PMC:7574920 / 51237-52509 JSONTXT

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T422","span":{"begin":116,"end":117},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T423","span":{"begin":243,"end":244},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T424","span":{"begin":326,"end":327},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T425","span":{"begin":467,"end":468},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T426","span":{"begin":537,"end":538},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T427","span":{"begin":634,"end":637},"obj":"http://purl.obolibrary.org/obo/CLO_0001387"},{"id":"T428","span":{"begin":741,"end":742},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T429","span":{"begin":1053,"end":1054},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"}],"text":"Swab–to–RT-LAMP assay\nFor direct and hot swab–to–RT-LAMP assays, patient swab specimens were transferred first onto a 96-well seed plate. For the direct assay, we then transferred 1 μl of the specimen directly to 19 μl of LAMP mix per well in a ready-made 96-well PCR plate (0030128672, Eppendorf). The plate was sealed using a transparent adhesive foil (GK480-OS, Kisker Biotech) and kept on an ice-cold metal block. For the hot assay, we sealed the seed plate with a pierceable lid (4ti-0566/96, Brooks Life Sciences) and heated it in a PCR cycler for 5 min at 95°C (with the lid heated to 105°C). The seed plate was cooled down to 4°C on an ice-cold metal block. Afterward, 1 μl of the heat-treated patient specimens was quickly added to a second ready-made plate with 19 μl of LAMP mix per well. This plate was also sealed with transparent adhesive foil (GK480-OS, Kisker Biotech). Both plates were then incubated at 65°C for the LAMP reaction to proceed. For both swab–to–RT-LAMP assays, the PCR plates were briefly spun down and then incubated in a PCR cycler at 65°C for 10 to 60 min (with the lid heated to 75°C). To perform measurements at the indicated time points, the reactions were taken out of the PCR cycler and placed into an ice-cold metal block for 30 s."}

{"project":"LitCovid-PubTator","denotations":[{"id":"352","span":{"begin":786,"end":789},"obj":"Gene"},{"id":"353","span":{"begin":227,"end":230},"obj":"Gene"},{"id":"354","span":{"begin":65,"end":72},"obj":"Species"},{"id":"355","span":{"begin":702,"end":709},"obj":"Species"},{"id":"356","span":{"begin":405,"end":410},"obj":"Chemical"},{"id":"357","span":{"begin":1251,"end":1256},"obj":"Chemical"}],"attributes":[{"id":"A352","pred":"tao:has_database_id","subj":"352","obj":"Gene:83881"},{"id":"A353","pred":"tao:has_database_id","subj":"353","obj":"Gene:83881"},{"id":"A354","pred":"tao:has_database_id","subj":"354","obj":"Tax:9606"},{"id":"A355","pred":"tao:has_database_id","subj":"355","obj":"Tax:9606"},{"id":"A356","pred":"tao:has_database_id","subj":"356","obj":"MESH:D008670"},{"id":"A357","pred":"tao:has_database_id","subj":"357","obj":"MESH:D008670"}],"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":"Swab–to–RT-LAMP assay\nFor direct and hot swab–to–RT-LAMP assays, patient swab specimens were transferred first onto a 96-well seed plate. For the direct assay, we then transferred 1 μl of the specimen directly to 19 μl of LAMP mix per well in a ready-made 96-well PCR plate (0030128672, Eppendorf). The plate was sealed using a transparent adhesive foil (GK480-OS, Kisker Biotech) and kept on an ice-cold metal block. For the hot assay, we sealed the seed plate with a pierceable lid (4ti-0566/96, Brooks Life Sciences) and heated it in a PCR cycler for 5 min at 95°C (with the lid heated to 105°C). The seed plate was cooled down to 4°C on an ice-cold metal block. Afterward, 1 μl of the heat-treated patient specimens was quickly added to a second ready-made plate with 19 μl of LAMP mix per well. This plate was also sealed with transparent adhesive foil (GK480-OS, Kisker Biotech). Both plates were then incubated at 65°C for the LAMP reaction to proceed. For both swab–to–RT-LAMP assays, the PCR plates were briefly spun down and then incubated in a PCR cycler at 65°C for 10 to 60 min (with the lid heated to 75°C). To perform measurements at the indicated time points, the reactions were taken out of the PCR cycler and placed into an ice-cold metal block for 30 s."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T292","span":{"begin":8,"end":10},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T293","span":{"begin":49,"end":51},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T294","span":{"begin":977,"end":979},"obj":"http://purl.obolibrary.org/obo/GO_0001171"}],"text":"Swab–to–RT-LAMP assay\nFor direct and hot swab–to–RT-LAMP assays, patient swab specimens were transferred first onto a 96-well seed plate. For the direct assay, we then transferred 1 μl of the specimen directly to 19 μl of LAMP mix per well in a ready-made 96-well PCR plate (0030128672, Eppendorf). The plate was sealed using a transparent adhesive foil (GK480-OS, Kisker Biotech) and kept on an ice-cold metal block. For the hot assay, we sealed the seed plate with a pierceable lid (4ti-0566/96, Brooks Life Sciences) and heated it in a PCR cycler for 5 min at 95°C (with the lid heated to 105°C). The seed plate was cooled down to 4°C on an ice-cold metal block. Afterward, 1 μl of the heat-treated patient specimens was quickly added to a second ready-made plate with 19 μl of LAMP mix per well. This plate was also sealed with transparent adhesive foil (GK480-OS, Kisker Biotech). Both plates were then incubated at 65°C for the LAMP reaction to proceed. For both swab–to–RT-LAMP assays, the PCR plates were briefly spun down and then incubated in a PCR cycler at 65°C for 10 to 60 min (with the lid heated to 75°C). To perform measurements at the indicated time points, the reactions were taken out of the PCR cycler and placed into an ice-cold metal block for 30 s."}

{"project":"LitCovid-sentences","denotations":[{"id":"T371","span":{"begin":0,"end":21},"obj":"Sentence"},{"id":"T372","span":{"begin":22,"end":137},"obj":"Sentence"},{"id":"T373","span":{"begin":138,"end":298},"obj":"Sentence"},{"id":"T374","span":{"begin":299,"end":417},"obj":"Sentence"},{"id":"T375","span":{"begin":418,"end":599},"obj":"Sentence"},{"id":"T376","span":{"begin":600,"end":665},"obj":"Sentence"},{"id":"T377","span":{"begin":666,"end":799},"obj":"Sentence"},{"id":"T378","span":{"begin":800,"end":885},"obj":"Sentence"},{"id":"T379","span":{"begin":886,"end":959},"obj":"Sentence"},{"id":"T380","span":{"begin":960,"end":1121},"obj":"Sentence"},{"id":"T381","span":{"begin":1122,"end":1272},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Swab–to–RT-LAMP assay\nFor direct and hot swab–to–RT-LAMP assays, patient swab specimens were transferred first onto a 96-well seed plate. For the direct assay, we then transferred 1 μl of the specimen directly to 19 μl of LAMP mix per well in a ready-made 96-well PCR plate (0030128672, Eppendorf). The plate was sealed using a transparent adhesive foil (GK480-OS, Kisker Biotech) and kept on an ice-cold metal block. For the hot assay, we sealed the seed plate with a pierceable lid (4ti-0566/96, Brooks Life Sciences) and heated it in a PCR cycler for 5 min at 95°C (with the lid heated to 105°C). The seed plate was cooled down to 4°C on an ice-cold metal block. Afterward, 1 μl of the heat-treated patient specimens was quickly added to a second ready-made plate with 19 μl of LAMP mix per well. This plate was also sealed with transparent adhesive foil (GK480-OS, Kisker Biotech). Both plates were then incubated at 65°C for the LAMP reaction to proceed. For both swab–to–RT-LAMP assays, the PCR plates were briefly spun down and then incubated in a PCR cycler at 65°C for 10 to 60 min (with the lid heated to 75°C). To perform measurements at the indicated time points, the reactions were taken out of the PCR cycler and placed into an ice-cold metal block for 30 s."}