"Disease"},{"id":"T364","span":{"begin":712,"end":714},"obj":"Disease"}],"attributes":[{"id":"A363","pred":"mondo_id","subj":"T363","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"},{"id":"A364","pred":"mondo_id","subj":"T364","obj":"http://purl.obolibrary.org/obo/MONDO_0007191"}],"text":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T1254","span":{"begin":0,"end":4},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1255","span":{"begin":26,"end":39},"obj":"http://purl.obolibrary.org/obo/CLO_0051719"},{"id":"T1256","span":{"begin":82,"end":87},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1257","span":{"begin":253,"end":258},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1258","span":{"begin":289,"end":294},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1259","span":{"begin":398,"end":403},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1260","span":{"begin":517,"end":522},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1261","span":{"begin":654,"end":658},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1262","span":{"begin":732,"end":733},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1263","span":{"begin":855,"end":860},"obj":"http://purl.obolibrary.org/obo/GO_0005623"},{"id":"T1264","span":{"begin":871,"end":872},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1265","span":{"begin":942,"end":943},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1266","span":{"begin":948,"end":949},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1267","span":{"begin":961,"end":962},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1268","span":{"begin":1052,"end":1054},"obj":"http://purl.obolibrary.org/obo/CLO_0003414"}],"text":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T548","span":{"begin":265,"end":272},"obj":"Chemical"},{"id":"T549","span":{"begin":364,"end":372},"obj":"Chemical"},{"id":"T550","span":{"begin":470,"end":482},"obj":"Chemical"},{"id":"T551","span":{"begin":587,"end":599},"obj":"Chemical"},{"id":"T552","span":{"begin":601,"end":605},"obj":"Chemical"}],"attributes":[{"id":"A548","pred":"chebi_id","subj":"T548","obj":"http://purl.obolibrary.org/obo/CHEBI_9765"},{"id":"A549","pred":"chebi_id","subj":"T549","obj":"http://purl.obolibrary.org/obo/CHEBI_16842"},{"id":"A550","pred":"chebi_id","subj":"T550","obj":"http://purl.obolibrary.org/obo/CHEBI_9750"},{"id":"A551","pred":"chebi_id","subj":"T551","obj":"http://purl.obolibrary.org/obo/CHEBI_48559"},{"id":"A552","pred":"chebi_id","subj":"T552","obj":"http://purl.obolibrary.org/obo/CHEBI_51231"}],"text":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T466","span":{"begin":0,"end":10},"obj":"http://purl.obolibrary.org/obo/GO_0007049"},{"id":"T467","span":{"begin":654,"end":664},"obj":"http://purl.obolibrary.org/obo/GO_0007049"}],"text":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}

{"project":"LitCovid-PubTator","denotations":[{"id":"2069","span":{"begin":1045,"end":1046},"obj":"Gene"},{"id":"2070","span":{"begin":1055,"end":1056},"obj":"Gene"},{"id":"2071","span":{"begin":131,"end":141},"obj":"Species"},{"id":"2072","span":{"begin":151,"end":158},"obj":"Species"},{"id":"2073","span":{"begin":364,"end":372},"obj":"Chemical"},{"id":"2074","span":{"begin":424,"end":427},"obj":"Chemical"},{"id":"2075","span":{"begin":470,"end":482},"obj":"Chemical"},{"id":"2076","span":{"begin":570,"end":599},"obj":"Chemical"},{"id":"2077","span":{"begin":601,"end":605},"obj":"Chemical"},{"id":"2078","span":{"begin":618,"end":621},"obj":"Chemical"},{"id":"2079","span":{"begin":105,"end":113},"obj":"Disease"},{"id":"2080","span":{"begin":117,"end":125},"obj":"Disease"},{"id":"2081","span":{"begin":31,"end":33},"obj":"CellLine"}],"attributes":[{"id":"A2069","pred":"tao:has_database_id","subj":"2069","obj":"Gene:43740568"},{"id":"A2070","pred":"tao:has_database_id","subj":"2070","obj":"Gene:43740571"},{"id":"A2071","pred":"tao:has_database_id","subj":"2071","obj":"Tax:2697049"},{"id":"A2072","pred":"tao:has_database_id","subj":"2072","obj":"Tax:694002"},{"id":"A2073","pred":"tao:has_database_id","subj":"2073","obj":"MESH:D005557"},{"id":"A2074","pred":"tao:has_database_id","subj":"2074","obj":"MESH:D007854"},{"id":"A2075","pred":"tao:has_database_id","subj":"2075","obj":"MESH:D017830"},{"id":"A2076","pred":"tao:has_database_id","subj":"2076","obj":"MESH:C007293"},{"id":"A2077","pred":"tao:has_database_id","subj":"2077","obj":"MESH:C007293"},{"id":"A2078","pred":"tao:has_database_id","subj":"2078","obj":"MESH:D007854"},{"id":"A2079","pred":"tao:has_database_id","subj":"2079","obj":"MESH:D007239"},{"id":"A2080","pred":"tao:has_database_id","subj":"2080","obj":"MESH:D007239"},{"id":"A2081","pred":"tao:has_database_id","subj":"2081","obj":"CVCL:4582"}],"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":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}

{"project":"LitCovid-sentences","denotations":[{"id":"T809","span":{"begin":0,"end":19},"obj":"Sentence"},{"id":"T810","span":{"begin":20,"end":63},"obj":"Sentence"},{"id":"T811","span":{"begin":64,"end":195},"obj":"Sentence"},{"id":"T812","span":{"begin":196,"end":288},"obj":"Sentence"},{"id":"T813","span":{"begin":289,"end":397},"obj":"Sentence"},{"id":"T814","span":{"begin":398,"end":507},"obj":"Sentence"},{"id":"T815","span":{"begin":508,"end":777},"obj":"Sentence"},{"id":"T816","span":{"begin":778,"end":891},"obj":"Sentence"},{"id":"T817","span":{"begin":892,"end":968},"obj":"Sentence"},{"id":"T818","span":{"begin":969,"end":1064},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Cell cycle analysis\n1x105 Vero E6 cells were seeded per sample. The following day cells were either mock infected or infected with SARS-CoV-2 (isolate BetaCoV/France/IDF0372/2020) at an MOI of 1. The samples were incubated for 24 hours before detaching cells using Trypsin 0.05% (Thermo). Cells were pelleted at 500x g for 2 minutes, followed by fixation using 4% Formalin (Thermo) for 30 minutes. Cells were washed 2x with PBS (Thermo) before permeabilizing using 0.1% Triton X-100 (Thermo) for 20 minutes. Finally, cells were pelleted again and incubated with 1 mg/mL 4′,6-diamidino-2-phenylindole (DAPI; Thermo) in PBS for 30 minutes before analyzing cell cycle using fluorescence by flow cytometry using the BD FACSymphony with a violet laser (405 nm) and 450/50 nm filter. Gating was performed by first selecting singlets by gating highly correlated cells in an SSC-A versus SSC-H plot. Next, typical cellular morphology was gated using a FSC-A versus SSC-A plot. These singles were then used to draw histograms which were gated for G0/G1, S, and G2/M phases."}