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PMC:7033263 / 9978-16092 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T43 3043-3046 Body_part denotes eye http://purl.org/sig/ont/fma/fma54448
T44 3063-3067 Body_part denotes hand http://purl.org/sig/ont/fma/fma9712
T45 3212-3218 Body_part denotes sputum http://purl.org/sig/ont/fma/fma312401
T46 3424-3427 Body_part denotes eye http://purl.org/sig/ont/fma/fma54448
T47 3444-3448 Body_part denotes hand http://purl.org/sig/ont/fma/fma9712
T48 3725-3730 Body_part denotes Joint http://purl.org/sig/ont/fma/fma7490
T49 4186-4196 Body_part denotes nucleotide http://purl.org/sig/ont/fma/fma82740
T50 4472-4479 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T51 4520-4528 Body_part denotes antibody http://purl.org/sig/ont/fma/fma62871
T52 4567-4575 Body_part denotes cytokine http://purl.org/sig/ont/fma/fma84050
T53 4750-4754 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T54 5253-5258 Body_part denotes Chest http://purl.org/sig/ont/fma/fma9576
T55 5765-5771 Body_part denotes mental http://purl.org/sig/ont/fma/fma264279

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T29 3043-3046 Body_part denotes eye http://purl.obolibrary.org/obo/UBERON_0000970
T30 3063-3067 Body_part denotes hand http://purl.obolibrary.org/obo/UBERON_0002398
T31 3212-3218 Body_part denotes sputum http://purl.obolibrary.org/obo/UBERON_0007311
T32 3424-3427 Body_part denotes eye http://purl.obolibrary.org/obo/UBERON_0000970
T33 3444-3448 Body_part denotes hand http://purl.obolibrary.org/obo/UBERON_0002398
T34 4750-4754 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T35 5253-5258 Body_part denotes Chest http://purl.obolibrary.org/obo/UBERON_0001443

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T48 61-65 Disease denotes SARS http://purl.obolibrary.org/obo/MONDO_0005091
T49 631-640 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T50 688-697 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T51 1793-1802 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T52 2010-2019 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T53 2138-2146 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T54 2376-2385 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T55 3106-3124 Disease denotes 2019-nCoV infected http://purl.obolibrary.org/obo/MONDO_0100096
T56 3149-3159 Disease denotes infectious http://purl.obolibrary.org/obo/MONDO_0005550
T57 3357-3366 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T58 3504-3513 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T59 3672-3681 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T60 3957-3966 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T61 4089-4097 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T62 4405-4424 Disease denotes 2019-nCoV infection http://purl.obolibrary.org/obo/MONDO_0100096
T63 4415-4424 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T64 4485-4493 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T65 4605-4624 Disease denotes 2019-nCoV infection http://purl.obolibrary.org/obo/MONDO_0100096
T66 4615-4624 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T67 4755-4761 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T68 4821-4829 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T69 4843-4852 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T70 5636-5658 Disease denotes anxiety and depression http://purl.obolibrary.org/obo/MONDO_0041086
T71 5636-5643 Disease denotes anxiety http://purl.obolibrary.org/obo/MONDO_0005618|http://purl.obolibrary.org/obo/MONDO_0011918
T73 5648-5658 Disease denotes depression http://purl.obolibrary.org/obo/MONDO_0002050
T74 5962-5971 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T81 93-99 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animal
T82 103-108 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T83 832-837 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T84 977-982 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T85 1100-1107 http://purl.obolibrary.org/obo/NCBITaxon_33208 denotes animals
T86 1129-1130 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T87 1589-1591 http://purl.obolibrary.org/obo/CLO_0001382 denotes 48
T88 2172-2173 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T89 2222-2224 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T90 3043-3046 http://www.ebi.ac.uk/efo/EFO_0000827 denotes eye
T91 3253-3260 http://purl.obolibrary.org/obo/UBERON_0001005 denotes airways
T92 3424-3427 http://www.ebi.ac.uk/efo/EFO_0000827 denotes eye
T93 3725-3730 http://purl.obolibrary.org/obo/UBERON_0000982 denotes Joint
T94 3725-3730 http://purl.obolibrary.org/obo/UBERON_0004905 denotes Joint
T95 3967-3970 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T96 4178-4179 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T97 4292-4293 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T98 4300-4303 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T99 4436-4437 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T100 4483-4484 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T101 4503-4508 http://purl.obolibrary.org/obo/NCBITaxon_9606 denotes human
T102 4660-4663 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T103 4750-4754 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T104 4750-4754 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T105 4878-4880 http://purl.obolibrary.org/obo/CLO_0001302 denotes 34
T106 4882-4884 http://purl.obolibrary.org/obo/CLO_0001000 denotes 35
T107 5253-5258 http://www.ebi.ac.uk/efo/EFO_0000965 denotes Chest
T108 5514-5522 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T109 5905-5907 http://purl.obolibrary.org/obo/CLO_0001313 denotes 36

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T5 1695-1700 Chemical denotes group http://purl.obolibrary.org/obo/CHEBI_24433
T6 3633-3635 Chemical denotes AI http://purl.obolibrary.org/obo/CHEBI_73805|http://purl.obolibrary.org/obo/CHEBI_74007|http://purl.obolibrary.org/obo/CHEBI_74088
T9 3833-3835 Chemical denotes Co http://purl.obolibrary.org/obo/CHEBI_27638
T10 3921-3930 Chemical denotes antiviral http://purl.obolibrary.org/obo/CHEBI_22587
T11 4043-4066 Chemical denotes lopinavir and ritonavir http://purl.obolibrary.org/obo/CHEBI_145924
T12 4043-4052 Chemical denotes lopinavir http://purl.obolibrary.org/obo/CHEBI_31781
T13 4057-4066 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T14 4166-4176 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T15 4186-4196 Chemical denotes nucleotide http://purl.obolibrary.org/obo/CHEBI_36976
T16 4206-4213 Chemical denotes prodrug http://purl.obolibrary.org/obo/CHEBI_50266
T17 4364-4374 Chemical denotes remdesivir http://purl.obolibrary.org/obo/CHEBI_145994
T18 4472-4479 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T19 4644-4659 Chemical denotes corticosteroids http://purl.obolibrary.org/obo/CHEBI_50858
T20 4772-4787 Chemical denotes corticosteroids http://purl.obolibrary.org/obo/CHEBI_50858
T21 5091-5097 Chemical denotes oxygen http://purl.obolibrary.org/obo/CHEBI_25805
T22 5134-5140 Chemical denotes oxygen http://purl.obolibrary.org/obo/CHEBI_25805
T23 5830-5838 Chemical denotes medicine http://purl.obolibrary.org/obo/CHEBI_23888
T24 5840-5843 Chemical denotes TCM http://purl.obolibrary.org/obo/CHEBI_145500
T25 6063-6066 Chemical denotes TCM http://purl.obolibrary.org/obo/CHEBI_145500

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T4 43-51 http://purl.obolibrary.org/obo/GO_0007612 denotes Learning

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T79 0-19 Sentence denotes Management strategy
T80 21-42 Sentence denotes Blocking transmission
T81 43-242 Sentence denotes Learning from the SARS outbreak, which started as animal-to-human transmission during the first phase of the epidemic, all game meat trades should be terminate to prevent this portal of transmission.
T82 243-398 Sentence denotes At the same time, we could not ignore the environmental assessments at the seafood market and investigations to identify the pathogen causing the outbreak.
T83 399-524 Sentence denotes Person-to-person transmission was efficient and super-spreading events had led to major outbreaks in public gathering places.
T84 525-627 Sentence denotes The severity of disease is an important indirect factor helps to identify those who had been infected.
T85 628-754 Sentence denotes If infection does not cause serious disease or asymptomatic infection, infected people probably end up in health care centers.
T86 755-861 Sentence denotes Instead, they would go to work and travel, thereby potentially spreading the virus to their contacts [16].
T87 862-1037 Sentence denotes Recent epidemiological survey and studies showed the patients who did not travel to Wuhan became infected with the virus after several days of contact with the family members.
T88 1038-1151 Sentence denotes None of the family members had contacts with Wuhan markets or animals, neither had visited a Wuhan hospital [21].
T89 1152-1349 Sentence denotes Person-to-person transmission in family homes or hospital, and intercity spread of 2019-nCoV are occurring, and therefore vigilant control measures are warranted at the whole stage of the epidemic.
T90 1351-1360 Sentence denotes Isolation
T91 1361-1724 Sentence denotes Fortunately, with the spread of the new coronavirus accelerating, Chinese authorities responded not only treating the patients and isolating new cases as identified, tracing the contact, but also extended travel restrictions to 48 million people in hardest-hit Hubei province, banned inter-province buses to Beijing and canceled tour group travel abroad [25, 26].
T92 1725-1902 Sentence denotes However it is not completely under control, people with symptoms of pneumonia reported travel history to Wuhan have been identified at international airports over the past week.
T93 1903-2041 Sentence denotes It is crucial to isolate patients, trace and quarantine contacts as early as possible because asymptomatic infection began to appear [21].
T94 2042-2121 Sentence denotes Most importantly, the extent of interhuman transmission needs to be determined.
T95 2122-2230 Sentence denotes Transmission of SARS-CoV and MERS-CoV occurred to a large extent by means of superspreading events [27, 28].
T96 2231-2456 Sentence denotes Superspreading events have been implicated in 2019-nCoV transmission, so educate the public on both food and personal hygiene, and compliance to infection isolation to prevent super-spreading events deserves highly attention.
T97 2458-2468 Sentence denotes Protection
T98 2469-2550 Sentence denotes Transmission of 2019-nCoV probably occurs through spreading airborne and contact.
T99 2551-2607 Sentence denotes Aerosol and fecal–oral transmission remain unclear [24].
T100 2608-2832 Sentence denotes Public health measures, including quarantining in the community as well as timely diagnosis and strict adherence to universal precautions in health care settings [29], were critical in reducing the transmission of 2019-nCoV.
T101 2833-3076 Sentence denotes For healthcare personnel, to minimize the chance of exposures to 2019-nCoV needs to follow the standard of contact and airborne precautions, personal protection including gloves, gowns, respiratory protection, eye protection, and hand hygiene.
T102 3077-3292 Sentence denotes Some procedures performed on 2019-nCoV infected patients could generate infectious aerosols, e.g., nasopharyngeal specimen collection, sputum induction, and open suctioning of airways should be performed cautiously.
T103 3293-3462 Sentence denotes If performed, these procedures should take place in an airborne infection isolation room, and personnel should use respiratory and eye protection, and hand hygiene [30].
T104 3463-3607 Sentence denotes In addition, management of environmental infection control including laundry, food service utensils, and medical waste should also be performed.
T105 3608-3893 Sentence denotes Artificial Intelligence (AI), alternative selection to reducing infection for medical personnel, should be explored (Joint developed by Respiratory Research Institution of Zhongshan Hospital, Fudan University and RealMax Ltd Co), which will be benefit for remote guidance of practices.
T106 3895-3917 Sentence denotes Alternative medication
T107 3918-3999 Sentence denotes No antiviral treatment for coronavirus infection has been proven to be effective.
T108 4000-4138 Sentence denotes Previous studies showed the combination of lopinavir and ritonavir may be beneficial for SARS-CoV and MERS-CoV infected patients [31, 32].
T109 4139-4291 Sentence denotes Treatment with intravenous remdesivir (a novel nucleotide analogue prodrug in development) showed significant improvement for the first case in US [24].
T110 4292-4425 Sentence denotes A trial has been initiated quickly to assess the efficacy and safety of remdesivir in patients hospitalized with 2019-nCoV infection.
T111 4426-4559 Sentence denotes Recently, a potent binding of 2019-nCoV spike protein by a SARS-CoV specific human monoclonal antibody were under investigation [33].
T112 4560-4762 Sentence denotes As the cytokine storm was observed in severe 2019-nCoV infection patients, low dose corticosteroids has been used to treat the patients for possible benefit by reducing inflammatory-induced lung injury.
T113 4763-4886 Sentence denotes However, corticosteroids did not reduce the mortality for SARS-CoV and MERS-CoV infection by WHO interim guidance [34, 35].
T114 4887-5196 Sentence denotes Treatment regiments were classified into three categories depends on the severity of the disease: (1) For mild to moderate disease, the major treatment is supportive therapy [21]; (2) for severe disease, oxygen inhalation through mask, high nasal oxygen flow inhalation, or non-invasive ventilation is needed.
T115 5197-5622 Sentence denotes Careful and dynamic evaluation of patients oximeter and Chest imaging as well as laboratory examination is important; (3) for very severe disease, protective mechanical ventilation after tracheal intubation is required, and prone position ventilation followed if P/F ratio not improved, and eventually extracorporeal membrane oxygenation (ECMO) might be implemented if prone position plus mechanical ventilation did not work.
T116 5623-5696 Sentence denotes Notably, the anxiety and depression of patients need to be consideration.
T117 5697-5791 Sentence denotes We should not only pay attention to disease treatment, but also the mental issues of patients.
T118 5792-6011 Sentence denotes In addition, some traditional Chinese medicine (TCM), such as Snow Lotus (Saussuea involucrata), LianHuaQingWen [36], LiuShenWan [37] might be beneficial for coronavirus infection treatment through immunity enhancement.
T119 6012-6114 Sentence denotes Further evidence is needed to assess the effect of TCM treatment for patients infected with 2019-nCoV.

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T24 1793-1802 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T25 4567-4581 Phenotype denotes cytokine storm http://purl.obolibrary.org/obo/HP_0033041
T26 5636-5643 Phenotype denotes anxiety http://purl.obolibrary.org/obo/HP_0000739
T27 5648-5658 Phenotype denotes depression http://purl.obolibrary.org/obo/HP_0000716

2_test

Id Subject Object Predicate Lexical cue
32078069-29680581-22841768 2222-2224 29680581 denotes 27
32078069-15577937-22841769 2226-2228 15577937 denotes 28
32078069-14985565-22841770 4130-4132 14985565 denotes 31
32078069-29382391-22841771 4134-4136 29382391 denotes 32
32078069-29161116-22841772 4878-4880 29161116 denotes 34

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
305 959-967 Disease denotes infected MESH:D007239
331 2822-2831 Species denotes 2019-nCoV Tax:2697049
381 4821-4829 Species denotes SARS-CoV Tax:694009
288 103-108 Species denotes human Tax:9606
289 61-65 Disease denotes SARS MESH:D045169
298 708-714 Species denotes people Tax:9606
299 915-923 Species denotes patients Tax:9606
300 1235-1244 Species denotes 2019-nCoV Tax:2697049
301 618-626 Disease denotes infected MESH:D007239
302 631-640 Disease denotes infection MESH:D007239
303 688-697 Disease denotes infection MESH:D007239
304 699-707 Disease denotes infected MESH:D007239
311 1397-1412 Species denotes new coronavirus Tax:2697049
312 1479-1487 Species denotes patients Tax:9606
313 1600-1606 Species denotes people Tax:9606
314 1769-1775 Species denotes people Tax:9606
315 1793-1802 Disease denotes pneumonia MESH:D011014
322 1928-1936 Species denotes patients Tax:9606
323 2138-2146 Species denotes SARS-CoV Tax:694009
324 2151-2159 Species denotes MERS-CoV Tax:1335626
325 2277-2286 Species denotes 2019-nCoV Tax:2697049
326 2010-2019 Disease denotes infection MESH:D007239
327 2376-2385 Disease denotes infection MESH:D007239
330 2485-2494 Species denotes 2019-nCoV Tax:2697049
339 2898-2907 Species denotes 2019-nCoV Tax:2697049
340 3125-3133 Species denotes patients Tax:9606
341 3200-3210 Species denotes collection Tax:1768868
342 3106-3124 Disease denotes 2019-nCoV infected MESH:C000657245
343 3357-3366 Disease denotes infection MESH:D007239
344 3504-3513 Disease denotes infection MESH:D007239
345 3672-3681 Disease denotes infection MESH:D007239
359 4089-4097 Species denotes SARS-CoV Tax:694009
360 4120-4128 Species denotes patients Tax:9606
361 4378-4386 Species denotes patients Tax:9606
362 4456-4465 Species denotes 2019-nCoV Tax:2697049
363 4485-4493 Species denotes SARS-CoV Tax:694009
364 4503-4508 Species denotes human Tax:9606
365 4043-4052 Chemical denotes lopinavir MESH:D061466
366 4057-4066 Chemical denotes ritonavir MESH:D019438
367 4166-4176 Chemical denotes remdesivir MESH:C000606551
368 4364-4374 Chemical denotes remdesivir MESH:C000606551
369 3945-3966 Disease denotes coronavirus infection MESH:D018352
370 4102-4119 Disease denotes MERS-CoV infected MESH:D018352
371 4405-4424 Disease denotes 2019-nCoV infection MESH:C000657245
379 4625-4633 Species denotes patients Tax:9606
380 4687-4695 Species denotes patients Tax:9606
382 4605-4624 Disease denotes 2019-nCoV infection MESH:C000657245
383 4750-4761 Disease denotes lung injury MESH:D055370
384 4807-4816 Disease denotes mortality MESH:D003643
385 4834-4852 Disease denotes MERS-CoV infection MESH:D018352
393 5231-5239 Species denotes patients Tax:9606
394 5662-5670 Species denotes patients Tax:9606
395 5782-5790 Species denotes patients Tax:9606
396 5091-5097 Chemical denotes oxygen MESH:D010100
397 5134-5140 Chemical denotes oxygen MESH:D010100
398 5636-5643 Disease denotes anxiety MESH:D001007
399 5648-5658 Disease denotes depression MESH:D000275
404 6081-6089 Species denotes patients Tax:9606
405 6104-6113 Species denotes 2019-nCoV Tax:2697049
406 5950-5971 Disease denotes coronavirus infection MESH:D018352
407 6090-6098 Disease denotes infected MESH:D007239