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PMC:7156291 / 4408-8157 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
116 58-65 Species denotes patient Tax:9606
117 142-149 Species denotes patient Tax:9606
132 247-255 Species denotes patients Tax:9606
133 429-437 Species denotes patients Tax:9606
134 601-609 Species denotes patients Tax:9606
135 692-700 Species denotes patients Tax:9606
136 862-870 Species denotes patients Tax:9606
137 1044-1050 Chemical denotes oxygen MESH:D010100
138 261-269 Disease denotes COVID-19 MESH:C000657245
139 443-451 Disease denotes COVID-19 MESH:C000657245
140 757-766 Disease denotes pneumonia MESH:D011014
141 775-784 Disease denotes pneumonia MESH:D011014
142 786-821 Disease denotes acute respiratory distress syndrome MESH:D012128
143 823-829 Disease denotes sepsis MESH:D018805
144 835-847 Disease denotes septic shock MESH:D012772
145 941-949 Disease denotes COVID-19 MESH:C000657245
148 1705-1713 Species denotes patients Tax:9606
149 1906-1914 Species denotes patients Tax:9606
152 2479-2495 Disease denotes pleural effusion MESH:D010996
153 2497-2512 Disease denotes lymphadenopathy MESH:D008206

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T6 660-665 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T7 1118-1123 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T8 2585-2589 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T9 2643-2647 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T10 2890-2894 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T5 660-665 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T6 1118-1123 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T7 2479-2495 Body_part denotes pleural effusion http://purl.obolibrary.org/obo/UBERON_0000175
T8 2585-2589 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T9 2643-2647 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T10 2734-2738 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752
T11 2764-2768 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752
T12 2795-2799 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752
T13 2826-2830 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752
T14 2861-2865 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752
T15 2890-2894 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T16 2948-2952 Body_part denotes lobe http://purl.obolibrary.org/obo/UBERON_3010752

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T26 261-269 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T27 443-451 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T28 757-766 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T29 775-784 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T30 786-821 Disease denotes acute respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0006502
T31 792-821 Disease denotes respiratory distress syndrome http://purl.obolibrary.org/obo/MONDO_0009971
T32 941-949 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T33 2497-2512 Disease denotes lymphadenopathy http://purl.obolibrary.org/obo/MONDO_0005833

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T20 32-33 http://purl.obolibrary.org/obo/CLO_0001020 denotes A
T21 219-221 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T22 500-504 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test
T23 660-665 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T24 893-894 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T25 1118-1123 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T26 2102-2104 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T27 2298-2299 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T28 2479-2495 http://purl.obolibrary.org/obo/UBERON_0000175 denotes pleural effusion
T29 2585-2589 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T30 2585-2589 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T31 2643-2647 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T32 2643-2647 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T33 2714-2715 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T34 2752-2762 http://purl.obolibrary.org/obo/CLO_0053003 denotes 1 for 1–25
T35 2890-2894 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T36 2890-2894 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T37 3326-3330 http://purl.obolibrary.org/obo/UBERON_0000473 denotes test

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 487-499 Chemical denotes nucleic acid http://purl.obolibrary.org/obo/CHEBI_33696
T2 495-499 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T3 979-989 Chemical denotes antivirals http://purl.obolibrary.org/obo/CHEBI_22587
T4 991-1001 Chemical denotes interferon http://purl.obolibrary.org/obo/CHEBI_52999
T5 1044-1050 Chemical denotes oxygen http://purl.obolibrary.org/obo/CHEBI_25805
T6 1218-1220 Chemical denotes GE http://purl.obolibrary.org/obo/CHEBI_73801
T7 1236-1238 Chemical denotes GE http://purl.obolibrary.org/obo/CHEBI_73801
T8 1251-1253 Chemical denotes GE http://purl.obolibrary.org/obo/CHEBI_73801
T9 1273-1275 Chemical denotes GE http://purl.obolibrary.org/obo/CHEBI_73801
T10 1398-1400 Chemical denotes GE http://purl.obolibrary.org/obo/CHEBI_73801
T11 1413-1415 Chemical denotes GE http://purl.obolibrary.org/obo/CHEBI_73801

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T17 757-766 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T18 775-784 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T19 792-812 Phenotype denotes respiratory distress http://purl.obolibrary.org/obo/HP_0002098
T20 823-829 Phenotype denotes sepsis http://purl.obolibrary.org/obo/HP_0100806
T21 842-847 Phenotype denotes shock http://purl.obolibrary.org/obo/HP_0031273
T22 2479-2495 Phenotype denotes pleural effusion http://purl.obolibrary.org/obo/HP_0002202
T23 2497-2512 Phenotype denotes lymphadenopathy http://purl.obolibrary.org/obo/HP_0002716

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T42 0-21 Sentence denotes Materials and methods
T43 23-31 Sentence denotes Patients
T44 32-138 Sentence denotes A retrospective review of patient data and imaging studies was approved by the institutional review board.
T45 139-202 Sentence denotes No patient consent was required for this HIPAA-compliant study.
T46 203-384 Sentence denotes Between January 22 and February 8, 2020, 88 patients with COVID-19 were identified from six hospitals in Shaanxi Province in China, which is approximately 800 km northwest of Wuhan.
T47 385-669 Sentence denotes The inclusion criteria were as follows: (1) patients with COVID-19 confirmed by at least one positive nucleic acid test performed at the Center for Disease Control and Prevention in Shaanxi Province in China and (2) patients who underwent baseline and at least one follow-up chest CT.
T48 670-853 Sentence denotes According to the WHO, patients are divided into six types: uncomplicated illness, mild pneumonia, severe pneumonia, acute respiratory distress syndrome, sepsis, and septic shock [10].
T49 854-1082 Sentence denotes All the patients were treated based on a standard diagnosis and treatment criteria for COVID-19 which includes initiation of antivirals, interferon, Chinese herbal medications, supplemental oxygen as needed, and hospitalization.
T50 1084-1101 Sentence denotes Image acquisition
T51 1102-1428 Sentence denotes CT scans of the chest were acquired on 16- to 64-multidector CT scanners (Philips Brilliant 16, Philips Healthcare; GE LightSpeed 16, GE Healthcare; GE VCT LightSpeed 64, GE Healthcare; Somatom Sensation 64, Siemens Healthcare; Somatom AS, Siemens Healthcare; Somatom Spirit, Siemens Healthcare; GE Optima 680, GE Healthcare).
T52 1429-1463 Sentence denotes The CT parameters were as follows:
T53 1464-1575 Sentence denotes 120 kVp, current intelligent control (auto mA) of 30–300 mA, and slice thickness reconstructions of 0.6–3.0 mm.
T54 1576-1649 Sentence denotes All CT examinations were performed without intravenous contrast material.
T55 1651-1681 Sentence denotes Data collection and evaluation
T56 1682-1864 Sentence denotes The medical records of patients were reviewed to determine the demographic data, medical history, exposure history, clinical symptoms, laboratory findings, and time of disease onset.
T57 1865-1947 Sentence denotes The date of disease onset was defined as patients’ reported date of symptom onset.
T58 1948-2125 Sentence denotes The time intervals, in days, between each CT scan and disease onset were determined and categorized into five groups (days 0–3, days 4–7, days 8–10, days 11–14, and days 15–21).
T59 2126-2226 Sentence denotes CT images were reviewed independently by two thoracic radiologists each with 10 years of experience.
T60 2227-2286 Sentence denotes Differences were resolved by discussion to reach consensus.
T61 2287-2544 Sentence denotes Similar to a previously published report [6], CT findings including the presence and distribution of ground glass opacities (GGO), consolidation, linear opacities, discrete pulmonary nodules, pleural effusion, lymphadenopathy, and cavitation were evaluated.
T62 2545-2625 Sentence denotes Degree of lobar involvement and overall lung total severity score were recorded.
T63 2626-2878 Sentence denotes Each of the five lung lobes was assessed for degree or area of involvement and assigned a score of 0 for 0% lobe involvement, 1 for 1–25% lobe involvement, 2 for 26–50% lobe involvement, 3 for 51–75% lobe involvement, or 4 for 76–100% lobe involvement.
T64 2879-2997 Sentence denotes An overall lung total severity score was reached by summing the five lobe scores (range of possible scores, 0–20) [5].
T65 2999-3019 Sentence denotes Statistical analysis
T66 3020-3161 Sentence denotes Continuous variables were represented as means and standard deviations, while categorical variables were expressed as counts and percentages.
T67 3162-3363 Sentence denotes Differences of CT characteristics, lobar involvement, and overall total severity score among different time intervals were statistically compared by the chi-square test or analysis of variance (ANOVA).
T68 3364-3513 Sentence denotes Linear regression analysis was further used to characterize the linear evolution trends of the variables that were significant at the above analysis.
T69 3514-3610 Sentence denotes Statistical analysis was performed by using R software (version 3.6.0; http://www.Rproject.org).
T70 3611-3681 Sentence denotes The packages in R that were used in this study are “gmodels” packages.
T71 3682-3749 Sentence denotes All p values were considered statistically significant at p < 0.05.