PMC:7321036 / 94223-95056 JSONTXT

{"project":"LitCovid-PMC-OGER-BB","denotations":[{"id":"T196","span":{"begin":170,"end":201},"obj":"SO:0000704"},{"id":"T197","span":{"begin":665,"end":669},"obj":"SO:0000704"}],"text":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}

{"project":"LitCovid-PD-FMA-UBERON","denotations":[{"id":"T675","span":{"begin":0,"end":4},"obj":"Body_part"},{"id":"T676","span":{"begin":28,"end":37},"obj":"Body_part"},{"id":"T677","span":{"begin":140,"end":143},"obj":"Body_part"},{"id":"T678","span":{"begin":520,"end":523},"obj":"Body_part"}],"attributes":[{"id":"A675","pred":"fma_id","subj":"T675","obj":"http://purl.org/sig/ont/fma/fma74402"},{"id":"A676","pred":"fma_id","subj":"T676","obj":"http://purl.org/sig/ont/fma/fma84050"},{"id":"A677","pred":"fma_id","subj":"T677","obj":"http://purl.org/sig/ont/fma/fma67095"},{"id":"A678","pred":"fma_id","subj":"T678","obj":"http://purl.org/sig/ont/fma/fma67095"}],"text":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}

{"project":"LitCovid-PD-MONDO","denotations":[{"id":"T369","span":{"begin":49,"end":57},"obj":"Disease"}],"attributes":[{"id":"A369","pred":"mondo_id","subj":"T369","obj":"http://purl.obolibrary.org/obo/MONDO_0005091"}],"text":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}

{"project":"LitCovid-PD-CLO","denotations":[{"id":"T1291","span":{"begin":0,"end":4},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"},{"id":"T1292","span":{"begin":399,"end":400},"obj":"http://purl.obolibrary.org/obo/CLO_0001020"},{"id":"T1293","span":{"begin":417,"end":427},"obj":"http://purl.obolibrary.org/obo/OBI_0000968"},{"id":"T1294","span":{"begin":665,"end":670},"obj":"http://purl.obolibrary.org/obo/OGG_0000000002"}],"text":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}

{"project":"LitCovid-PD-CHEBI","denotations":[{"id":"T559","span":{"begin":207,"end":209},"obj":"Chemical"},{"id":"T560","span":{"begin":428,"end":430},"obj":"Chemical"},{"id":"T561","span":{"begin":687,"end":691},"obj":"Chemical"}],"attributes":[{"id":"A559","pred":"chebi_id","subj":"T559","obj":"http://purl.obolibrary.org/obo/CHEBI_74327"},{"id":"A560","pred":"chebi_id","subj":"T560","obj":"http://purl.obolibrary.org/obo/CHEBI_74067"},{"id":"A561","pred":"chebi_id","subj":"T561","obj":"http://purl.obolibrary.org/obo/CHEBI_28262"}],"text":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}

{"project":"LitCovid-PD-GO-BP","denotations":[{"id":"T470","span":{"begin":0,"end":15},"obj":"http://purl.obolibrary.org/obo/GO_0010467"},{"id":"T471","span":{"begin":99,"end":120},"obj":"http://purl.obolibrary.org/obo/GO_0001171"},{"id":"T472","span":{"begin":107,"end":120},"obj":"http://purl.obolibrary.org/obo/GO_0006351"},{"id":"T473","span":{"begin":218,"end":231},"obj":"http://purl.obolibrary.org/obo/GO_0003968"},{"id":"T474","span":{"begin":218,"end":231},"obj":"http://purl.obolibrary.org/obo/GO_0003899"},{"id":"T475","span":{"begin":360,"end":364},"obj":"http://purl.obolibrary.org/obo/GO_0033867"},{"id":"T476","span":{"begin":713,"end":730},"obj":"http://purl.obolibrary.org/obo/GO_0019079"},{"id":"T477","span":{"begin":713,"end":730},"obj":"http://purl.obolibrary.org/obo/GO_0019058"}],"text":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}

{"project":"LitCovid-PubTator","denotations":[{"id":"2114","span":{"begin":578,"end":582},"obj":"Gene"},{"id":"2115","span":{"begin":518,"end":519},"obj":"Gene"},{"id":"2116","span":{"begin":49,"end":59},"obj":"Species"},{"id":"2117","span":{"begin":687,"end":691},"obj":"Chemical"},{"id":"2118","span":{"begin":638,"end":646},"obj":"Disease"},{"id":"2119","span":{"begin":678,"end":686},"obj":"Disease"}],"attributes":[{"id":"A2114","pred":"tao:has_database_id","subj":"2114","obj":"Gene:60"},{"id":"A2115","pred":"tao:has_database_id","subj":"2115","obj":"Gene:43740575"},{"id":"A2116","pred":"tao:has_database_id","subj":"2116","obj":"Tax:2697049"},{"id":"A2117","pred":"tao:has_database_id","subj":"2117","obj":"MESH:D004121"},{"id":"A2118","pred":"tao:has_database_id","subj":"2118","obj":"MESH:D007239"},{"id":"A2119","pred":"tao:has_database_id","subj":"2119","obj":"MESH:D007239"}],"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":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}

{"project":"LitCovid-sentences","denotations":[{"id":"T826","span":{"begin":0,"end":98},"obj":"Sentence"},{"id":"T827","span":{"begin":99,"end":277},"obj":"Sentence"},{"id":"T828","span":{"begin":278,"end":439},"obj":"Sentence"},{"id":"T829","span":{"begin":440,"end":732},"obj":"Sentence"},{"id":"T830","span":{"begin":733,"end":833},"obj":"Sentence"}],"namespaces":[{"prefix":"_base","uri":"http://pubannotation.org/ontology/tao.owl#"}],"text":"Gene expression of selected cytokines as well as SARS-CoV-2 replication was quantified by RT-qPCR. Reverse transcription of extracted total RNA samples was performed using oligo (dT) primers and SuperScript IV Reverse Transcriptase according to the manufacturer’s instructions. Quantitative real-time PCR analysis of cDNA samples was performed using KAPA SYBR FAST qPCR Master Mix (2X) Universal on a LightCycler 480 Instrument II (Roche). For viral quantification, primers specifically targeting the subgenomic viral N RNA were used. ΔCT values were determined relative to the ACTB and ΔΔCT values were normalized to the average of mock infected samples (for host genes) or to infected DMSO treated samples (for viral replication). Error bars indicate the standard deviation of the mean from three independent biological replicates."}