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PMC:7014668 / 1849-6884 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
35 42-51 Disease denotes infection MESH:D007239
43 84-102 Disease denotes 2019-nCoV infected MESH:C000657245
44 360-368 Disease denotes infected MESH:D007239
45 414-419 Disease denotes fever MESH:D005334
46 665-674 Disease denotes infection MESH:D007239
47 813-821 Disease denotes infected MESH:D007239
48 986-994 Disease denotes infected MESH:D007239
49 1259-1269 Disease denotes infections MESH:D007239
52 1959-1968 Species denotes 2019-nCoV Tax:2697049
53 1863-1873 Disease denotes infections MESH:D007239
57 1532-1549 Species denotes novel coronavirus Tax:2697049
58 1551-1560 Species denotes 2019-nCoV Tax:2697049
59 1518-1526 Disease denotes infected MESH:D007239
64 2402-2411 Disease denotes infection MESH:D007239
65 2961-2970 Disease denotes infection MESH:D007239
66 3006-3011 Disease denotes fever MESH:D005334
67 3191-3200 Disease denotes infection MESH:D007239
72 3718-3735 Species denotes novel coronavirus Tax:2697049
73 3737-3746 Species denotes 2019-nCoV Tax:2697049
74 3670-3679 Disease denotes infection MESH:D007239
75 3704-3712 Disease denotes infected MESH:D007239
77 3780-3789 Disease denotes infection MESH:D007239
81 4420-4437 Species denotes novel coronavirus Tax:2697049
82 4439-4448 Species denotes 2019-nCoV Tax:2697049
83 4406-4414 Disease denotes infected MESH:D007239
85 5025-5034 Disease denotes infection MESH:D007239

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T10 42-51 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T11 84-102 Disease denotes 2019-nCoV infected http://purl.obolibrary.org/obo/MONDO_0100096
T12 665-674 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T13 792-802 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T14 1259-1269 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T15 1863-1873 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T16 2402-2411 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T17 2961-2970 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T18 3191-3200 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T19 3670-3679 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T20 3780-3789 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T21 5025-5034 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T7 132-133 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T8 156-157 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T9 191-192 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T10 267-268 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T11 530-531 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T12 1655-1657 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T13 1957-1958 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T14 1985-1987 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T15 2991-2994 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T16 4249-4250 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T17 4628-4629 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T18 4642-4643 http://purl.obolibrary.org/obo/CLO_0001021 denotes b

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 4802-4807 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T2 134-140 http://purl.obolibrary.org/obo/GO_0060361 denotes flight
T3 250-256 http://purl.obolibrary.org/obo/GO_0060361 denotes flight
T4 2781-2787 http://purl.obolibrary.org/obo/GO_0060361 denotes flight

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T14 0-66 Sentence denotes Simulation of travellers at each stage of infection with 2019-nCoV
T15 67-204 Sentence denotes We simulated 100 2019-nCoV infected travellers planning to board a flight who would pose a risk for seeding transmission in a new region.
T16 205-343 Sentence denotes The duration of travel was considered as the flight time plus a small amount of additional travel time (ca 1 hour) for airport procedures.
T17 344-585 Sentence denotes We assumed that infected individuals will develop symptoms, including fever, at the end of their incubation period (mean 5.2 days (Table)) [8] and progress to more severe symptoms after a few days, resulting in hospitalisation and isolation.
T18 586-949 Sentence denotes We also took into account that individuals may have asymptomatic (subclinical) infection that would not be detected by thermal scanning or cause them to seek medical care, although these individuals may be infectious, and that infected travellers may exhibit severe symptoms during their travel and be hospitalised upon arrival without undergoing entry screening.
T19 950-1361 Sentence denotes We then estimated the proportion of infected travellers who would be detected by exit and entry screening, develop severe symptoms during travel, or go undetected, under varying assumptions of: (i) the duration of travel; (ii) the sensitivity of exit and entry screening; (iii) the proportion of asymptomatic infections; (iv) the incubation period and (v) the time from symptom onset to hospitalisation (Table).
T20 1362-1561 Sentence denotes Table Parameter values and assumptions for the baseline scenario estimating effectiveness of exit and entry screening at airports for detecting passengers infected with novel coronavirus (2019-nCoV)
T21 1562-1606 Sentence denotes Parameter Value (baseline scenario) Source
T22 1607-1658 Sentence denotes Duration of travel 12 hours Beijing – London [18]
T23 1659-1746 Sentence denotes Sensitivity of exit screening 86% Sensitivity of infrared thermal image scanners [19]
T24 1747-1835 Sentence denotes Sensitivity of entry screening 86% Sensitivity of infrared thermal image scanners [19]
T25 1836-1988 Sentence denotes Proportion of asymptomatic infections undetectable by typical screening procedures 17% 1 of 6 reported asymptomatic in a 2019-nCoV family cluster [11]
T26 1989-2131 Sentence denotes Incubation period Mean 5.2 days, variance 4.1 days Reported Gamma distributed mean, variance estimated from uncertainty interval of mean [8]
T27 2132-2540 Sentence denotes Time from symptom onset to hospitalisation Mean 9.1 days, variance 14.7 days Reported Gamma distributed mean, variance estimated from uncertainty interval of mean [8] We assume that the time of starting travel is randomly and uniformly distributed between the time of infection and twice the expected time to severe disease, ensuring that simulated travellers are travelling during their incubation period.
T28 2541-2687 Sentence denotes However, we only consider those travellers who depart before their symptoms progress to being so severe that they would require hospital care [8].
T29 2688-2902 Sentence denotes We simulate travellers with individual incubation period, time from onset to severe disease, flight start times and detection success at exit and entry screening according to the screening sensitivities (Figure 1).
T30 2903-3131 Sentence denotes An individual will be detected at exit screening if their infection is symptomatic i.e. has detectable fever, their departure time exceeds their incubation period, and their stochastic exit screening success indicates detection.
T31 3132-3416 Sentence denotes An individual will be detected at entry screening if their infection is symptomatic, their incubation period ends after their departure but before their arrival, they have not been detected at exit screening, and their entry screening result is positive despite imperfect sensitivity.
T32 3417-3572 Sentence denotes Entry screening detections are further divided into detection due to severe symptoms and detection of mild symptoms via equipment such as thermal scanners.
T33 3573-3649 Sentence denotes We used 10,000 bootstrap samples to calculate 95% confidence intervals (CI).
T34 3650-3747 Sentence denotes Figure 1 Simulated infection histories of travellers infected with novel coronavirus (2019-nCoV)
T35 3748-3867 Sentence denotes The incubation period begins on infection and travellers then progress to being symptomatic and having severe symptoms.
T36 3868-4029 Sentence denotes Travellers may fly at any point within the incubation or symptomatic phases; any would-be travellers who show (severe) symptoms and are hospitalised before exit.
T37 4030-4162 Sentence denotes Vertical lines represent the exit screening at start of travel (solid) and entry screening at end of travel (dashed) 12 hours later.
T38 4163-4334 Sentence denotes The model code is available via GitHub [9] and the results can be further explored in a Shiny app [10] at https://cmmid-lshtm.shinyapps.io/traveller_screening/ (Figure 2).
T39 4335-4627 Sentence denotes Figure 2 Screenshot of Shiny appa displaying the number of travellers infected with novel coronavirus (2019-nCoV) detected at airport exit and entry screening with baseline assumptionsb, 95% bootstrap confidence intervals, time distributions for incubation period and time to severe disease*
T40 4628-4641 Sentence denotes a Source [9].
T41 4642-4688 Sentence denotes b Baseline assumptions according to the Table.
T42 4689-4848 Sentence denotes Results are from stochastic simulation, and so there may be small variations in the number of travellers in each group when the same parameters are used twice.
T43 4849-5035 Sentence denotes Sliders are provided to modify the duration of travel, the sensitivity of both exit and entry screening, the proportion symptomatic, and the natural history parameters for the infection.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 414-419 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T2 3006-3011 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945

2_test

Id Subject Object Predicate Lexical cue
32046816-31995857-29321262 484-485 31995857 denotes 8
32046816-21245928-29321263 1743-1745 21245928 denotes 19
32046816-21245928-29321264 1832-1834 21245928 denotes 19
32046816-31986261-29321265 1985-1987 31986261 denotes 11
32046816-31995857-29321266 2129-2130 31995857 denotes 8
32046816-31995857-29321267 2298-2299 31995857 denotes 8
32046816-31995857-29321268 2684-2685 31995857 denotes 8

MyTest

Id Subject Object Predicate Lexical cue
32046816-31995857-29321262 484-485 31995857 denotes 8
32046816-21245928-29321263 1743-1745 21245928 denotes 19
32046816-21245928-29321264 1832-1834 21245928 denotes 19
32046816-31986261-29321265 1985-1987 31986261 denotes 11
32046816-31995857-29321266 2129-2130 31995857 denotes 8
32046816-31995857-29321267 2298-2299 31995857 denotes 8
32046816-31995857-29321268 2684-2685 31995857 denotes 8