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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
305 1711-1719 Disease denotes COVID-19 MESH:C000657245
307 2686-2694 Disease denotes COVID-19 MESH:C000657245
310 3680-3688 Disease denotes COVID-19 MESH:C000657245
311 3694-3702 Disease denotes COVID-19 MESH:C000657245
316 3069-3074 Disease denotes cough MESH:D003371
317 3076-3083 Disease denotes fatigue MESH:D005221
318 3330-3338 Disease denotes COVID-19 MESH:C000657245
319 3339-3348 Disease denotes infection MESH:D007239

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T56 2232-2236 Body_part denotes axis http://purl.org/sig/ont/fma/fma12520
T57 3019-3024 Body_part denotes heart http://purl.org/sig/ont/fma/fma7088
T58 3045-3061 Body_part denotes white blood cell http://purl.org/sig/ont/fma/fma62852
T59 3057-3061 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T60 3088-3098 Body_part denotes lymphocyte http://purl.org/sig/ont/fma/fma62863

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T40 2966-2972 Body_part denotes vessel http://purl.obolibrary.org/obo/UBERON_0000055
T41 3019-3024 Body_part denotes heart http://purl.obolibrary.org/obo/UBERON_0000948
T42 3051-3056 Body_part denotes blood http://purl.obolibrary.org/obo/UBERON_0000178
T43 3210-3215 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T44 3265-3270 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T45 3293-3298 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T46 3529-3535 Body_part denotes vessel http://purl.obolibrary.org/obo/UBERON_0000055
T47 3665-3670 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T92 1711-1719 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T93 2686-2694 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T94 3330-3338 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T95 3339-3348 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T96 3680-3688 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T97 3694-3702 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T145 340-341 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T146 1736-1737 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T147 1755-1756 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T148 2101-2102 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T149 2409-2410 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T150 2966-2972 http://purl.obolibrary.org/obo/UBERON_0000055 denotes vessel
T151 3019-3024 http://purl.obolibrary.org/obo/UBERON_0000948 denotes heart
T152 3019-3024 http://purl.obolibrary.org/obo/UBERON_0007100 denotes heart
T153 3019-3024 http://purl.obolibrary.org/obo/UBERON_0015228 denotes heart
T154 3019-3024 http://www.ebi.ac.uk/efo/EFO_0000815 denotes heart
T155 3051-3056 http://www.ebi.ac.uk/efo/EFO_0000296 denotes blood
T156 3057-3061 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T157 3529-3535 http://purl.obolibrary.org/obo/UBERON_0000055 denotes vessel
T158 3567-3568 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T159 3596-3597 http://purl.obolibrary.org/obo/CLO_0001020 denotes a

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T16 2597-2608 Chemical denotes application http://purl.obolibrary.org/obo/CHEBI_33232

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T11 3006-3017 http://purl.obolibrary.org/obo/GO_0045333 denotes respiration
T12 3006-3017 http://purl.obolibrary.org/obo/GO_0007585 denotes respiration
T13 3536-3548 http://purl.obolibrary.org/obo/GO_0035282 denotes segmentation

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T33 3069-3074 Phenotype denotes cough http://purl.obolibrary.org/obo/HP_0012735
T34 3076-3083 Phenotype denotes fatigue http://purl.obolibrary.org/obo/HP_0012378

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T257 0-32 Sentence denotes Model development and validation
T258 33-234 Sentence denotes The prediction models based on (i) clinical features (C model), (ii) radiological features (R model), and (iii) the combination of clinical features and radiological features (CR model) were developed.
T259 235-318 Sentence denotes ROC analyses for the primary and validation cohort are shown in Table 4 and Fig. 3.
T260 319-511 Sentence denotes The CR model yielded a maximum AUC of 0.986 (95% CI 0.966~1.000) in the primary cohort with the highest accuracy and specificity, which was 0.936 (95% CI 0.866~1.000) in the validation cohort.
T261 512-650 Sentence denotes The AUC for the C model was 0.952 (95% CI 0.988~0.915) and 0.967 (95% CI 0.919~1.000) in the primary and validation cohorts, respectively.
T262 651-771 Sentence denotes For the R model, the AUC of the two cohorts was 0.969 (95% CI 0.940~0.997) and 0.809 (95% CI 0.669~0.948), respectively.
T263 772-831 Sentence denotes Table 4 Performance of the individualized prediction models
T264 832-882 Sentence denotes Primary cohort (n = 98) Validation cohort (n = 38)
T265 883-977 Sentence denotes Models AUC 95% CI Accuracy Specificity Sensitivity AUC 95% CI Accuracy Specificity Sensitivity
T266 978-1057 Sentence denotes C model 0.952 0.915~0.988 0.888 0.894 0.882 0.967 0.919~1.000 0.868 0.859 0.842
T267 1058-1137 Sentence denotes R model 0.969 0.940~0.997 0.929 0.851 1.000 0.809 0.669~0.948 0.684 0.368 1.000
T268 1138-1218 Sentence denotes CR model 0.986 0.966~1.000 0.959 0.957 0.961 0.936 0.866~1.000 0.763 0.789 0.737
T269 1219-1402 Sentence denotes C, R, and CR indicate the predicted model based on clinical features, radiological features, and the combination of clinical features and clinical radiological features, respectively.
T270 1403-1425 Sentence denotes CI confidence interval
T271 1426-1497 Sentence denotes Fig. 3 ROC of the three models in primary and validation cohort curves.
T272 1498-1765 Sentence denotes Comparison of receiver operating characteristic (ROC) curves among the radiological mode (R model), clinical model (C model), and the combination of clinical and radiological model (CR model) for the diagnosis of COVID-19 in the primary (a) and validation (b) cohorts
T273 1766-1971 Sentence denotes To determine the clinical usefulness of the diagnostic model, we developed the decision curve (Fig. 4), which showed better performances for the CR model compared with that for the C model and the R model.
T274 1972-2155 Sentence denotes Across the majority of the range of reasonable threshold probabilities, the decision curve analysis showed that the CR model had a higher overall benefit than the C model and R model.
T275 2156-2225 Sentence denotes Fig. 4 Decision curve analysis for each model in the primary dataset.
T276 2226-2520 Sentence denotes The y-axis measures the net benefit, which is calculated by summing the benefits (true-positive findings) and subtracting the harms (false-positive findings), weighting the latter by a factor related to the relative harm of undetected metastasis compared with the harm of unnecessary treatment.
T277 2521-2779 Sentence denotes The decision curve shows that if the threshold probability is over 10%, the application of the combination of clinical and radiological model (CR model) to diagnose COVID-19 adds more benefit than the clinical model (C model) and radiological model (R model)
T278 2780-3127 Sentence denotes The nomogram (Fig. 5) was developed by the CR model in the primary cohort, with the factors of the total number of mixed GGO in peripheral area (TN_Mixed_GGO_IP), tree-in-bud, offending vessel augmentation in lesions (OVAIL), respiration, heart ratio, temperature, white blood cell count, cough, fatigue and lymphocyte count category incorporated.
T279 3128-3232 Sentence denotes The total points were calculated by summing the points identified on the “points” scale for each factor.
T280 3233-3367 Sentence denotes By comparing the “total points” scale and the “probability” scale, the individual probability of COVID-19 infection could be obtained.
T281 3368-3422 Sentence denotes Fig. 5 Nomogram of the CR model in the primary cohort.
T282 3423-3500 Sentence denotes TN_Mixed_GGO_IP represented the total number of mixed GGO in peripheral area.
T283 3501-3560 Sentence denotes AVAIL represented offending vessel segmentation in lesions.
T284 3561-3614 Sentence denotes N was a negative result, and P was a positive result.
T285 3615-3639 Sentence denotes Norm represented normal.
T286 3640-3702 Sentence denotes Note that in probability scale, 0 = non-COVID-19, 1 = COVID-19