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PMC:7068164 / 3319-9727 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
50 106-114 Disease denotes COVID-19 MESH:C000657245
51 183-187 Disease denotes died MESH:D003643
53 450-455 Disease denotes death MESH:D003643
55 730-738 Disease denotes COVID-19 MESH:C000657245
57 862-886 Disease denotes coronavirus disease 2019 MESH:C000657245
63 1222-1231 Disease denotes infection MESH:D007239
64 1482-1490 Disease denotes infected MESH:D007239
65 1624-1632 Disease denotes infected MESH:D007239
66 2031-2039 Disease denotes infected MESH:D007239
67 2149-2157 Disease denotes infected MESH:D007239
71 2538-2541 Gene denotes age Gene:5973
72 2184-2187 Gene denotes age Gene:5973
73 2631-2640 Disease denotes infection MESH:D007239
81 2969-2972 Gene denotes Age Gene:5973
82 2905-2913 Disease denotes infected MESH:D007239
83 2941-2949 Disease denotes infected MESH:D007239
84 3168-3174 Disease denotes ND ND MESH:C537849
85 3191-3197 Disease denotes ND ND MESH:C537849
86 3267-3287 Disease denotes ND ND ND     Fever MESH:C537849
87 3293-3334 Disease denotes ND ND     Cough 14 ND ND     Weakness MESH:C537849
89 2777-2785 Disease denotes COVID-19 MESH:C000657245
91 3623-3647 Disease denotes coronavirus disease 2019 MESH:C000657245
94 3847-3855 Disease denotes infected MESH:D007239
95 3876-3884 Disease denotes infected MESH:D007239
97 4460-4468 Disease denotes infected MESH:D007239
110 5061-5066 Disease denotes fever MESH:D005334
111 5080-5085 Disease denotes cough MESH:D003371
112 5105-5113 Disease denotes weakness MESH:D018908
113 5153-5162 Disease denotes headaches MESH:D006261
114 5174-5185 Disease denotes sore throat MESH:D010608
115 5191-5202 Disease denotes rhinorrhoea
116 5208-5227 Disease denotes shortness of breath MESH:D004417
117 5233-5240 Disease denotes myalgia MESH:D063806
118 5246-5255 Disease denotes diarrhoea MESH:D003967
119 5264-5270 Disease denotes nausea MESH:D009325
120 5276-5281 Disease denotes Fever MESH:D005334
121 5439-5460 Disease denotes respiratory infection MESH:D012141
125 5705-5710 Disease denotes obese MESH:D009765
126 5736-5751 Disease denotes cardiac disease MESH:D006331
127 5784-5791 Disease denotes dyspnea MESH:D004417
131 5976-5991 Disease denotes viral pneumonia
132 6125-6129 Disease denotes died MESH:D003643
133 6144-6148 Disease denotes died MESH:D003643

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 3380-3386 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T2 5179-5185 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T3 5302-5306 Body_part denotes sole http://purl.org/sig/ont/fma/fma25000

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 3380-3386 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341
T2 5179-5185 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T22 106-114 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T23 730-738 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T24 852-860 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T25 862-886 Disease denotes coronavirus disease 2019 http://purl.obolibrary.org/obo/MONDO_0100096
T26 1222-1231 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T27 2631-2640 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T28 2777-2785 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T29 3375-3386 Disease denotes Sore throat http://purl.obolibrary.org/obo/MONDO_0002258
T30 3613-3621 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T31 3623-3647 Disease denotes coronavirus disease 2019 http://purl.obolibrary.org/obo/MONDO_0100096
T32 5174-5185 Disease denotes sore throat http://purl.obolibrary.org/obo/MONDO_0002258
T33 5246-5255 Disease denotes diarrhoea http://purl.obolibrary.org/obo/MONDO_0001673
T34 5439-5460 Disease denotes respiratory infection http://purl.obolibrary.org/obo/MONDO_0024355
T35 5451-5460 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T36 5736-5751 Disease denotes cardiac disease http://purl.obolibrary.org/obo/MONDO_0005267
T37 5976-5991 Disease denotes viral pneumonia http://purl.obolibrary.org/obo/MONDO_0006012
T38 5982-5991 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T27 848-849 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T28 850-851 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T29 906-918 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T30 920-921 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T31 1136-1137 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T32 1320-1322 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T33 1430-1432 http://purl.obolibrary.org/obo/CLO_0001000 denotes 35
T34 1672-1673 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T35 1716-1717 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T36 2249-2253 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T37 2249-2253 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T38 2281-2285 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T39 2281-2285 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T40 2338-2343 http://purl.obolibrary.org/obo/UBERON_0003101 denotes males
T41 2338-2343 http://www.ebi.ac.uk/efo/EFO_0000970 denotes males
T42 2398-2403 http://purl.obolibrary.org/obo/UBERON_0003101 denotes males
T43 2398-2403 http://www.ebi.ac.uk/efo/EFO_0000970 denotes males
T44 2488-2492 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T45 2550-2555 http://purl.obolibrary.org/obo/UBERON_0003101 denotes males
T46 2550-2555 http://www.ebi.ac.uk/efo/EFO_0000970 denotes males
T47 2557-2559 http://purl.obolibrary.org/obo/CLO_0053799 denotes 45
T48 2567-2574 http://purl.obolibrary.org/obo/UBERON_0003100 denotes females
T49 2602-2606 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T50 2845-2846 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T51 3016-3018 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T52 3047-3051 http://purl.obolibrary.org/obo/CLO_0001407 denotes 5 2
T53 3078-3082 http://purl.obolibrary.org/obo/UBERON_0003101 denotes Male
T54 3078-3082 http://www.ebi.ac.uk/efo/EFO_0000970 denotes Male
T55 3088-3093 http://purl.obolibrary.org/obo/CLO_0001079 denotes 14 8
T56 3103-3109 http://purl.obolibrary.org/obo/UBERON_0003100 denotes Female
T57 3142-3144 http://purl.obolibrary.org/obo/CLO_0001000 denotes 35
T58 3579-3583 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T59 3696-3708 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T60 3710-3711 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T61 3782-3783 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T62 3796-3800 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T63 3897-3898 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T64 4033-4035 http://purl.obolibrary.org/obo/CLO_0001000 denotes 35
T65 4306-4307 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T66 4496-4497 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T67 4685-4686 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T68 4741-4742 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T69 4891-4897 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T70 4936-4942 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T71 5863-5864 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T72 6309-6310 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T2 2249-2253 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T3 2281-2285 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T4 3154-3156 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T5 3168-3170 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T6 3172-3174 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T7 3191-3193 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T8 3195-3197 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T9 3267-3269 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T10 3271-3273 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T11 3275-3277 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T12 3293-3295 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T13 3297-3299 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T14 3315-3317 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T15 3319-3321 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T16 3339-3341 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T17 3343-3345 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T18 3364-3366 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T19 3368-3370 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T20 3391-3393 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T21 3395-3397 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T22 3418-3420 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T23 3422-3424 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T24 3453-3455 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T25 3457-3459 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T26 3526-3528 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T27 3610-3612 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T28 3649-3651 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T24 0-50 Sentence denotes Epidemiology of first cases in the European Region
T25 51-192 Sentence denotes As at 09:00 on 21 February 2020, 47 confirmed cases of COVID-19 were reported in the WHO European Region and one of these cases had died [4].
T26 193-295 Sentence denotes Data on 38 of these cases (i.e. all except the nine reported in the UK) are included in this analysis.
T27 296-439 Sentence denotes The first three cases detected were reported in France on 24 January 2020 and had onset of symptoms on 17, 19 and 23 January respectively [10].
T28 440-494 Sentence denotes The first death was reported on 15 February in France.
T29 495-557 Sentence denotes As at 21 February, nine countries had reported cases (Figure):
T30 558-694 Sentence denotes Belgium (1), Finland (1), France (12), Germany (16), Italy (3), Russia (2), Spain (2), Sweden (1) and the UK (9 – not included further).
T31 695-851 Sentence denotes Figure Epidemic curve of reported COVID-19 cases by date of symptom onset, or date of notification, WHO European Region, as at 21 February 2020 (n = 38)a,b
T32 852-892 Sentence denotes COVID-19: coronavirus disease 2019; WHO:
T33 893-919 Sentence denotes World Health Organization.
T34 920-1012 Sentence denotes a Four cases were reported by Germany with unknown date of onset and unknown symptomatology.
T35 1013-1068 Sentence denotes Belgium and France reported one asymptomatic case each.
T36 1069-1135 Sentence denotes These cases are displayed according to their date of notification.
T37 1136-1208 Sentence denotes b The figure does not include nine cases reported in the United Kingdom.
T38 1209-1516 Sentence denotes The place of infection (assessed at national level based on an incubation period presumed to be up to 14 days [11], travel history and contact with probable or confirmed cases as per the case definition) was reported for 35 cases (missing for three cases), of whom 14 were infected in China (Hubei province:
T39 1517-1595 Sentence denotes 10 cases; Shandong province: one case; province not reported for three cases).
T40 1596-1643 Sentence denotes The remaining 21 cases were infected in Europe.
T41 1644-1758 Sentence denotes Of these, 14 were linked to a cluster in Bavaria, Germany, and seven to a cluster in Haute-Savoie, France [12,13].
T42 1759-1909 Sentence denotes Cases from the Bavarian cluster were reported from Germany and Spain, whereas cases from the Haute-Savoie cluster were reported from France and Spain.
T43 1910-2086 Sentence denotes Cases linked to the Haute Savoie cluster were also detected in the UK, including the index case of this cluster, who was infected in Singapore before travelling to France [14].
T44 2087-2172 Sentence denotes The index cases for the cluster in Bavaria was reported to be infected in China [15].
T45 2173-2224 Sentence denotes The median age of the 38 cases was 42 years (range:
T46 2225-2262 Sentence denotes 2–81 years) and 25 were male (Table).
T47 2263-2503 Sentence denotes The proportion of male cases was higher among cases acquired in Europe (14 males of 21 cases) compared with those acquired in China (8 males of 14 cases) although the difference was not statistically significant (chi-squared test: p = 0.6).
T48 2504-2556 Sentence denotes There was no difference in median age by sex (males:
T49 2557-2575 Sentence denotes 45 years; females:
T50 2576-2691 Sentence denotes 38 years, k-sample median test, p = 1.0) or by whether infection was acquired in Europe or not (acquired in Europe:
T51 2692-2720 Sentence denotes 47 years; acquired in China:
T52 2721-2740 Sentence denotes 38 years, p = 0.2).
T53 2741-2846 Sentence denotes Table Characteristics of confirmed COVID-19 cases, WHO European Region, as at 21 February 2020 (n = 38)a
T54 2847-2968 Sentence denotes Characteristics Number of cases overall Number of cases infected in Europe Number of cases infected in China p valueb
T55 2969-2987 Sentence denotes Age range in years
T56 2988-3011 Sentence denotes     0–17 4 3 0 0.08
T57 3012-3032 Sentence denotes     18–49 24 13 9
T58 3033-3051 Sentence denotes     50–64 7 5 2
T59 3052-3069 Sentence denotes     ≥ 65 3 0 3
T60 3070-3073 Sentence denotes Sex
T61 3074-3098 Sentence denotes     Male 25 14 8 0.6
T62 3099-3119 Sentence denotes     Female 13 7 6
T63 3120-3132 Sentence denotes Hospitalised
T64 3133-3156 Sentence denotes     Yes 35 21 14 ND
T65 3157-3174 Sentence denotes     No 2 ND ND
T66 3175-3197 Sentence denotes     Unknown 1 ND ND
T67 3198-3245 Sentence denotes Symptomsc (31 cases with available information)
T68 3246-3277 Sentence denotes     Asymptomatic 2 ND ND ND
T69 3278-3299 Sentence denotes     Fever 20 ND ND
T70 3300-3321 Sentence denotes     Cough 14 ND ND
T71 3322-3345 Sentence denotes     Weakness 8 ND ND
T72 3346-3370 Sentence denotes     Headaches 6 ND ND
T73 3371-3397 Sentence denotes     Sore throat 2 ND ND
T74 3398-3424 Sentence denotes     Rhinorrhoea 2 ND ND
T75 3425-3459 Sentence denotes     Shortness of breath 2 ND ND
T76 3460-3528 Sentence denotes Mean days from onset to hospitalisation(29 cases) 3.7 4.6 2.5 ND
T77 3529-3612 Sentence denotes Mean days from onset to first positive laboratory test(16 cases) 5.1 6.5 5.2 ND
T78 3613-3682 Sentence denotes COVID-19: coronavirus disease 2019; ND: not determined or known; WHO:
T79 3683-3709 Sentence denotes World Health Organization.
T80 3710-3781 Sentence denotes a The Table does not include nine cases reported in the United Kingdom.
T81 3782-3894 Sentence denotes b Chi-squared test for difference in distributions between cases infected in Europe and those infected in China.
T82 3895-3944 Sentence denotes c A single case could have more than one symptom.
T83 3945-3995 Sentence denotes Only symptoms reported by two or more cases shown.
T84 3996-4204 Sentence denotes All but two cases were hospitalised (35 of 37 where information on hospitalisation was reported), although it is likely that most were hospitalised to isolate the person rather than because of severe disease.
T85 4205-4349 Sentence denotes The time from onset of symptoms to hospitalisation (and isolation) ranged between 0 and 10 days with a mean of 3.7 days (reported for 29 cases).
T86 4350-4479 Sentence denotes The mean number of days to hospitalisation was 2.5 days for cases imported from China, but 4.6 days for those infected in Europe.
T87 4480-4588 Sentence denotes This was mostly a result of delays in identifying the index cases of the two clusters in France and Germany.
T88 4589-4777 Sentence denotes In the German cluster, for example, the first three cases detected locally were hospitalised in a mean of 5.7 days, whereas the following six took only a mean of 2 days to be hospitalised.
T89 4778-4840 Sentence denotes Symptoms at the point of diagnosis were reported for 31 cases.
T90 4841-4907 Sentence denotes Two cases were asymptomatic and remained so until tested negative.
T91 4908-5027 Sentence denotes The asymptomatic cases were tested as part of screening following repatriation and during contact tracing respectively.
T92 5028-5114 Sentence denotes Of the remaining 29, 20 reported fever, 14 reported cough and eight reported weakness.
T93 5115-5275 Sentence denotes Additional symptoms reported included headaches (6 cases), sore throat (2), rhinorrhoea (2), shortness of breath (2), myalgia (1), diarrhoea (1) and nausea (1).
T94 5276-5330 Sentence denotes Fever was reported as the sole symptom for nine cases.
T95 5331-5576 Sentence denotes In 16 of 29 symptomatic cases, the symptoms at diagnosis were consistent with the case definition for acute respiratory infection [16], although it is possible that cases presented additional symptoms after diagnosis and these were not reported.
T96 5577-5752 Sentence denotes Data on pre-existing conditions were reported for seven cases; five had no pre-existing conditions while one was reported to be obese and one had pre-existing cardiac disease.
T97 5753-5835 Sentence denotes No data on clinical signs e.g. dyspnea etc. were reported for any of the 38 cases.
T98 5836-5992 Sentence denotes All hospitalised cases had a benign clinical evolution except four, two reported in Italy and two reported in France, all of whom developed viral pneumonia.
T99 5993-6130 Sentence denotes All three cases who were aged 65 years or over were admitted to intensive care and required respiratory support and one French case died.
T100 6131-6245 Sentence denotes The case who died was hospitalised for 21 days and required intensive care and mechanical ventilation for 19 days.
T101 6246-6336 Sentence denotes The duration of hospitalisation was reported for 16 cases with a median of 13 days (range:
T102 6337-6348 Sentence denotes 8–23 days).
T103 6349-6408 Sentence denotes As at 21 February 2020, four cases were still hospitalised.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T2 3282-3287 Phenotype denotes Fever http://purl.obolibrary.org/obo/HP_0001945
T3 3304-3309 Phenotype denotes Cough http://purl.obolibrary.org/obo/HP_0012735
T4 3350-3359 Phenotype denotes Headaches http://purl.obolibrary.org/obo/HP_0002315
T5 3375-3386 Phenotype denotes Sore throat http://purl.obolibrary.org/obo/HP_0033050
T6 3429-3448 Phenotype denotes Shortness of breath http://purl.obolibrary.org/obo/HP_0002098
T7 5061-5066 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T8 5080-5085 Phenotype denotes cough http://purl.obolibrary.org/obo/HP_0012735
T9 5153-5162 Phenotype denotes headaches http://purl.obolibrary.org/obo/HP_0002315
T10 5174-5185 Phenotype denotes sore throat http://purl.obolibrary.org/obo/HP_0033050
T11 5208-5227 Phenotype denotes shortness of breath http://purl.obolibrary.org/obo/HP_0002098
T12 5233-5240 Phenotype denotes myalgia http://purl.obolibrary.org/obo/HP_0003326
T13 5246-5255 Phenotype denotes diarrhoea http://purl.obolibrary.org/obo/HP_0002014
T14 5264-5270 Phenotype denotes nausea http://purl.obolibrary.org/obo/HP_0002018
T15 5276-5281 Phenotype denotes Fever http://purl.obolibrary.org/obo/HP_0001945
T16 5439-5460 Phenotype denotes respiratory infection http://purl.obolibrary.org/obo/HP_0011947
T17 5784-5791 Phenotype denotes dyspnea http://purl.obolibrary.org/obo/HP_0002094
T18 5982-5991 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

2_test

Id Subject Object Predicate Lexical cue
32156327-32070465-29326677 435-437 32070465 denotes 10
32156327-32046819-29326678 1320-1322 32046819 denotes 11

MyTest

Id Subject Object Predicate Lexical cue
32156327-32070465-29326677 435-437 32070465 denotes 10
32156327-32046819-29326678 1320-1322 32046819 denotes 11