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PMC:7127067 / 1591-6158 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T2 91-109 Body_part denotes respiratory system http://purl.org/sig/ont/fma/fma7158

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 91-109 Body_part denotes respiratory system http://purl.obolibrary.org/obo/UBERON_0001004

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T17 166-199 Disease denotes severe acute respiratory syndrome http://purl.obolibrary.org/obo/MONDO_0005091
T18 201-205 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T19 453-462 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T20 768-776 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T21 909-917 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T22 918-928 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T23 1083-1118 Disease denotes acute respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0006502
T24 1089-1118 Disease denotes respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0009971
T25 1255-1263 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T26 1264-1273 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T27 1343-1351 Disease denotes diabetes http://purl.obolibrary.org/obo/MONDO_0005015
T28 1353-1393 Disease denotes hypertension, and cardiovascular disease http://purl.obolibrary.org/obo/MONDO_0001302
T29 1353-1365 Disease denotes hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T30 1371-1393 Disease denotes cardiovascular disease http://purl.obolibrary.org/obo/MONDO_0004995
T31 1475-1495 Disease denotes nosocomial infection http://purl.obolibrary.org/obo/MONDO_0043544
T32 1486-1495 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T33 1523-1531 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T34 1955-1963 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T35 2219-2227 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T36 2821-2829 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T37 2830-2839 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T38 3053-3062 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T39 3147-3155 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T40 3429-3438 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T41 3771-3780 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T42 3879-3888 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T43 4300-4308 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T44 4309-4319 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T45 4362-4370 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T46 4511-4520 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T8 85-90 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T9 91-109 http://purl.obolibrary.org/obo/UBERON_0001004 denotes respiratory system
T10 323-324 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T11 376-377 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T12 535-536 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T13 553-559 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T14 653-654 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T15 708-709 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T16 798-800 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T17 1010-1012 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T18 1174-1176 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41
T19 1539-1540 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T20 1561-1566 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T21 1800-1806 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T22 1895-1897 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T23 1905-1906 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T24 2127-2129 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T25 2158-2159 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T26 2251-2252 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T27 2490-2491 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T28 3084-3086 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T29 3116-3121 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T30 3125-3130 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T31 3252-3255 http://purl.obolibrary.org/obo/CL_0000990 denotes CDC
T32 3256-3259 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T33 3406-3412 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T34 3442-3444 http://purl.obolibrary.org/obo/CLO_0053794 denotes 41
T35 3484-3490 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T36 3608-3609 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T37 3949-3961 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organisation
T38 4141-4144 http://purl.obolibrary.org/obo/CLO_0051582 denotes has

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T3 710-722 http://purl.obolibrary.org/obo/GO_0000003 denotes reproduction

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T15 0-15 Sentence denotes 1 Introduction
T16 16-110 Sentence denotes Coronavirus is one of the major pathogens that primarily targets the human respiratory system.
T17 111-352 Sentence denotes Previous outbreaks of coronaviruses (CoVs) include the severe acute respiratory syndrome (SARS)-CoV and the Middle East respiratory syndrome (MERS)-CoV which have been previously characterized as agents that are a great public health threat.
T18 353-486 Sentence denotes In late December 2019, a cluster of patients was admitted to hospitals with an initial diagnosis of pneumonia of an unknown etiology.
T19 487-615 Sentence denotes These patients were epidemiologically linked to a seafood and wet animal wholesale market in Wuhan, Hubei Province, China [1,2].
T20 616-890 Sentence denotes Early reports predicted the onset of a potential Coronavirus outbreak given the estimate of a reproduction number for the 2019 Novel (New) Coronavirus (COVID-19, named by WHO on Feb 11, 2020) which was deemed to be significantly larger than 1 (ranges from 2.24 to 3.58) [3].
T21 891-943 Sentence denotes The chronology of COVID-19 infections is as follows.
T22 944-995 Sentence denotes The first cases were reported in December 2019 [4].
T23 996-1153 Sentence denotes From December 18, 2019 through December 29, 2019, five patients were hospitalized with acute respiratory distress syndrome and one of these patients died[5].
T24 1154-1398 Sentence denotes By January 2, 2020, 41 admitted hospital patients had been identified as having laboratory-confirmed COVID-19 infection, less than half of these patients had underlying diseases, including diabetes, hypertension, and cardiovascular disease [6].
T25 1399-1496 Sentence denotes These patients were presumed to be infected in that hospital, likely due to nosocomial infection.
T26 1497-1742 Sentence denotes It was concluded that the COVID-19 is not a super-hot spreading virus (spread by one patient to many others), but rather likely spread due to many patients getting infected at various locations throughout the hospital through unknown mechanisms.
T27 1743-1880 Sentence denotes In addition, only patients that got clinically sick were tested, thus there were likely many more patients that were presumably infected.
T28 1881-2031 Sentence denotes As of January 22, 2020, a total of 571 cases of the 2019-new coronavirus (COVID-19) were reported in 25 provinces (districts and cities) in China [7].
T29 2032-2136 Sentence denotes The China National Health Commission reported the details of the first 17 deaths up to January 22, 2020.
T30 2137-2276 Sentence denotes On January 25, 2020, a total of 1975 cases were confirmed to be infected with the COVID-19 in mainland China with a total of 56 deaths [8].
T31 2277-2377 Sentence denotes Another report on January 24, 2020 estimated the cumulative incidence in China to be 5502 cases [9].
T32 2378-2736 Sentence denotes As of January 30, 2020, 7734 cases have been confirmed in China and 90 other cases have also been reported from a number of countries that include Taiwan, Thailand, Vietnam, Malaysia, Nepal, Sri Lanka, Cambodia, Japan, Singapore, Republic of Korea, United Arab Emirates, United States, The Philippines, India, Australia, Canada, Finland, France, and Germany.
T33 2737-2802 Sentence denotes The case fatality rate was calculated to be 2.2% (170/7824) [10].
T34 2803-2967 Sentence denotes The first case of COVID-19 infection confirmed in the United States led to the description, identification, diagnosis, clinical course, and management of this case.
T35 2968-3088 Sentence denotes This includes the patient's initial mild symptoms at presentation and progression to pneumonia on day 9 of illness [11].
T36 3089-3247 Sentence denotes Further, the first case of human-to-human transmission of COVID-19 was reported in the US on January 30, 2020 (https://www.cdc.gov/media/releases/2020/p0130).
T37 3248-3345 Sentence denotes The CDC has so far screened >30,000 passengers arriving at US airports for the novel coronavirus.
T38 3346-3463 Sentence denotes Following such initial screening, 443 individuals have been tested for coronavirus infection in 41 states in the USA.
T39 3464-3607 Sentence denotes Only 15 (3.1%) were tested positive, 347 were negative and results on the remaining 81 are pending (https://www.cdc.gov/coronavirus/2019-ncov).
T40 3608-3889 Sentence denotes A report published in Nature revealed that Chinese health authorities concluded that as of February 7, 2019, there have been 31,161 people who have contracted the infection in China, and more than 630 people have died (http://www.nature.com/articles/d41586-020-00154) of infection.
T41 3890-4061 Sentence denotes At the time of preparing this manuscript, the World Health Organisation (WHO) reported 51,174 confirmed cases including 15, 384 severe cases and 1666 death cases in China.
T42 4062-4259 Sentence denotes Globally, the number of confirmed cases as of this writing (February 16, 2020) has reached 51,857 in 25 countries (https://www.who.int/docs/default-source/coronaviruse/situation-reports) (Fig. 1 ).
T43 4260-4345 Sentence denotes Figure 1 The chronological incidence of COVID-19 infections and death cases in China.
T44 4346-4396 Sentence denotes Infections with COVID-19 appears in December 2019.
T45 4397-4567 Sentence denotes At the time of preparing this manuscript, February 16, 2020 there have been 51,174 people who have contracted the infection in China, and more than 1666 people have died.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T3 453-462 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T4 1089-1109 Phenotype denotes respiratory distress http://purl.obolibrary.org/obo/HP_0002098
T5 1353-1365 Phenotype denotes hypertension http://purl.obolibrary.org/obo/HP_0000822
T6 1371-1393 Phenotype denotes cardiovascular disease http://purl.obolibrary.org/obo/HP_0001626
T7 3053-3062 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

2_test

Id Subject Object Predicate Lexical cue
32113704-32003000-131566395 2798-2800 32003000 denotes 10
32113704-32003000-131566395 2798-2800 32003000 denotes 10
32113704-31950516-55638553 612-613 31950516 denotes 2
32113704-31950516-55638553 612-613 31950516 denotes 2
32113704-31986264-55638554 1395-1396 31986264 denotes 6
32113704-31986264-55638554 1395-1396 31986264 denotes 6
32113704-31994742-55638555 2273-2274 31994742 denotes 8
32113704-31994742-55638555 2273-2274 31994742 denotes 8

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
69 16-27 Species denotes Coronavirus Tax:11118
70 85-90 Species denotes human Tax:9606
71 133-146 Species denotes coronaviruses Tax:11118
72 148-152 Species denotes CoVs Tax:11118
73 166-210 Species denotes severe acute respiratory syndrome (SARS)-CoV Tax:694009
74 253-262 Species denotes MERS)-CoV Tax:1335626
75 389-397 Species denotes patients Tax:9606
76 493-501 Species denotes patients Tax:9606
77 665-676 Species denotes Coronavirus Tax:11118
78 750-766 Species denotes New) Coronavirus Tax:2697049
79 219-251 Disease denotes Middle East respiratory syndrome MESH:D018352
80 453-462 Disease denotes pneumonia MESH:D011014
81 768-776 Disease denotes COVID-19 MESH:C000657245
91 4480-4486 Species denotes people Tax:9606
92 4550-4556 Species denotes people Tax:9606
93 4300-4308 Disease denotes COVID-19 MESH:C000657245
94 4309-4319 Disease denotes infections MESH:D007239
95 4324-4329 Disease denotes death MESH:D003643
96 4346-4356 Disease denotes Infections MESH:D007239
97 4362-4370 Disease denotes COVID-19 MESH:C000657245
98 4511-4520 Disease denotes infection MESH:D007239
99 4562-4566 Disease denotes died MESH:D003643
145 1051-1059 Species denotes patients Tax:9606
146 1136-1144 Species denotes patients Tax:9606
147 1195-1203 Species denotes patients Tax:9606
148 1299-1307 Species denotes patients Tax:9606
149 1405-1413 Species denotes patients Tax:9606
150 1582-1589 Species denotes patient Tax:9606
151 1644-1652 Species denotes patients Tax:9606
152 1761-1769 Species denotes patients Tax:9606
153 1841-1849 Species denotes patients Tax:9606
154 1933-1953 Species denotes 2019-new coronavirus Tax:2697049
155 2986-2993 Species denotes patient Tax:9606
156 3116-3121 Species denotes human Tax:9606
157 3125-3130 Species denotes human Tax:9606
158 3327-3344 Species denotes novel coronavirus Tax:2697049
159 3584-3605 Species denotes coronavirus/2019-ncov Tax:2697049
160 3740-3746 Species denotes people Tax:9606
161 3809-3815 Species denotes people Tax:9606
162 909-917 Disease denotes COVID-19 MESH:C000657245
163 918-928 Disease denotes infections MESH:D007239
164 1083-1118 Disease denotes acute respiratory distress syndrome MESH:D012128
165 1145-1149 Disease denotes died MESH:D003643
166 1255-1263 Disease denotes COVID-19 MESH:C000657245
167 1264-1273 Disease denotes infection MESH:D007239
168 1343-1351 Disease denotes diabetes MESH:D003920
169 1353-1365 Disease denotes hypertension MESH:D006973
170 1371-1393 Disease denotes cardiovascular disease MESH:D002318
171 1434-1442 Disease denotes infected MESH:D007239
172 1475-1495 Disease denotes nosocomial infection MESH:D003428
173 1523-1531 Disease denotes COVID-19 MESH:C000657245
174 1661-1669 Disease denotes infected MESH:D007239
175 1871-1879 Disease denotes infected MESH:D007239
176 1955-1963 Disease denotes COVID-19 MESH:C000657245
177 2106-2112 Disease denotes deaths MESH:D003643
178 2201-2209 Disease denotes infected MESH:D007239
179 2219-2227 Disease denotes COVID-19 MESH:C000657245
180 2265-2271 Disease denotes deaths MESH:D003643
181 2821-2829 Disease denotes COVID-19 MESH:C000657245
182 2830-2839 Disease denotes infection MESH:D007239
183 3053-3062 Disease denotes pneumonia MESH:D011014
184 3147-3155 Disease denotes COVID-19 MESH:C000657245
185 3417-3438 Disease denotes coronavirus infection MESH:D018352
186 3771-3780 Disease denotes infection MESH:D007239
187 3821-3825 Disease denotes died MESH:D003643
188 3879-3888 Disease denotes infection MESH:D007239
189 4040-4045 Disease denotes death MESH:D003643