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PMC:7103735 / 1700-4636 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T3 550-553 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T4 589-595 Body_part denotes genome http://purl.org/sig/ont/fma/fma84116
T5 650-658 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T6 705-713 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T7 802-810 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T8 2584-2590 Body_part denotes Genome http://purl.org/sig/ont/fma/fma84116
T9 2708-2716 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T10 2795-2799 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T11 2915-2923 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 2670-2675 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T26 220-228 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T27 220-224 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T28 319-352 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T29 354-358 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T30 881-889 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T31 881-885 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T32 917-925 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T33 917-921 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T34 1004-1039 Disease denotes acute respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0006502
T35 1010-1039 Disease denotes respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0009971
T36 1041-1045 Disease denotes ARDS http://purl.obolibrary.org/obo/MONDO_0006502
T37 1119-1130 Disease denotes common cold http://purl.obolibrary.org/obo/MONDO_0005709
T38 1217-1237 Disease denotes respiratory diseases http://purl.obolibrary.org/obo/MONDO_0005087
T39 1672-1680 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T40 1672-1676 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T41 1830-1839 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T42 2273-2281 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T43 2273-2277 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T44 2431-2447 Disease denotes immunodeficiency http://purl.obolibrary.org/obo/MONDO_0021094
T45 2530-2538 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T46 2530-2534 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T25 42-49 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animals
T26 258-263 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T27 554-561 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T28 573-574 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T29 603-605 http://purl.obolibrary.org/obo/CLO_0007074 denotes kb
T30 603-605 http://purl.obolibrary.org/obo/CLO_0051988 denotes kb
T31 1101-1102 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T32 1293-1299 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T33 1348-1349 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T34 1371-1375 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes bats
T35 1398-1405 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animals
T36 1464-1465 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T37 1517-1518 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T38 1653-1659 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T39 1690-1691 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T40 1709-1715 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes humans
T41 1788-1789 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T42 1885-1890 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T43 1985-1986 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T44 1994-1995 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T45 2016-2021 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T46 2368-2373 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T47 2385-2392 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T48 2425-2430 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T49 2448-2455 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T50 2483-2488 http://purl.obolibrary.org/obo/CLO_0009985 denotes focus
T51 2591-2603 http://purl.obolibrary.org/obo/OBI_0000245 denotes organization
T52 2682-2687 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T53 2742-2750 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T54 2795-2799 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T55 2849-2850 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T56 2890-2895 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T6 650-658 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T7 705-713 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T8 802-810 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T9 1900-1909 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T10 2209-2218 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T11 2304-2313 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T12 2708-2716 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T13 2915-2923 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T3 2192-2204 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis
T4 2284-2303 http://purl.obolibrary.org/obo/GO_0051701 denotes interacts with host

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T17 0-77 Sentence denotes Coronaviruses (CoVs) are found in various animals including aves and mammals.
T18 78-199 Sentence denotes They can be divided into four genera named Alphacoronavirus, Betacoronavirus, Gammacoronavirus, and Deltacoronavirus [1].
T19 200-413 Sentence denotes The 2019 novel CoV (SARS-CoV-2) is the newest addition to human CoVs (HCoVs) that also include 229E, OC43, HKU1, NL63, severe acute respiratory syndrome (SARS) CoV, and Middle East respiratory syndrome (MERS) CoV.
T20 414-515 Sentence denotes Whereas 229E and NL63 belong to Alphacoronavirus, others are members in the genus of Betacoronavirus.
T21 516-916 Sentence denotes All of them are positive-stranded RNA viruses containing a polycistronic genome of ∼30 kb in size, coding for multiple non-structural proteins (ORF1a and ORF1b, processed into multiple nsp proteins) at the 5′-end plus multiple structural (S, E, M, and N) and lineage-specific accessory proteins (such as ORF3a, ORF3b, ORF6, ORF7a, ORF7b, ORF8a, ORF8b, and ORF9b in SARS-CoV) at the 3′-end (Figure 1).
T22 917-1047 Sentence denotes SARS-CoV and MERS-CoV are highly pathogenic and can cause severe diseases presented as acute respiratory distress syndrome (ARDS).
T23 1048-1326 Sentence denotes Although the other four community-acquired HCoVs are a common cause of common cold only, they are thought to cause pandemics and major outbreaks of probably more severe respiratory diseases when they initially crossed species barriers to infect humans decades and centuries ago.
T24 1327-1406 Sentence denotes All seven HCoVs have a zoonotic origin from bats, rodents, or domestic animals.
T25 1407-1460 Sentence denotes Their reservoir hosts are selected through evolution.
T26 1461-1635 Sentence denotes As a result of this selection and mutual adaptation for a long period of time, they usually become non-pathogenic or cause very mild diseases in their native reservoir hosts.
T27 1636-1814 Sentence denotes However, when an animal CoV such as SARS-CoV-2 enters a new host such as humans, the severity of the disease is significantly increased at the start of a new round of adaptation.
T28 1815-1918 Sentence denotes The outcome of infection is governed largely by the interplay between virus and host antiviral defence.
T29 1919-2077 Sentence denotes Through years of co-evolution, this tug-of-war ultimately reaches a tie or a balance under which virus and host co-exist peacefully or even in mutual benefit.
T30 2078-2231 Sentence denotes Understanding the host restriction factors and the viral countermeasures will shed significant new light on viral pathogenesis and antiviral development.
T31 2232-2463 Sentence denotes Although it remains to be elucidated how SARS-CoV-2 interacts with host antiviral immunity, lessons can be learned from other HCoVs and human pathogenic viruses in other families including the human immunodeficiency viruses (HIVs).
T32 2464-2573 Sentence denotes In this review, we focus on some of the key questions surrounding SARS-CoV-2 and its interplay with the host.
T33 2574-2583 Sentence denotes Figure 1.
T34 2584-2613 Sentence denotes Genome organization of HCoVs.
T35 2614-2677 Sentence denotes Schematic diagram of seven known HCoVs is shown (not in scale).
T36 2678-2790 Sentence denotes The genes encoding structural proteins spike (S), envelope (E), membrane (M), and nucleocapsid (N) are in green.
T37 2791-2885 Sentence denotes The gene encoding haemagglutinin-esterase (HE) in lineage A of betacoronaviruses is in orange.
T38 2886-2936 Sentence denotes The genes encoding accessory proteins are in blue.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T5 1010-1030 Phenotype denotes respiratory distress http://purl.obolibrary.org/obo/HP_0002098
T6 2431-2447 Phenotype denotes immunodeficiency http://purl.obolibrary.org/obo/HP_0002721

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
49 2854-2871 Species denotes betacoronaviruses Tax:694002
81 701-704 Gene denotes nsp
82 0-13 Species denotes Coronaviruses Tax:11118
83 15-19 Species denotes CoVs Tax:11118
84 139-154 Species denotes Betacoronavirus Tax:694002
85 204-218 Species denotes 2019 novel CoV Tax:2697049
86 220-230 Species denotes SARS-CoV-2 Tax:2697049
87 258-263 Species denotes human Tax:9606
88 264-268 Species denotes CoVs Tax:11118
89 319-363 Species denotes severe acute respiratory syndrome (SARS) CoV Tax:694009
90 403-412 Species denotes MERS) CoV Tax:1335626
91 499-514 Species denotes Betacoronavirus Tax:694002
92 881-889 Species denotes SARS-CoV Tax:694009
93 917-925 Species denotes SARS-CoV Tax:694009
94 930-938 Species denotes MERS-CoV Tax:1335626
95 1293-1299 Species denotes humans Tax:9606
96 1660-1663 Species denotes CoV Tax:11118
97 1672-1682 Species denotes SARS-CoV-2 Tax:2697049
98 1709-1715 Species denotes humans Tax:9606
99 2273-2283 Species denotes SARS-CoV-2 Tax:2697049
100 2368-2373 Species denotes human Tax:9606
101 2425-2455 Species denotes human immunodeficiency viruses Tax:12721
102 2530-2540 Species denotes SARS-CoV-2 Tax:2697049
103 313-317 Species denotes NL63 Tax:277944
104 431-435 Species denotes NL63 Tax:277944
105 1004-1039 Disease denotes acute respiratory distress syndrome MESH:D012128
106 1041-1045 Disease denotes ARDS MESH:D012128
107 1126-1130 Disease denotes cold MESH:D000067390
108 1217-1237 Disease denotes respiratory diseases MESH:D012140
109 1350-1358 Disease denotes zoonotic MESH:D015047
110 1830-1839 Disease denotes infection MESH:D007239
111 2457-2461 Disease denotes HIVs