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PMC:7033706 / 3066-5511 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
101 1975-1979 Gene denotes SC-1 Gene:6941
102 2371-2375 Gene denotes SC-1 Gene:6941
103 2235-2236 Gene denotes S Gene:43740568
104 927-928 Gene denotes S Gene:43740568
105 33-50 Species denotes novel coronavirus Tax:2697049
106 440-459 Species denotes novel coronaviruses Tax:2697049
107 472-478 Species denotes humans Tax:9606
108 563-572 Species denotes 2019-nCoV Tax:2697049
109 678-689 Species denotes coronavirus Tax:11118
110 867-876 Species denotes 2019-nCoV Tax:2697049
111 917-926 Species denotes 2019-nCoV Tax:2697049
112 960-968 Species denotes SARS-CoV Tax:694009
113 988-992 Species denotes CoVs Tax:11118
114 1955-1963 Species denotes SARS-CoV Tax:694009
115 2225-2234 Species denotes 2019-nCoV Tax:2697049
116 2279-2287 Species denotes SARS-CoV Tax:694009
117 104-131 Disease denotes respiratory virus infection
118 652-661 Disease denotes pneumonia MESH:D011014
119 2425-2444 Disease denotes 2019-nCoV infection MESH:C000657245

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T7 828-832 Body_part denotes iris http://purl.org/sig/ont/fma/fma58235
T8 929-936 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T9 1297-1301 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T10 1657-1670 Body_part denotes cell membrane http://purl.org/sig/ont/fma/fma63841
T11 1657-1661 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T12 1784-1802 Body_part denotes cellular membranes http://purl.org/sig/ont/fma/fma63841
T13 1852-1856 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T14 1904-1908 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T15 1966-1973 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T16 2021-2028 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T17 2152-2159 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T18 2209-2213 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T19 2342-2353 Body_part denotes amino acids http://purl.org/sig/ont/fma/fma82739

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 828-832 Body_part denotes iris http://purl.obolibrary.org/obo/UBERON_0001769
T2 1876-1880 Body_part denotes pore http://purl.obolibrary.org/obo/UBERON_0008915

LitCovid_AGAC

Id Subject Object Predicate Lexical cue
p5527s40 2098-2112 MPA denotes 6-HB formation

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T10 116-131 Disease denotes virus infection http://purl.obolibrary.org/obo/MONDO_0005108
T11 122-131 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T12 652-661 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T13 960-968 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T14 1167-1170 Disease denotes NTD http://purl.obolibrary.org/obo/MONDO_0008449|http://purl.obolibrary.org/obo/MONDO_0018075
T16 1955-1963 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T17 2279-2287 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T18 2425-2444 Disease denotes 2019-nCoV infection http://purl.obolibrary.org/obo/MONDO_0100096
T19 2435-2444 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T36 116-121 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T37 472-478 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T38 492-499 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animals
T39 522-528 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T40 672-673 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T41 674-677 http://purl.obolibrary.org/obo/NCBITaxon_9596 denotes pan
T42 981-984 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bat
T43 1045-1047 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T44 1052-1054 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T45 1052-1054 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T46 1100-1102 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T47 1176-1177 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T48 1297-1301 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T49 1378-1379 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T50 1444-1446 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T51 1444-1446 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T52 1497-1504 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T53 1567-1569 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T54 1591-1593 http://purl.obolibrary.org/obo/CLO_0008922 denotes S2
T55 1591-1593 http://purl.obolibrary.org/obo/CLO_0050052 denotes S2
T56 1657-1661 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T57 1662-1670 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T58 1737-1739 http://purl.obolibrary.org/obo/CLO_0003622 denotes HB
T59 1793-1802 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membranes
T60 1852-1856 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T61 1904-1908 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T62 1914-1915 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T63 1916-1923 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide
T64 1975-1979 http://purl.obolibrary.org/obo/CLO_0008956 denotes SC-1
T65 1975-1979 http://purl.obolibrary.org/obo/CLO_0008957 denotes SC-1
T66 1975-1979 http://purl.obolibrary.org/obo/CLO_0008958 denotes SC-1
T67 1975-1979 http://purl.obolibrary.org/obo/CLO_0050606 denotes SC-1
T68 2052-2054 http://purl.obolibrary.org/obo/CLO_0003622 denotes HB
T69 2100-2102 http://purl.obolibrary.org/obo/CLO_0003622 denotes HB
T70 2209-2213 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T71 2310-2311 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T72 2371-2375 http://purl.obolibrary.org/obo/CLO_0008956 denotes SC-1
T73 2371-2375 http://purl.obolibrary.org/obo/CLO_0008957 denotes SC-1
T74 2371-2375 http://purl.obolibrary.org/obo/CLO_0008958 denotes SC-1
T75 2371-2375 http://purl.obolibrary.org/obo/CLO_0050606 denotes SC-1
T76 2376-2383 http://purl.obolibrary.org/obo/PR_000018263 denotes peptide

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T18 341-353 Chemical denotes nucleic acid http://purl.obolibrary.org/obo/CHEBI_33696
T19 349-353 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T20 929-936 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T21 985-987 Chemical denotes SL http://purl.obolibrary.org/obo/CHEBI_74815
T22 1052-1054 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T23 1444-1446 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T24 1497-1504 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T25 1506-1508 Chemical denotes FP http://purl.obolibrary.org/obo/CHEBI_74750
T26 1591-1593 Chemical denotes S2 http://purl.obolibrary.org/obo/CHEBI_29387
T27 1640-1642 Chemical denotes FP http://purl.obolibrary.org/obo/CHEBI_74750
T28 1916-1923 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670
T29 1966-1973 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T30 1975-1979 Chemical denotes SC-1 http://purl.obolibrary.org/obo/CHEBI_136542
T31 2021-2028 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T32 2152-2159 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T33 2342-2353 Chemical denotes amino acids http://purl.obolibrary.org/obo/CHEBI_33709
T34 2342-2347 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T35 2348-2353 Chemical denotes acids http://purl.obolibrary.org/obo/CHEBI_37527
T36 2371-2375 Chemical denotes SC-1 http://purl.obolibrary.org/obo/CHEBI_136542
T37 2376-2383 Chemical denotes peptide http://purl.obolibrary.org/obo/CHEBI_16670

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T4 652-661 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 143-164 http://purl.obolibrary.org/obo/GO_0001171 denotes reverse transcription
T2 151-164 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T3 189-210 http://purl.obolibrary.org/obo/GO_0001171 denotes reverse transcription
T4 197-210 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T5 226-247 http://purl.obolibrary.org/obo/GO_0001171 denotes reverse transcription
T6 234-247 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T7 2103-2112 http://purl.obolibrary.org/obo/GO_0009058 denotes formation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T20 0-400 Sentence denotes The rapid identification of this novel coronavirus is attributed to recent advances in the detection of respiratory virus infection, including reverse transcription PCR (RT-PCR), real-time reverse transcription PCR (rRT-PCR), reverse transcription loop-mediated isothermal amplification (RT-LAMP), and real-time RT-LAMP as well as multiplex nucleic acid amplification and microarray-based assays [4].
T21 401-573 Sentence denotes These methods are useful for detecting novel coronaviruses not only in humans, but also in animals for identification of animal reservoir or intermediate host of 2019-nCoV.
T22 574-904 Sentence denotes WHO recommended that if there is no clue about the putative pathogen from the pneumonia outbreak, a pan-coronavirus assay should be used for amplification followed by sequencing of the amplicon for characterization and confirmation (https://apps.who.int/iris/bitstream/handle/10665/330374/WHO-2019-nCoV-laboratory-2020.1-eng.pdf).
T23 905-1099 Sentence denotes By aligning 2019-nCoV S protein sequence with those of SARS-CoV and several bat-SL-CoVs, we predicted that the cleavage site for generating S1 and S2 subunits is located at R694/S695 (Figure 1).
T24 1100-1302 Sentence denotes S1 subunit contains two functional domains, the N-terminal domain (NTD) and a receptor-binding domain (RBD), both of which are responsible for the binding of the virion to the receptor on the host cell.
T25 1303-1443 Sentence denotes They also contain several conformational neutralizing epitopes, serving as a target for developing neutralizing antibodies and vaccines [5].
T26 1444-1542 Sentence denotes S2 subunit contains three functional domains, fusion peptide (FP), and heptad repeat (HR) 1 and 2.
T27 1543-1803 Sentence denotes After binding of RBD in S1 to the receptor, the S2 subunit changes conformation by inserting the FP into the host cell membrane and association between HR1 and HR2 to form six-helical bundle (6-HB), resulting in the fusion between viral and cellular membranes.
T28 1804-1913 Sentence denotes The viral genetic materials enter into the host cell through the fusion pore for replication in the cell [5].
T29 1914-2218 Sentence denotes A peptide derived from the HR2 domain of SARS-CoV S protein (SC-1) can interact with HR1 region in viral S protein to form heterologous 6-HB, resulting in the inhibition of homologous 6-HB formation between HR1 and HR2 domains in viral S protein and thus blocking the viral fusion with the host cell [6].
T30 2219-2445 Sentence denotes Since 2019-nCoV S-HR2 sequence is 100% identical to that of SARS-CoV, while there are only a few mutations of non-critical amino acids in S-HR1 region, SC-1 peptide is expected to be also effective against 2019-nCoV infection.