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PMC:7080117 / 12573-16522 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
328 44-52 Species denotes patients Tax:9606
329 109-117 Species denotes patients Tax:9606
330 143-153 Species denotes SARS-CoV-2 Tax:2697049
331 100-108 Disease denotes infected MESH:D007239
341 225-233 Species denotes patients Tax:9606
342 294-302 Species denotes patients Tax:9606
343 434-441 Species denotes Persons Tax:9606
344 478-488 Species denotes SARS-CoV-2 Tax:2697049
345 621-629 Species denotes patients Tax:9606
346 216-224 Disease denotes Infected MESH:D007239
347 263-268 Disease denotes fever MESH:D005334
348 273-278 Disease denotes cough MESH:D003371
349 423-432 Disease denotes infection MESH:D007239
354 732-740 Species denotes patients Tax:9606
355 755-765 Species denotes SARS-CoV-2 Tax:2697049
356 741-749 Disease denotes infected MESH:D007239
357 829-847 Disease denotes lung abnormalities MESH:D008171
366 1076-1084 Species denotes patients Tax:9606
367 1226-1234 Species denotes patients Tax:9606
368 1455-1463 Species denotes patients Tax:9606
369 1097-1117 Disease denotes SARS-CoV-2 pneumonia MESH:C000657245
370 1313-1329 Disease denotes Pleural effusion MESH:D010996
371 1331-1351 Disease denotes pericardial effusion MESH:D010490
372 1365-1389 Disease denotes thoracic lymphadenopathy MESH:D013896
373 1395-1414 Disease denotes pulmonary emphysema MESH:D011656
388 2024-2034 Species denotes SARS-CoV-2 Tax:2697049
389 2057-2070 Species denotes Coronaviridae Tax:11118
390 2113-2123 Species denotes SARS-CoV-2 Tax:2697049
391 2139-2147 Species denotes SARS-CoV Tax:694009
392 2327-2335 Species denotes patients Tax:9606
393 2518-2528 Species denotes SARS-CoV-2 Tax:2697049
394 2562-2575 Species denotes coronaviruses Tax:11118
395 1777-1782 Chemical denotes water MESH:D014867
396 1494-1504 Disease denotes infections MESH:D007239
397 1821-1836 Disease denotes viral pneumonia
398 1877-1892 Disease denotes viral infection MESH:D001102
399 1899-1914 Disease denotes viral pneumonia
400 2152-2170 Disease denotes MERS-CoV infection MESH:D018352
401 2282-2286 Disease denotes MERS MESH:D018352
408 2655-2663 Species denotes patients Tax:9606
409 2678-2686 Species denotes patients Tax:9606
410 2841-2851 Species denotes SARS-CoV-2 Tax:2697049
411 2860-2867 Species denotes patient Tax:9606
412 2822-2831 Disease denotes infection MESH:D007239
413 2993-3008 Disease denotes CoV-2 infection MESH:C000657245
419 3056-3064 Species denotes patients Tax:9606
420 3088-3098 Species denotes SARS-CoV-2 Tax:2697049
421 3191-3199 Species denotes patients Tax:9606
422 3226-3236 Species denotes SARS-CoV-2 Tax:2697049
423 3294-3301 Species denotes patient Tax:9606
425 3642-3650 Species denotes patients Tax:9606

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T49 809-814 Body_part denotes Chest http://purl.org/sig/ont/fma/fma9576
T50 829-833 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T51 1662-1670 Body_part denotes alveolar http://purl.org/sig/ont/fma/fma264783
T52 1765-1770 Body_part denotes blood http://purl.org/sig/ont/fma/fma9670
T53 1787-1792 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T54 2381-2386 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T55 3157-3162 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T56 3536-3541 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T57 3677-3682 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T52 809-814 Body_part denotes Chest http://purl.obolibrary.org/obo/UBERON_0001443
T53 829-833 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T54 1313-1329 Body_part denotes Pleural effusion http://purl.obolibrary.org/obo/UBERON_0000175
T55 1765-1770 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T56 1772-1775 Body_part denotes pus http://purl.obolibrary.org/obo/UBERON_0000177
T57 2381-2386 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T58 3157-3162 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T59 3536-3541 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T60 3677-3682 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T65 143-151 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T66 423-432 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T67 478-486 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T68 755-763 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T69 1097-1105 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T70 1108-1117 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T71 1331-1351 Disease denotes pericardial effusion http://purl.obolibrary.org/obo/MONDO_0001370
T72 1374-1389 Disease denotes lymphadenopathy http://purl.obolibrary.org/obo/MONDO_0005833
T73 1395-1414 Disease denotes pulmonary emphysema http://purl.obolibrary.org/obo/MONDO_0004849
T74 1485-1504 Disease denotes viruses’ infections http://purl.obolibrary.org/obo/MONDO_0005108
T75 1821-1836 Disease denotes viral pneumonia http://purl.obolibrary.org/obo/MONDO_0006012
T76 1827-1836 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T77 1877-1892 Disease denotes viral infection http://purl.obolibrary.org/obo/MONDO_0005108
T78 1883-1892 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T79 1899-1914 Disease denotes viral pneumonia http://purl.obolibrary.org/obo/MONDO_0006012
T80 1905-1914 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T81 2024-2032 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T82 2113-2121 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T83 2139-2147 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T84 2161-2170 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T85 2273-2277 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T86 2518-2526 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T87 2822-2831 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T88 2841-2849 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T89 2988-2996 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T90 2999-3008 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T91 3088-3096 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T92 3226-3234 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T109 57-58 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T110 154-157 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T111 447-448 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T112 652-653 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T113 809-814 http://www.ebi.ac.uk/efo/EFO_0000965 denotes Chest
T114 829-833 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T115 829-833 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T116 1313-1329 http://purl.obolibrary.org/obo/UBERON_0000175 denotes Pleural effusion
T117 1485-1492 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T118 1558-1559 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T119 1679-1681 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T120 1765-1770 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
T121 1765-1770 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T122 1787-1792 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T123 2381-2386 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T124 2432-2433 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T125 2486-2487 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T126 2652-2654 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T127 2858-2859 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T128 3112-3116 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T129 3157-3162 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T130 3179-3180 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T131 3250-3254 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T132 3378-3383 http://purl.obolibrary.org/obo/UBERON_0000473 denotes tests
T133 3536-3541 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T134 3639-3641 http://purl.obolibrary.org/obo/CLO_0001407 denotes 52
T135 3677-3682 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T9 1777-1782 Chemical denotes water http://purl.obolibrary.org/obo/CHEBI_15377
T10 3099-3111 Chemical denotes nucleic acid http://purl.obolibrary.org/obo/CHEBI_33696
T11 3107-3111 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T12 3237-3249 Chemical denotes nucleic acid http://purl.obolibrary.org/obo/CHEBI_33696
T13 3245-3249 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 1861-1873 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis
T2 1877-1892 http://purl.obolibrary.org/obo/GO_0016032 denotes viral infection
T3 2005-2017 http://purl.obolibrary.org/obo/GO_0009405 denotes pathogenesis
T4 3026-3036 http://purl.obolibrary.org/obo/GO_0046903 denotes secretions

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T168 0-10 Sentence denotes Discussion
T169 11-215 Sentence denotes Considering that the majority of patients had a clear history of exposure in Wuhan or to infected patients, our data confirmed that SARS-CoV-2 has the ability for person-to-person transmission [6, 9, 10].
T170 216-279 Sentence denotes Infected patients predominantly presented with fever and cough.
T171 280-326 Sentence denotes Notably, some patients (7%) were asymptomatic.
T172 327-433 Sentence denotes These findings indicated that the absence of clinical symptoms cannot rule out the diagnosis of infection.
T173 434-609 Sentence denotes Persons with a clear history of exposure to SARS-CoV-2, regardless of clinical symptoms, should be considered for medical observation, home isolation, and further examination.
T174 610-716 Sentence denotes Similarly, patients with symptoms without a known history of exposure should undergo further examinations.
T175 717-808 Sentence denotes The numbers of patients infected with SARS-CoV-2 is rapidly increasing nationwide in China.
T176 809-1023 Sentence denotes Chest CT can detect lung abnormalities with high sensitivity, which is quite helpful for early diagnosis of the disease that can trigger early treatment, which facilitates the containment of this emergency disease.
T177 1024-1194 Sentence denotes Our study showed some common CT imaging features in patients affected by SARS-CoV-2 pneumonia: bilateral, multifocal ground glass opacities, with peripheral distribution.
T178 1195-1312 Sentence denotes Of note, more than half of the patients had multilobar involvement and lesions were more frequent in the lower lobes.
T179 1313-1464 Sentence denotes Pleural effusion, pericardial effusion, cavitation, thoracic lymphadenopathy, and pulmonary emphysema were uncommon imaging findings in these patients.
T180 1465-1557 Sentence denotes Imaging features of viruses’ infections usually appear as multifocal ground glass opacities.
T181 1558-1683 Sentence denotes A previous study identified that ground glass opacities on CT images correspond to pathological diffuse alveolar damage [11].
T182 1684-1793 Sentence denotes Histologically, the opacity of ground glass may be caused by alveoli filled with blood, pus, water, or cells.
T183 1794-1893 Sentence denotes The CT imaging features of viral pneumonia are associated with the pathogenesis of viral infection.
T184 1894-2023 Sentence denotes Most viral pneumonia shares similar imaging features in the same Viridae family because of similarities in the pathogenesis [12].
T185 2024-2171 Sentence denotes SARS-CoV-2 belongs to the family Coronaviridae, so, as expected, the imaging features of SARS-CoV-2 are similar to SARS-CoV and MERS-CoV infection.
T186 2172-2296 Sentence denotes Nonetheless, unilateral involvement is more common than multifocal involvement in the early phase of SARS and MERS [13, 14].
T187 2297-2452 Sentence denotes In our study, the majority of patients showed multifocal involvement in the initial chest CT scan, and this finding is consistent with a recent report [8].
T188 2453-2619 Sentence denotes However, whether this finding is a characteristic feature of the SARS-CoV-2 distinguished from the other two coronaviruses remains to be confirmed by further studies.
T189 2620-2779 Sentence denotes The follow-up CT examination in 52 patients showed that 3 patients who had negative baseline scan, rapidly progressed to with bilateral ground glass opacities.
T190 2780-2942 Sentence denotes Since there is an incubation period after infection with the SARS-CoV-2 [15], a patient may not present any symptoms and imaging abnormalities during this period.
T191 2943-3037 Sentence denotes At present, real-time PCR is used to confirm SARS-CoV-2 infection from respiratory secretions.
T192 3038-3172 Sentence denotes In our study, few patients initially negative for SARS-CoV-2 nucleic acid test had bilateral ground glass opacities in chest CT scans.
T193 3173-3272 Sentence denotes After a few days, patients converted to positive for SARS-CoV-2 nucleic acid test by real-time PCR.
T194 3273-3443 Sentence denotes This points out that patient’s history, clinical manifestations, imaging characteristics, and laboratory tests are all important elements in the diagnosis of the disease.
T195 3444-3475 Sentence denotes Our study had some limitations.
T196 3476-3632 Sentence denotes First of all, we cannot demonstrate any prognostic role for chest CT, because we did not find any correlation between imaging and the course of the disease.
T197 3633-3713 Sentence denotes Also, 52 patients with short-term follow-up chest CT showed disease progression.
T198 3714-3949 Sentence denotes The imaging evaluation of disease progression is not complete, and we will collect more follow-up CT data to observe the evolution and outcome of the disease and provide more imaging information to be correlated with clinical findings.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T50 263-268 Phenotype denotes fever http://purl.obolibrary.org/obo/HP_0001945
T51 273-278 Phenotype denotes cough http://purl.obolibrary.org/obo/HP_0012735
T52 1108-1117 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T53 1313-1329 Phenotype denotes Pleural effusion http://purl.obolibrary.org/obo/HP_0002202
T54 1331-1351 Phenotype denotes pericardial effusion http://purl.obolibrary.org/obo/HP_0001698
T55 1374-1389 Phenotype denotes lymphadenopathy http://purl.obolibrary.org/obo/HP_0002716
T56 1395-1414 Phenotype denotes pulmonary emphysema http://purl.obolibrary.org/obo/HP_0002097
T57 1654-1677 Phenotype denotes diffuse alveolar damage http://purl.obolibrary.org/obo/HP_0033006
T58 1827-1836 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T59 1905-1914 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

MyTest

Id Subject Object Predicate Lexical cue
32107577-20442279-29177262 1679-1681 20442279 denotes 11
32107577-29757717-29177263 2019-2021 29757717 denotes 12
32107577-15018128-29177264 2288-2290 15018128 denotes 13
32107577-26998804-29177265 2292-2294 26998804 denotes 14

2_test

Id Subject Object Predicate Lexical cue
32107577-20442279-29177262 1679-1681 20442279 denotes 11
32107577-29757717-29177263 2019-2021 29757717 denotes 12
32107577-15018128-29177264 2288-2290 15018128 denotes 13
32107577-26998804-29177265 2292-2294 26998804 denotes 14