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PMC:7464116 / 1475-4523 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T8 2445-2453 Body_part denotes alveolar http://purl.org/sig/ont/fma/fma264783
T9 2492-2498 Body_part denotes kidney http://purl.org/sig/ont/fma/fma7203
T10 2569-2575 Body_part denotes kidney http://purl.org/sig/ont/fma/fma7203
T11 2698-2704 Body_part denotes kidney http://purl.org/sig/ont/fma/fma7203
T12 2985-2991 Body_part denotes kidney http://purl.org/sig/ont/fma/fma7203

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T7 2492-2498 Body_part denotes kidney http://purl.obolibrary.org/obo/UBERON_0002113
T8 2569-2575 Body_part denotes kidney http://purl.obolibrary.org/obo/UBERON_0002113
T9 2698-2704 Body_part denotes kidney http://purl.obolibrary.org/obo/UBERON_0002113
T10 2985-2991 Body_part denotes kidney http://purl.obolibrary.org/obo/UBERON_0002113

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T32 51-60 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T33 267-314 Disease denotes severe acute respiratory syndrome-coronavirus-2 http://purl.obolibrary.org/obo/MONDO_0100096
T34 267-300 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T35 316-324 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T36 316-320 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T37 393-426 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T38 428-432 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T39 507-515 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T40 507-511 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T41 559-583 Disease denotes coronavirus disease 2019 http://purl.obolibrary.org/obo/MONDO_0100096
T42 588-596 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T43 795-803 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T44 1740-1748 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T45 1987-1990 Disease denotes flu http://purl.obolibrary.org/obo/MONDO_0005812
T46 2063-2071 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T47 2156-2165 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T48 2192-2211 Disease denotes respiratory failure http://purl.obolibrary.org/obo/MONDO_0021113
T49 2268-2290 Disease denotes venous thromboembolism http://purl.obolibrary.org/obo/MONDO_0005399
T50 2292-2295 Disease denotes VTE http://purl.obolibrary.org/obo/MONDO_0005399
T51 2307-2313 Disease denotes stroke http://purl.obolibrary.org/obo/MONDO_0005098|http://purl.obolibrary.org/obo/MONDO_0011057
T53 2318-2341 Disease denotes acute coronary syndrome http://purl.obolibrary.org/obo/MONDO_0005542
T54 2348-2369 Disease denotes myocardial infarction http://purl.obolibrary.org/obo/MONDO_0005068
T55 2424-2432 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T56 2465-2490 Disease denotes acute respiratory failure http://purl.obolibrary.org/obo/MONDO_0001208|http://purl.obolibrary.org/obo/MONDO_0021113
T58 2563-2582 Disease denotes acute kidney injury http://purl.obolibrary.org/obo/MONDO_0002492
T59 2576-2582 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T60 2584-2587 Disease denotes AKI http://purl.obolibrary.org/obo/MONDO_0002492
T61 2613-2621 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T62 2613-2617 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T63 2690-2712 Disease denotes chronic kidney disease http://purl.obolibrary.org/obo/MONDO_0005300
T64 2698-2712 Disease denotes kidney disease http://purl.obolibrary.org/obo/MONDO_0001343|http://purl.obolibrary.org/obo/MONDO_0005240
T66 2714-2717 Disease denotes CKD http://purl.obolibrary.org/obo/MONDO_0005300
T67 2763-2771 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T68 2860-2868 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T69 2869-2878 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T70 2985-3000 Disease denotes kidney diseases http://purl.obolibrary.org/obo/MONDO_0001343|http://purl.obolibrary.org/obo/MONDO_0005240
T72 3021-3029 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T26 183-195 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T27 240-241 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T28 478-485 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T29 743-744 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T30 1386-1389 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T31 1458-1461 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T32 1471-1472 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T33 1576-1581 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T34 1590-1593 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T35 1676-1679 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T36 1738-1739 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T37 1765-1768 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T38 1835-1836 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T39 1985-1986 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T40 2022-2025 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T41 2171-2172 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T42 2371-2373 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T43 2492-2498 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney
T44 2492-2498 http://www.ebi.ac.uk/efo/EFO_0000927 denotes kidney
T45 2492-2498 http://www.ebi.ac.uk/efo/EFO_0000929 denotes kidney
T46 2510-2513 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T47 2569-2575 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney
T48 2569-2575 http://www.ebi.ac.uk/efo/EFO_0000927 denotes kidney
T49 2569-2575 http://www.ebi.ac.uk/efo/EFO_0000929 denotes kidney
T50 2698-2704 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney
T51 2698-2704 http://www.ebi.ac.uk/efo/EFO_0000927 denotes kidney
T52 2698-2704 http://www.ebi.ac.uk/efo/EFO_0000929 denotes kidney
T53 2720-2722 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T54 2746-2754 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney’s
T55 2746-2754 http://www.ebi.ac.uk/efo/EFO_0000927 denotes kidney’s
T56 2746-2754 http://www.ebi.ac.uk/efo/EFO_0000929 denotes kidney’s
T57 2806-2809 http://purl.obolibrary.org/obo/PR_000001343 denotes aim
T58 2985-2991 http://purl.obolibrary.org/obo/UBERON_0002113 denotes kidney
T59 2985-2991 http://www.ebi.ac.uk/efo/EFO_0000927 denotes kidney
T60 2985-2991 http://www.ebi.ac.uk/efo/EFO_0000929 denotes kidney

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T11 0-2 Sentence denotes 1.
T12 3-15 Sentence denotes Introduction
T13 16-143 Sentence denotes By December 2019, unusual cases of pneumonia had been reported in the city of Wuhan, located in central China’s Hubei province.
T14 144-492 Sentence denotes On January 12th 2020, the World Health Organization (WHO) stated that the disease was caused by a novel coronavirus, named severe acute respiratory syndrome-coronavirus-2 (SARS-CoV-2), belonging to the β-coronavirus cluster, which also includes the severe acute respiratory syndrome (SARS) and Middle East respiratory syndrome (MERS) viruses [1,2].
T15 493-761 Sentence denotes The resulting SARS-CoV-2 related disease was defined as the novel coronavirus disease 2019, or COVID-19, that rapidly spread throughout China, followed by an increasing number of cases in all continents with the exception of Antarctica, resulting in a global pandemic.
T16 762-819 Sentence denotes The data of the global burden of COVID-19 are impressive.
T17 820-1030 Sentence denotes Indeed, currently (available data up to 23 July 2020) the coronavirus is affecting 212 countries and territories around the world, with over 15 million cases and over 630,000 confirmed deaths (global mortality:
T18 1031-1043 Sentence denotes 5.4%) [3,4].
T19 1044-1114 Sentence denotes The Americas and Europe are the most affected continents in the world.
T20 1115-1216 Sentence denotes In the United States of America (U.S.A.), 4,103,674 cases and over 146,000 deaths have been reported.
T21 1217-1345 Sentence denotes In Europe, many outbreaks are steadily rising in Russia, Spain, UK and Italy, with over 200,000 overall deaths in the continent.
T22 1346-1444 Sentence denotes However, in China the rate of new cases has progressively decreased substantially since March [3].
T23 1445-1496 Sentence denotes The pandemic has also had a severe economic impact.
T24 1497-1761 Sentence denotes In fact, to help improve the clinical management of patients infected with the virus, Europe has mobilized more than 10 million euros from research funding and the United Kingdom has also invested £20,000,000 to allow for the development of a COVID-19 vaccine [5].
T25 1762-2375 Sentence denotes It has also been estimated that in the U.S.A., the health care costs for a single infected patient is over $3000, resulting in an overall predicted expenditure of $654.0 billion over the entire period of the pandemic [6,7].A flu-like syndrome of mild severity has been observed in most cases (80%) of COVID-19 [8,9], but in 20% of cases there have been other complications such as interstitial pneumonia with a variable degree of respiratory failure [10] as well as thromboembolic complications, including venous thromboembolism (VTE), ischemic stroke and acute coronary syndrome (ACS)/myocardial infarction [11].
T26 2376-2624 Sentence denotes Although the principal features associated with COVID-19 are diffuse alveolar damage and acute respiratory failure, kidney impairment has also often developed, with the frequent onset of acute kidney injury (AKI) in patients infected by SARS-CoV-2.
T27 2625-2724 Sentence denotes In addition, more than 20% of deceased patients were affected by chronic kidney disease (CKD) [11].
T28 2725-2801 Sentence denotes For this reason, the kidney’s role in COVID-19 needs to be investigated [8].
T29 2802-3048 Sentence denotes The aim of this review is to describe the main aspects of COVID-19 infection, namely the epidemiology and pathophysiology, together with prevention strategies and the contribution of kidney diseases to the prognosis of COVID-19 affected patients.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T12 51-60 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T13 2156-2165 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T14 2192-2211 Phenotype denotes respiratory failure http://purl.obolibrary.org/obo/HP_0002878
T15 2228-2242 Phenotype denotes thromboembolic http://purl.obolibrary.org/obo/HP_0001907
T16 2275-2290 Phenotype denotes thromboembolism http://purl.obolibrary.org/obo/HP_0001907
T17 2298-2313 Phenotype denotes ischemic stroke http://purl.obolibrary.org/obo/HP_0002140
T18 2348-2369 Phenotype denotes myocardial infarction http://purl.obolibrary.org/obo/HP_0001658
T19 2437-2460 Phenotype denotes diffuse alveolar damage http://purl.obolibrary.org/obo/HP_0033006
T20 2471-2490 Phenotype denotes respiratory failure http://purl.obolibrary.org/obo/HP_0002878
T21 2563-2582 Phenotype denotes acute kidney injury http://purl.obolibrary.org/obo/HP_0001919
T22 2584-2587 Phenotype denotes AKI http://purl.obolibrary.org/obo/HP_0001919
T23 2690-2712 Phenotype denotes chronic kidney disease http://purl.obolibrary.org/obo/HP_0012622
T24 2714-2717 Phenotype denotes CKD http://purl.obolibrary.org/obo/HP_0012622
T25 2985-3000 Phenotype denotes kidney diseases http://purl.obolibrary.org/obo/HP_0000112

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
55 242-259 Species denotes novel coronavirus Tax:2697049
56 267-314 Species denotes severe acute respiratory syndrome-coronavirus-2 Tax:2697049
57 316-326 Species denotes SARS-CoV-2 Tax:2697049
58 346-359 Species denotes β-coronavirus Tax:694002
59 51-60 Disease denotes pneumonia MESH:D011014
60 438-470 Disease denotes Middle East respiratory syndrome MESH:D018352
61 472-476 Disease denotes MERS MESH:D018352
65 507-517 Species denotes SARS-CoV-2 Tax:2697049
66 559-583 Disease denotes coronavirus disease 2019 MESH:C000657245
67 588-596 Disease denotes COVID-19 MESH:C000657245
72 878-889 Species denotes coronavirus Tax:11118
73 795-803 Disease denotes COVID-19 MESH:C000657245
74 1005-1011 Disease denotes deaths MESH:D003643
75 1020-1029 Disease denotes mortality MESH:D003643
110 1549-1557 Species denotes patients Tax:9606
111 1625-1630 Species denotes euros Tax:9319
112 1853-1860 Species denotes patient Tax:9606
113 2592-2600 Species denotes patients Tax:9606
114 2613-2623 Species denotes SARS-CoV-2 Tax:2697049
115 2664-2672 Species denotes patients Tax:9606
116 3039-3047 Species denotes patients Tax:9606
117 1190-1196 Disease denotes deaths MESH:D003643
118 1321-1327 Disease denotes deaths MESH:D003643
119 1558-1566 Disease denotes infected MESH:D007239
120 1740-1748 Disease denotes COVID-19 MESH:C000657245
121 1844-1852 Disease denotes infected MESH:D007239
122 1987-2004 Disease denotes flu-like syndrome MESH:D007251
123 2063-2071 Disease denotes COVID-19 MESH:C000657245
124 2143-2165 Disease denotes interstitial pneumonia MESH:D009395
125 2192-2211 Disease denotes respiratory failure MESH:D012131
126 2228-2256 Disease denotes thromboembolic complications MESH:D013923
127 2268-2290 Disease denotes venous thromboembolism MESH:D054556
128 2292-2295 Disease denotes VTE MESH:D054556
129 2298-2341 Disease denotes ischemic stroke and acute coronary syndrome MESH:D020521
130 2348-2369 Disease denotes myocardial infarction MESH:D009203
131 2424-2432 Disease denotes COVID-19 MESH:C000657245
132 2445-2460 Disease denotes alveolar damage MESH:D055370
133 2471-2490 Disease denotes respiratory failure MESH:D012131
134 2492-2509 Disease denotes kidney impairment MESH:D007674
135 2563-2582 Disease denotes acute kidney injury MESH:D058186
136 2601-2609 Disease denotes infected MESH:D007239
137 2690-2712 Disease denotes chronic kidney disease MESH:D051436
138 2714-2717 Disease denotes CKD MESH:D012080
139 2763-2771 Disease denotes COVID-19 MESH:C000657245
140 2860-2868 Disease denotes COVID-19 MESH:C000657245
141 2869-2878 Disease denotes infection MESH:D007239
142 2985-3000 Disease denotes kidney diseases MESH:D007674
143 3021-3029 Disease denotes COVID-19 MESH:C000657245

2_test

Id Subject Object Predicate Lexical cue
32759645-31978945-58096132 489-490 31978945 denotes 2
32759645-32169574-58096133 1758-1759 32169574 denotes 5
32759645-32335410-58096134 1982-1983 32335410 denotes 7
32759645-32007143-58096135 2075-2076 32007143 denotes 9
32759645-32236465-58096136 2213-2215 32236465 denotes 10
32759645-32312654-58096137 2371-2373 32312654 denotes 11
32759645-32312654-58096138 2720-2722 32312654 denotes 11