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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
185 758-766 Disease denotes COVID-19 MESH:C000657245
188 824-832 Disease denotes COVID-19 MESH:C000657245
189 912-920 Disease denotes COVID-19 MESH:C000657245
195 2052-2061 Disease denotes pneumonia MESH:D011014
196 2264-2273 Disease denotes pneumonia MESH:D011014
197 2284-2292 Disease denotes COVID-19 MESH:C000657245
198 2668-2676 Disease denotes COVID-19 MESH:C000657245
199 2678-2687 Disease denotes pneumonia MESH:D011014

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T13 2052-2061 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T14 2264-2273 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T15 2678-2687 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T186 0-12 Sentence denotes Experiment-D
T187 13-274 Sentence denotes The boxplots of the five evaluation indicators, the F1 score (Fig. 5a, d, g), the kappa coefficient (Fig. 5b, e, h), and the specificity (Fig. 5c, f, i) of experiments A–C are shown in Fig. 5, and the precision and sensitivity are shown in Supplementary Fig. 2.
T188 275-442 Sentence denotes A bootstrapping method40 was used to calculate the empirical distributions, and McNemar’s test41 was used to analyze the differences between the CNNCF and the experts.
T189 443-658 Sentence denotes The p-values of the McNemar’s test (Supplementary Tables 1–3) for the five evaluation indicators were all 1.0, indicating no statistically significant difference between the CNNCF results and the expert evaluations.
T190 659-782 Sentence denotes Fig. 5 Boxplots of the F1 score, kappa score, and specificity for the CNNCF and expert results for COVID-19 identification.
T191 783-872 Sentence denotes NC indicates that the positive case is a COVID-19 case, and the negative case is *Normal.
T192 873-957 Sentence denotes CI indicates that the positive case is COVID-19, and the negative case is influenza.
T193 958-1412 Sentence denotes Bootstrapping is used to generate n = 1000 resampled independent validation sets for the XVS and the CTVS. a F1 score for the NC using X-data. b Kappa score for the NC using X-data. c Specificity for the NC using X-data. d F1 score for the NC using CT-data. e Kappa score for the NC using CT-data. f Specificity for the NC using CT-data. g F1 score for the CI using CT-data. h Kappa score for the CI using CT-data. i Specificity for the CI using CT-data.
T194 1413-1674 Sentence denotes We also conducted extra experiments with both configurations of the same data source and different data sources: the descriptions and graph charts can be found in the Supplementary Experiments and Tables (Supplementary Tables 4–19 and Supplementary Figs. 3–18).
T195 1675-1765 Sentence denotes The data used in experiments E–G were CTHVS and the data were all from the Youan hospital.
T196 1766-1855 Sentence denotes The data used in experiments H–K were XHVS and the data were all from the Youan hospital.
T197 1856-1909 Sentence denotes The data used in experiments L–N were XPVS and CTPVS.
T198 1910-2126 Sentence denotes The data used in the experiment L was from the same data set RSNA, while the data used in experiment M was from different data sets where the pneumonia cases were from the ICNP, and the normal cases were from LUNA16.
T199 2127-2321 Sentence denotes The data used in the experiments O–R, from the four public data sets and one hospital (Youan hospital) data set (including normal cases, pneumonia cases and COVID-19 cases), were XMVS and CTMVS.
T200 2322-2400 Sentence denotes In all the experiments (experiments A–R), the CNNCF achieved good performance.
T201 2401-2561 Sentence denotes Notably, in order to obtain a more comprehensive evaluation of the CNNCF while further improving the usability in clinical practice, experiment-R was performed.
T202 2562-2734 Sentence denotes In the experiment-R, the CNNCF was used to distinguish three types of cases simultaneously (Including the COVID-19, pneumonia, and normal cases) on both the XMVS and CTMVS.
T203 2735-2932 Sentence denotes Good performances were obtained on the XMVS, with the best score of F1 score of 91.89%, kappa score of 89.74%, specificity of 97.14%, sensitivity of 94.44%, and a precision of 89.47%, respectively.
T204 2933-3055 Sentence denotes Excellent performances were obtained on the CTMVS, with the best score of the five evaluation indicators were all 100.00%.
T205 3056-3169 Sentence denotes The ROC score and PRC score in the experiment-R were also satisfactory which were shown in Supplementary Fig. 18.
T206 3170-3278 Sentence denotes The results of the experiment-R further demonstrated the effectiveness and robustness of the proposed CNNCF.