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PMC:7082661 / 2139-5086 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
42 579-597 Gene denotes C-reactive protein Gene:1401
43 33-36 Species denotes boy Tax:9606
44 52-57 Disease denotes fever MESH:D005334
45 94-99 Disease denotes Fever MESH:D005334
46 183-191 Disease denotes COVID-19 MESH:C000657245
47 333-338 Disease denotes fever MESH:D005334
62 619-626 Species denotes patient Tax:9606
63 791-798 Species denotes patient Tax:9606
64 1158-1166 Species denotes patients Tax:9606
65 1197-1204 Species denotes patient Tax:9606
66 1335-1342 Species denotes patient Tax:9606
67 1372-1382 Species denotes SARS-CoV-2 Tax:2697049
68 1432-1442 Species denotes SARS-CoV-2 Tax:2697049
69 652-657 Disease denotes Fever MESH:D005334
70 701-712 Disease denotes A infection MESH:D007239
71 875-883 Disease denotes COVID-19 MESH:C000657245
72 1112-1121 Disease denotes pneumonia MESH:D011014
73 1172-1180 Disease denotes COVID-19 MESH:C000657245
74 1213-1222 Disease denotes pneumonia MESH:D011014
75 1470-1479 Disease denotes infection MESH:D007239
90 2231-2249 Gene denotes C-reactive protein Gene:1401
91 1642-1649 Species denotes patient Tax:9606
92 1685-1693 Species denotes patients Tax:9606
93 1711-1717 Species denotes people Tax:9606
94 1522-1527 Disease denotes fever MESH:D005334
95 1592-1597 Disease denotes Fever MESH:D005334
96 1699-1707 Disease denotes COVID-19 MESH:C000657245
97 1826-1831 Disease denotes fever MESH:D005334
98 1866-1886 Disease denotes Respiratory symptoms MESH:D012818
99 1909-1919 Disease denotes dry throat MESH:D010608
100 1949-1954 Disease denotes cough MESH:D003371
101 2023-2029 Disease denotes nausea MESH:D009325
102 2031-2039 Disease denotes vomiting MESH:D014839
103 2045-2053 Disease denotes diarrhea MESH:D003967
113 2648-2658 Species denotes SARS-CoV-2 Tax:2697049
114 2690-2700 Species denotes SARS-CoV-2 Tax:2697049
115 2762-2772 Species denotes SARS-CoV-2 Tax:2697049
116 2864-2871 Species denotes patient Tax:9606
117 2285-2294 Disease denotes emphysema MESH:D004646
118 2396-2411 Disease denotes viral pneumonia
119 2502-2511 Disease denotes pneumonia MESH:D011014
120 2521-2529 Disease denotes infected MESH:D007239
121 2899-2907 Disease denotes COVID-19 MESH:C000657245

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 351-355 Body_part denotes body http://purl.org/sig/ont/fma/fma256135
T2 447-456 Body_part denotes leukocyte http://purl.org/sig/ont/fma/fma62852
T3 476-486 Body_part denotes neutrophil http://purl.org/sig/ont/fma/fma62860
T4 542-553 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T5 590-597 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T6 1041-1046 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T7 1281-1286 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T8 1304-1310 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T9 1545-1549 Body_part denotes body http://purl.org/sig/ont/fma/fma256135
T10 1839-1843 Body_part denotes body http://purl.org/sig/ont/fma/fma256135
T11 1913-1919 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738
T12 1956-1962 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T13 1980-1984 Body_part denotes nose http://purl.org/sig/ont/fma/fma46472
T14 2097-2106 Body_part denotes leukocyte http://purl.org/sig/ont/fma/fma62852
T15 2127-2137 Body_part denotes neutrophil http://purl.org/sig/ont/fma/fma62860
T16 2194-2205 Body_part denotes lymphocytes http://purl.org/sig/ont/fma/fma62863
T17 2242-2249 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T18 2269-2274 Body_part denotes Chest http://purl.org/sig/ont/fma/fma9576
T19 2309-2314 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T20 2357-2373 Body_part denotes right lower lobe http://purl.org/sig/ont/fma/fma7337
T21 2568-2573 Body_part denotes lungs http://purl.org/sig/ont/fma/fma68877
T22 2598-2604 Body_part denotes throat http://purl.org/sig/ont/fma/fma228738

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 1304-1310 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341
T2 1913-1919 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341
T3 1956-1962 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T4 1980-1984 Body_part denotes nose http://purl.obolibrary.org/obo/UBERON_0000004
T5 2269-2274 Body_part denotes Chest http://purl.obolibrary.org/obo/UBERON_0001443
T6 2369-2373 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752
T7 2598-2604 Body_part denotes throat http://purl.obolibrary.org/obo/UBERON_0000341

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T15 183-191 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T16 691-700 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T17 703-712 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T18 875-883 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T19 969-978 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T20 1112-1121 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T21 1172-1180 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T22 1213-1222 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T23 1372-1380 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T24 1432-1440 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T25 1470-1479 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T26 1699-1707 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T27 1974-1984 Disease denotes runny nose http://purl.obolibrary.org/obo/MONDO_0003014
T28 2045-2053 Disease denotes diarrhea http://purl.obolibrary.org/obo/MONDO_0001673
T29 2285-2294 Disease denotes emphysema http://purl.obolibrary.org/obo/MONDO_0004849
T30 2396-2411 Disease denotes viral pneumonia http://purl.obolibrary.org/obo/MONDO_0006012
T31 2402-2411 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T32 2502-2511 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T33 2648-2656 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T34 2690-2698 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T35 2762-2770 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T36 2899-2907 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T10 251-252 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T11 344-345 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T12 605-607 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T13 701-702 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T14 729-730 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T15 760-764 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T16 934-938 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T17 979-980 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T18 1041-1046 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T19 1048-1049 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T20 1281-1286 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T21 1348-1354 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tested
T22 1424-1425 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T23 1451-1455 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T24 1489-1490 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T25 1491-1493 http://purl.obolibrary.org/obo/CLO_0001313 denotes 36
T26 1747-1748 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T27 1837-1838 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T28 1980-1984 http://www.ebi.ac.uk/efo/EFO_0000828 denotes nose
T29 2269-2274 http://www.ebi.ac.uk/efo/EFO_0000965 denotes Chest
T30 2309-2314 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T31 2487-2488 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T32 2568-2573 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lungs
T33 2668-2669 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T34 2735-2739 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T35 2741-2742 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T36 2781-2789 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test was
T37 2828-2829 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T38 2941-2946 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T9 590-597 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T10 747-759 Chemical denotes nucleic acid http://purl.obolibrary.org/obo/CHEBI_33696
T11 755-759 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T12 921-933 Chemical denotes nucleic acid http://purl.obolibrary.org/obo/CHEBI_33696
T13 929-933 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T14 1065-1067 Chemical denotes DL http://purl.obolibrary.org/obo/CHEBI_68596
T15 2242-2249 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T16 2430-2432 Chemical denotes DL http://purl.obolibrary.org/obo/CHEBI_68596

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T2 52-57 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T3 94-99 Phenotype denotes Fever http://purl.obolibrary.org/obo/HP_0001945
T4 333-338 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T5 570-603 Phenotype denotes elevated C-reactive protein level http://purl.obolibrary.org/obo/HP_0011227
T6 652-657 Phenotype denotes Fever http://purl.obolibrary.org/obo/HP_0001945
T7 1112-1121 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T8 1213-1222 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T9 1522-1527 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T10 1592-1597 Phenotype denotes Fever http://purl.obolibrary.org/obo/HP_0001945
T11 1826-1831 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T12 1924-1944 Phenotype denotes difficulty breathing http://purl.obolibrary.org/obo/HP_0002098
T13 1949-1954 Phenotype denotes cough http://purl.obolibrary.org/obo/HP_0012735
T14 1974-1984 Phenotype denotes runny nose http://purl.obolibrary.org/obo/HP_0031417
T15 2023-2039 Phenotype denotes nausea, vomiting http://purl.obolibrary.org/obo/HP_0002017
T16 2045-2053 Phenotype denotes diarrhea http://purl.obolibrary.org/obo/HP_0002014
T17 2222-2255 Phenotype denotes elevated C-reactive protein level http://purl.obolibrary.org/obo/HP_0011227
T18 2285-2294 Phenotype denotes emphysema http://purl.obolibrary.org/obo/HP_0002097
T19 2402-2411 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T20 2502-2511 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T8 1055-1063 http://purl.obolibrary.org/obo/GO_0007612 denotes learning
T9 1935-1944 http://purl.obolibrary.org/obo/GO_0007585 denotes breathing

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T16 0-11 Sentence denotes CASE REPORT
T17 13-19 Sentence denotes Case 1
T18 20-139 Sentence denotes 10-month-old boy presented with fever for 3 hours and was admitted to the Fever Clinic of the Beijing Haidian Hospital.
T19 140-206 Sentence denotes His parents and sister were confirmed with COVID-19 2 days before.
T20 207-304 Sentence denotes They contracted it after having dinner with a family friend who had recently returned from Wuhan.
T21 305-409 Sentence denotes Physical examination showed fever with a peak body temperature of 38℃ that returned to normal by itself.
T22 410-614 Sentence denotes Laboratory examination showed normal leukocyte (9.32 × 109/L) and neutrophil (1.93 × 109/L) counts, increased differential count of lymphocytes (68.8%), and an elevated C-reactive protein level (11 mg/L).
T23 615-772 Sentence denotes The patient had been admitted to the Fever Clinic 2 weeks before because of influenza A infection as evidenced by a weakly positive nucleic acid test result.
T24 773-884 Sentence denotes Subsequently, the patient underwent isolated medical observation before his family was diagnosed with COVID-19.
T25 885-1047 Sentence denotes During the medical observation, the nucleic acid test presented weakly positive for influenza A again, and CT showed diffuse ground-glass opacities in both lungs.
T26 1048-1296 Sentence denotes A deep learning (DL)-based computer-aided diagnostic system for pneumonia, which was trained with CT scans of patients with COVID-19, suggested this patient to have pneumonia, with the lesion volume accounting for 13.3% of the whole lungs (Fig. 1).
T27 1297-1383 Sentence denotes Later, throat swab specimens from the patient were tested with rRT-PCR for SARS-CoV-2.
T28 1384-1480 Sentence denotes After two consecutive negative results, a third SARS-CoV-2 rRT-PCR test confirmed the infection.
T29 1482-1488 Sentence denotes Case 2
T30 1489-1562 Sentence denotes A 36-year-old man presented with fever for 5 days (peak body temperature:
T31 1563-1637 Sentence denotes 40℃) and was admitted to the Fever Clinic of the Beijing Haidian Hospital.
T32 1638-1797 Sentence denotes The patient had no direct contact history with patients with COVID-19 or people from the Hubei province, but a recent travel history to Chongqing was reported.
T33 1798-1865 Sentence denotes Physical examination showed fever with a body temperature of 38.5℃.
T34 1866-1998 Sentence denotes Respiratory symptoms at admission included dry throat and difficulty breathing; no cough, sputum, or stuffy/runny nose was observed.
T35 1999-2054 Sentence denotes Other symptoms included nausea, vomiting, and diarrhea.
T36 2055-2268 Sentence denotes Laboratory examination revealed increased leukocyte (13.69 × 109/L) and neutrophil (10.42 × 109/L) counts, decreased differential count of lymphocytes (12.6%), and an elevated C-reactive protein level (155 mg/mL).
T37 2269-2412 Sentence denotes Chest CT showed emphysema in both upper lungs and diffuse ground-glass opacities in the right lower lobe, highly suggestive of viral pneumonia.
T38 2413-2583 Sentence denotes In addition, the DL-based computer-aided diagnostic system also indicated a high risk of pneumonia with the infected area accounting for 8.9% of the whole lungs (Fig. 2).
T39 2584-2667 Sentence denotes Subsequently, throat swab specimens were promptly collected for SARS-CoV-2 rRT-PCR.
T40 2668-2740 Sentence denotes A negative result for SARS-CoV-2 was observed in the first rRT-PCR test.
T41 2741-2859 Sentence denotes A second consecutive SARS-CoV-2 rRT-PCR test was conducted immediately thereafter, and a positive result was obtained.
T42 2860-2947 Sentence denotes The patient was further confirmed with COVID-19 with additional positive rRT-PCR tests.