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PMC:7140597 / 5849-7269 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
85 37-47 Species denotes SARS-CoV-2 Tax:2697049
88 353-363 Species denotes SARS-CoV-2 Tax:2697049
89 365-410 Species denotes severe acute respiratory syndrome coronavirus Tax:694009
92 1185-1192 Species denotes patient Tax:9606
93 1048-1068 Disease denotes GISAID accession IDs MESH:C535742

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T19 57-63 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T20 167-173 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T21 484-490 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T22 973-979 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T23 1116-1122 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T2 679-684 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T3 973-979 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T17 37-45 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T18 226-235 Disease denotes Influenza http://purl.obolibrary.org/obo/MONDO_0005812
T19 353-361 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T20 362-410 Disease denotes 2: severe acute respiratory syndrome coronavirus http://purl.obolibrary.org/obo/MONDO_0100096
T21 365-398 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T30 1183-1184 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T31 1221-1222 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T32 1325-1326 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T7 276-280 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617
T8 873-875 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T9 1150-1152 Chemical denotes ID http://purl.obolibrary.org/obo/CHEBI_141439
T10 1404-1408 Chemical denotes MEGA http://purl.obolibrary.org/obo/CHEBI_6617

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T36 0-184 Sentence denotes Figure Phylogenetic analysis of two SARS-CoV-2 complete genome sequences retrieved in this study, with available complete sequences from different countriesa (n = 40 genome sequences)
T37 185-192 Sentence denotes GISAID:
T38 193-246 Sentence denotes Global Initiative on Sharing All Influenza Data; HKY:
T39 247-283 Sentence denotes Hasegawa, Kishino, and Yano; MEGA X:
T40 284-411 Sentence denotes Molecular Evolutionary Genetics Analysis across Computing Platforms; SARS-CoV-2: severe acute respiratory syndrome coronavirus.
T41 412-463 Sentence denotes Main clusters are highlighted in different colours.
T42 464-549 Sentence denotes The Wuhan reference genome is in larger font (GenBank accession number: NC_045512.2).
T43 550-674 Sentence denotes The filled circles represent the main supported clusters (bootstrap support values are indicated at the level of the nodes).
T44 675-761 Sentence denotes The scale bar at the bottom of the tree represents 0.000050 nt substitutions per site.
T45 762-908 Sentence denotes The cluster containing the viral sequence of the Chinese tourist who had visited Rome, Italy (GISAID accession ID: EPI_ISL_412974) is in dark red.
T46 909-1105 Sentence denotes This cluster includes viral sequences derived from two samples (sputum and nasopharyngeal swabs) of another Chinese tourist visiting Rome (GISAID accession IDs: EPI_ISL_410545 and EPI_ISL_410546).
T47 1106-1324 Sentence denotes The viral genome sequence (GISAID accession ID: EPI_ISL_412973) derived from a patient from Lombardy, Italy, is in a cluster highlighted in green, which is different from that containing the Chinese tourist’s sequence.
T48 1325-1420 Sentence denotes a The tree wasbuilt by using the best fitting substitution model (HKY) through MEGA X software.

LitCovid-PMC-OGER-BB

Id Subject Object Predicate Lexical cue
T49 37-47 SP_7 denotes SARS-CoV-2
T50 57-63 SO:0001026 denotes genome
T51 167-173 SO:0001026 denotes genome
T52 242-245 PR:Q8NBH2 denotes HKY
T53 353-363 SP_7 denotes SARS-CoV-2
T54 365-377 SP_10 denotes severe acute
T55 378-389 SP_10;UBERON:0001004 denotes respiratory
T56 390-410 SP_10 denotes syndrome coronavirus
T57 484-490 SO:0001505 denotes genome
T58 789-794 NCBITaxon:10239 denotes viral
T59 931-936 NCBITaxon:10239 denotes viral
T60 973-979 UBERON:0007311 denotes sputum
T61 984-998 UBERON:0001728 denotes nasopharyngeal
T62 1110-1115 NCBITaxon:10239 denotes viral
T63 1116-1122 SO:0001026 denotes genome
T64 1391-1394 PR:Q8NBH2 denotes HKY
T54719 37-47 SP_7 denotes SARS-CoV-2
T27861 57-63 SO:0001026 denotes genome
T61622 167-173 SO:0001026 denotes genome
T85188 242-245 PR:Q8NBH2 denotes HKY
T78315 353-363 SP_7 denotes SARS-CoV-2
T29875 365-377 SP_10 denotes severe acute
T40524 378-389 SP_10;UBERON:0001004 denotes respiratory
T71952 390-410 SP_10 denotes syndrome coronavirus
T95867 484-490 SO:0001505 denotes genome
T69699 789-794 NCBITaxon:10239 denotes viral
T54856 931-936 NCBITaxon:10239 denotes viral
T23824 973-979 UBERON:0007311 denotes sputum
T54055 984-998 UBERON:0001728 denotes nasopharyngeal
T34311 1110-1115 NCBITaxon:10239 denotes viral
T12643 1116-1122 SO:0001026 denotes genome
T60438 1391-1394 PR:Q8NBH2 denotes HKY