PMC:7172841 / 6891-9350
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T33 | 829-845 | Body_part | denotes | white blood cell | http://purl.org/sig/ont/fma/fma62852 |
| T34 | 841-845 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T35 | 958-966 | Body_part | denotes | platelet | http://purl.org/sig/ont/fma/fma62851 |
| T36 | 1810-1815 | Body_part | denotes | heart | http://purl.org/sig/ont/fma/fma7088 |
| T37 | 1885-1890 | Body_part | denotes | heart | http://purl.org/sig/ont/fma/fma7088 |
| T38 | 2131-2138 | Body_part | denotes | alanine | http://purl.org/sig/ont/fma/fma82749 |
| T39 | 2435-2440 | Body_part | denotes | organ | http://purl.org/sig/ont/fma/fma67498 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T6 | 835-840 | Body_part | denotes | blood | http://purl.obolibrary.org/obo/UBERON_0000178 |
| T7 | 1810-1815 | Body_part | denotes | heart | http://purl.obolibrary.org/obo/UBERON_0000948 |
| T8 | 1885-1890 | Body_part | denotes | heart | http://purl.obolibrary.org/obo/UBERON_0000948 |
| T9 | 2435-2440 | Body_part | denotes | organ | http://purl.obolibrary.org/obo/UBERON_0000062 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T75 | 96-105 | Disease | denotes | Pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
| T76 | 116-124 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T77 | 116-120 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T78 | 130-149 | Disease | denotes | respiratory failure | http://purl.obolibrary.org/obo/MONDO_0021113 |
| T79 | 157-176 | Disease | denotes | respiratory failure | http://purl.obolibrary.org/obo/MONDO_0021113 |
| T80 | 187-195 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T81 | 187-191 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T82 | 216-224 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T83 | 216-220 | Disease | denotes | SARS | http://purl.obolibrary.org/obo/MONDO_0005091 |
| T84 | 1724-1748 | Disease | denotes | Type 2 diabetes mellitus | http://purl.obolibrary.org/obo/MONDO_0005148 |
| T85 | 1731-1748 | Disease | denotes | diabetes mellitus | http://purl.obolibrary.org/obo/MONDO_0005015 |
| T86 | 1810-1823 | Disease | denotes | heart failure | http://purl.obolibrary.org/obo/MONDO_0005252 |
| T87 | 1876-1898 | Disease | denotes | Coronary heart disease | http://purl.obolibrary.org/obo/MONDO_0005010 |
| T88 | 1885-1898 | Disease | denotes | heart disease | http://purl.obolibrary.org/obo/MONDO_0005267 |
| T89 | 1993-2012 | Disease | denotes | respiratory failure | http://purl.obolibrary.org/obo/MONDO_0021113 |
| T90 | 2368-2377 | Disease | denotes | pneumonia | http://purl.obolibrary.org/obo/MONDO_0005249 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T41 | 254-256 | http://purl.obolibrary.org/obo/CLO_0001382 | denotes | 48 |
| T42 | 355-359 | http://purl.obolibrary.org/obo/UBERON_0003101 | denotes | Male |
| T43 | 355-359 | http://www.ebi.ac.uk/efo/EFO_0000970 | denotes | Male |
| T44 | 400-402 | http://purl.obolibrary.org/obo/CLO_0050509 | denotes | 27 |
| T45 | 835-840 | http://www.ebi.ac.uk/efo/EFO_0000296 | denotes | blood |
| T46 | 841-845 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cell |
| T47 | 1810-1815 | http://purl.obolibrary.org/obo/UBERON_0000948 | denotes | heart |
| T48 | 1810-1815 | http://purl.obolibrary.org/obo/UBERON_0007100 | denotes | heart |
| T49 | 1810-1815 | http://purl.obolibrary.org/obo/UBERON_0015228 | denotes | heart |
| T50 | 1810-1815 | http://www.ebi.ac.uk/efo/EFO_0000815 | denotes | heart |
| T51 | 1848-1850 | http://purl.obolibrary.org/obo/CLO_0050510 | denotes | 18 |
| T52 | 1885-1890 | http://purl.obolibrary.org/obo/UBERON_0000948 | denotes | heart |
| T53 | 1885-1890 | http://purl.obolibrary.org/obo/UBERON_0007100 | denotes | heart |
| T54 | 1885-1890 | http://purl.obolibrary.org/obo/UBERON_0015228 | denotes | heart |
| T55 | 1885-1890 | http://www.ebi.ac.uk/efo/EFO_0000815 | denotes | heart |
| T56 | 2032-2036 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T57 | 2163-2172 | http://purl.obolibrary.org/obo/CLO_0001658 | denotes | activated |
| T58 | 2435-2440 | http://purl.obolibrary.org/obo/UBERON_0003103 | denotes | organ |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T28 | 285-287 | Chemical | denotes | SD | http://purl.obolibrary.org/obo/CHEBI_74807 |
| T29 | 437-439 | Chemical | denotes | II | http://purl.obolibrary.org/obo/CHEBI_74067 |
| T30 | 454-456 | Chemical | denotes | SD | http://purl.obolibrary.org/obo/CHEBI_74807 |
| T31 | 548-550 | Chemical | denotes | SD | http://purl.obolibrary.org/obo/CHEBI_74807 |
| T32 | 633-635 | Chemical | denotes | SD | http://purl.obolibrary.org/obo/CHEBI_74807 |
| T33 | 716-718 | Chemical | denotes | SD | http://purl.obolibrary.org/obo/CHEBI_74807 |
| T34 | 818-820 | Chemical | denotes | SD | http://purl.obolibrary.org/obo/CHEBI_74807 |
| T35 | 1375-1385 | Chemical | denotes | Creatinine | http://purl.obolibrary.org/obo/CHEBI_16737 |
| T36 | 1463-1472 | Chemical | denotes | bilirubin | http://purl.obolibrary.org/obo/CHEBI_16990 |
| T37 | 1544-1547 | Chemical | denotes | AST | http://purl.obolibrary.org/obo/CHEBI_76649 |
| T38 | 2131-2138 | Chemical | denotes | alanine | http://purl.obolibrary.org/obo/CHEBI_16449 |
| T39 | 2202-2205 | Chemical | denotes | AST | http://purl.obolibrary.org/obo/CHEBI_76649 |
| T40 | 2207-2216 | Chemical | denotes | aspartate | http://purl.obolibrary.org/obo/CHEBI_132943|http://purl.obolibrary.org/obo/CHEBI_29995|http://purl.obolibrary.org/obo/CHEBI_72314 |
| T43 | 2394-2396 | Chemical | denotes | SD | http://purl.obolibrary.org/obo/CHEBI_74807 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T49 | 0-126 | Sentence | denotes | Table 1 Baseline Clinical and Laboratory Characteristics of the Cohorts of Bacterial CAP and of Pneumonia Caused by SARS-CoV-2 |
| T50 | 127-176 | Sentence | denotes | No respiratory failure Severe respiratory failure |
| T51 | 177-234 | Sentence | denotes | Bacterial SARS-CoV-2 p value Bacterial SARS-CoV-2 p value |
| T52 | 235-265 | Sentence | denotes | Number of patients 48 26 56 28 |
| T53 | 266-354 | Sentence | denotes | Age (years, mean ± SD) 74.8 ± 16.8 59.2 ± 10.3 <0.0001 74.0 ± 12.6∗ 67.8 ± 10.8# <0.0001 |
| T54 | 355-429 | Sentence | denotes | Male gender (n, %) 25 (52.1) 15 (57.7) 0.807 27 (48.2)∗ 25 (89.3)∗∗ 0.0003 |
| T55 | 430-528 | Sentence | denotes | APACHE II score (mean ± SD) 18.50 ± 8.19 5.88 ± 3.40 <0.0001 26.63 ± 8.52∗∗ 10.17 ± 3.64## <0.0001 |
| T56 | 529-620 | Sentence | denotes | SOFA score (mean ± SD) 7.87 ± 3.81 1.50 ± 0.82 <0.0001 11.46 ± 3.15∗∗ 5.71 ± 2.19## <0.0001 |
| T57 | 621-703 | Sentence | denotes | CCI (mean ± SD) 5.53 ± 2.13 2.16 ± 1.46 <0.0001 5.57 ± 2.20∗ 3.39 ± 2.16## <0.0001 |
| T58 | 704-791 | Sentence | denotes | PSI (mean ± SD) 146.5 ± 43.2 80.0 ± 30.7 <0.0001 177.4 ± 40.4∗∗∗ 121.2 ± 28.3## <0.0001 |
| T59 | 792-821 | Sentence | denotes | Laboratory values (mean ± SD) |
| T60 | 822-947 | Sentence | denotes | Total white blood cell count (/mm3) 13,852.7 ± 7279.3 6379.6 ± 1993.9 <0.0001 17,666.9 ± 12,799.9∗ 9447.8 ± 3308.6## <0.0001 |
| T61 | 948-1053 | Sentence | denotes | Absolute platelet count (x103 /mm3) 201.3 ± 124.8 243.8 ± 109.1 0.141 224.3 ± 111.0∗ 213.9 ± 71.8∗ 0.654 |
| T62 | 1054-1120 | Sentence | denotes | INR 1.28 ± 0.64 1.11 ± 0.15 0.187 1.33 ± 0.45∗ 1.17 ± 0.20∗ 0.077 |
| T63 | 1121-1201 | Sentence | denotes | aPTT (secs) 37.19 ± 12.95 33.40 ± 6.22 0.165 38.42 ± 23.00∗ 37.52 ± 9.88∗ 0.844 |
| T64 | 1202-1291 | Sentence | denotes | Fibrinogen (mg/dl) 475.6 ± 196.3 528.9 ± 152.5 0.234 495.3 ± 290.5∗ 693.5 ± 188.6# 0.002 |
| T65 | 1292-1373 | Sentence | denotes | D-dimers (g/dl) 7.66 ± 13.9 2.76 ± 2.02 0.079 1.46 ± 1.62∗∗ 5.43 ± 6.41∗ <0.0001 |
| T66 | 1374-1455 | Sentence | denotes | Creatinine (mg/dl) 1.55 ± 1.00 0.85 ± 0.19 0.001 1.71 ± 0.90∗ 1.11 ± 0.43# 0.001 |
| T67 | 1456-1542 | Sentence | denotes | Total bilirubin (mg/dl) 1.43 ± 1.92 0.67 ± 0.50 0.052 1.17 ± 1.88∗ 0.97 ± 0.68∗ 0.588 |
| T68 | 1543-1619 | Sentence | denotes | AST (U/l) 155.1 ± 308.1 39.9 ± 28.5 0.062 311.7 ± 748.2∗ 76.6 ± 59.2# 0.102 |
| T69 | 1620-1696 | Sentence | denotes | ALT (U/l) 234.6 ± 764.3 40.2 ± 24.9 0.200 175.8 ± 378.0∗ 64.3 ± 62.2∗ 0.126 |
| T70 | 1697-1722 | Sentence | denotes | Main comorbidities (n, %) |
| T71 | 1723-1800 | Sentence | denotes | Type 2 diabetes mellitus 13 (27.1) 4 (15.4) 0.386 21 (37.5)∗ 6 (21.4)∗ 0.214 |
| T72 | 1801-1874 | Sentence | denotes | Chronic heart failure 8 (16.7) 3 (11.5) 0.737 18 (32.1)∗ 4 (14.3)∗ 0.114 |
| T73 | 1875-1945 | Sentence | denotes | Coronary heart disease 7 (14.6) 2 (7.7) 0.479 10 (17.9) 5 (17.9)∗ 1.0 |
| T74 | 1946-2095 | Sentence | denotes | Comparisons with the respective groups without respiratory failure by the Student’s t test: ∗p-non-significant; ∗∗p < 0.05; #p < 0.001; ##p < 0.0001. |
| T75 | 2096-2459 | Sentence | denotes | Abbreviations are as follows: ALT, alanine aminotransferase; aPTT, activated partial thromboplastin time; AST, aspartate aminotransferase; APACHE, acute physiology and chronic health evaluation; CCI, Charlson’s comorbidity index; INR, international normalized ratio; PSI, pneumonia severity index; SD, standard deviation; SOFA, sequential organ failure assessment |
LitCovid-PD-HP
| Id | Subject | Object | Predicate | Lexical cue | hp_id |
|---|---|---|---|---|---|
| T35 | 96-105 | Phenotype | denotes | Pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
| T36 | 130-149 | Phenotype | denotes | respiratory failure | http://purl.obolibrary.org/obo/HP_0002878 |
| T37 | 157-176 | Phenotype | denotes | respiratory failure | http://purl.obolibrary.org/obo/HP_0002878 |
| T38 | 1724-1739 | Phenotype | denotes | Type 2 diabetes | http://purl.obolibrary.org/obo/HP_0005978 |
| T39 | 1802-1823 | Phenotype | denotes | Chronic heart failure | http://purl.obolibrary.org/obo/HP_0001635 |
| T40 | 1993-2012 | Phenotype | denotes | respiratory failure | http://purl.obolibrary.org/obo/HP_0002878 |
| T41 | 2368-2377 | Phenotype | denotes | pneumonia | http://purl.obolibrary.org/obo/HP_0002090 |
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T162 | 116-126 | SP_7 | denotes | SARS-CoV-2 |
| T163 | 1993-2004 | UBERON:0001004 | denotes | respiratory |
| T164 | 2435-2440 | UBERON:0000062 | denotes | organ |
| T63 | 157-168 | UBERON:0001004 | denotes | respiratory |
| T270 | 14-17 | PR:000029150 | denotes | ne |
| T271 | 24-28 | PR:000001889 | denotes | l an |
| T272 | 29-38 | CL:0000576 | denotes | Laborato |
| T273 | 96-106 | SP_7 | denotes | Pneumonia |
| T274 | 147-152 | UBERON:0002405;GO:0006955 | denotes | re Se |
| T275 | 153-164 | GO:0006955 | denotes | ere respira |
| T276 | 170-178 | CHEBI:82594;CHEBI:82594 | denotes | ailure B |
| T277 | 201-206 | UBERON:0001977 | denotes | alue |
| T278 | 224-233 | NCBITaxon:2 | denotes | -2 p valu |
| T279 | 326-342 | GO:0006909 | denotes | ± 12.6∗ 67.8 ± 1 |
| T280 | 383-393 | SP_7 | denotes | 15 (57.7) |
| T281 | 433-438 | UBERON:0002405;GO:0006955 | denotes | CHE I |
| T282 | 439-449 | GO:0006955 | denotes | score (me |
| T283 | 464-472 | CL:0000775 | denotes | ± 8.19 5 |
| T284 | 514-524 | SP_7 | denotes | 3.64## <0. |
| T285 | 564-569 | UBERON:0002405;GO:0006955 | denotes | 1.50 |
| T286 | 570-580 | GO:0006955 | denotes | 0.82 <0.0 |
| T287 | 595-603 | CL:0000576 | denotes | 5∗∗ 5.71 |
| T95576 | 645-655 | SP_7 | denotes | .13 2.16 ± |
| T289 | 695-700 | UBERON:0002405;GO:0006955 | denotes | <0.0 |
| T290 | 701-711 | GO:0006955 | denotes | 01 PSI (me |
| T17416 | 1070-1080 | SP_7 | denotes | 1.11 ± 0. |
| T36679 | 1108-1111 | PR:000001004 | denotes | 0. |
| T46992 | 1112-1116 | PR:000001006 | denotes | 0∗ 0 |
| T27901 | 1118-1130 | CL:0000542 | denotes | 77 aPTT (se |
| T61002 | 1140-1144 | PR:000001006 | denotes | ± 12 |
| T78906 | 1146-1157 | CL:0000542 | denotes | 5 33.40 ± 6 |
| T18777 | 1163-1167 | PR:000001483 | denotes | 165 |
| T82514 | 1168-1172 | PR:000001024 | denotes | 8.42 |
| T67194 | 1173-1177 | PR:000001006 | denotes | ± 23 |
| T57852 | 1190-1194 | PR:000001002 | denotes | 9.88 |
| T74187 | 1195-1199 | PR:000001006 | denotes | 0.8 |
| T51485 | 1201-1213 | CL:0000542 | denotes | Fibrinogen |
| T75127 | 1245-1253 | SP_7 | denotes | 52.5 0.2 |
| T79014 | 1394-1402 | SP_7 | denotes | 1.55 ± 1 |
| T84083 | 1417-1420 | PR:000001004 | denotes | 0. |
| T30397 | 1421-1425 | PR:000001006 | denotes | 01 1 |
| T75758 | 1427-1438 | CL:0000542 | denotes | 1 ± 0.90∗ 1 |
| T41299 | 1454-1459 | PR:000001483 | denotes | 1 To |
| T12888 | 1460-1464 | PR:000001006 | denotes | al b |
| T4856 | 1476-1480 | PR:000001002 | denotes | /dl) |
| T26978 | 1481-1485 | PR:000001006 | denotes | 1.43 |
| T99843 | 1487-1498 | CL:0000542 | denotes | 1.92 0.67 |
| T26411 | 1536-1541 | UBERON:0002405 | denotes | 0.58 |
| T52616 | 1542-1556 | GO:0065007 | denotes | AST (U/l) 15 |
| T19523 | 1567-1575 | SP_7 | denotes | 39.9 ± |
| T71646 | 1601-1604 | PR:000001004 | denotes | 76. |
| T34262 | 1606-1610 | PR:000001006 | denotes | ± 59 |
| T24520 | 1612-1624 | CL:0000542 | denotes | # 0.102 ALT |
| T18346 | 1634-1638 | PR:000001006 | denotes | .6 ± |
| T91659 | 1640-1651 | CL:0000542 | denotes | 64.3 40.2 ± |
| T48046 | 1661-1665 | PR:000001483 | denotes | 0 17 |
| T24770 | 1666-1670 | PR:000001024 | denotes | .8 ± |
| T13763 | 1671-1675 | PR:000001006 | denotes | 378. |
| T41969 | 1713-1718 | UBERON:0002405 | denotes | es (n |
| T34348 | 1811-1818 | NCBITaxon:10239 | denotes | eart fa |
| T64438 | 1851-1861 | SP_7 | denotes | (32.1)∗ 4 |
| T57025 | 1892-1895 | PR:000001004 | denotes | ise |
| T64196 | 1896-1900 | PR:000001006 | denotes | se 7 |
| T43300 | 1902-1913 | CL:0000542 | denotes | 14.6) 2 (7. |
| T63493 | 1934-1938 | PR:000001483 | denotes | (17. |
| T53839 | 1939-1943 | PR:000001024 | denotes | )∗ 1 |
| T83790 | 1944-1948 | PR:000001006 | denotes | 0 Co |
| T90081 | 1960-1964 | PR:000001002 | denotes | th t |
| T61628 | 1965-1969 | PR:000001006 | denotes | e re |
| T45644 | 1971-1982 | CL:0000542 | denotes | ective grou |
| T49355 | 2048-2053 | PR:000001092;GO:0032620 | denotes | nific |
| T76356 | 2054-2064 | GO:0032620 | denotes | nt; ∗∗p < |
| T18711 | 2112-2117 | UBERON:0002405 | denotes | e as |
| T74798 | 2118-2131 | GO:0065007 | denotes | ollows: ALT, |
| T65161 | 2220-2230 | SP_7 | denotes | notransfer |
| T20688 | 2259-2262 | PR:000001004 | denotes | an |
| T1928 | 2263-2267 | PR:000001006 | denotes | chr |
| T55211 | 2269-2280 | CL:0000542 | denotes | ic health e |
| T81656 | 2294-2298 | PR:000001006 | denotes | , Ch |
| T87232 | 2300-2311 | CL:0000542 | denotes | lson’s como |
| T85579 | 2321-2325 | PR:000001483 | denotes | dex; |
| T21243 | 2326-2330 | PR:000001024 | denotes | INR, |
| T53498 | 2331-2335 | PR:000001006 | denotes | inte |
| T56782 | 2337-2348 | CL:0000542 | denotes | ational nor |
| T84027 | 2358-2362 | PR:000001483 | denotes | tio; |
| T83216 | 2363-2367 | PR:000001024 | denotes | PSI, |
| T41056 | 2368-2372 | PR:000001006 | denotes | pneu |
| T91153 | 2389-2393 | PR:000001002 | denotes | dex; |
| T83343 | 2394-2398 | PR:000001006 | denotes | SD, |
| T84418 | 2400-2411 | CL:0000542 | denotes | andard devi |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 222 | 1544-1547 | Gene | denotes | AST | Gene:26503 |
| 223 | 187-197 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 224 | 216-226 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
| 225 | 245-253 | Species | denotes | patients | Tax:9606 |
| 226 | 1375-1385 | Chemical | denotes | Creatinine | MESH:D003404 |
| 227 | 130-149 | Disease | denotes | respiratory failure | MESH:D012131 |
| 228 | 157-176 | Disease | denotes | respiratory failure | MESH:D012131 |
| 229 | 1731-1748 | Disease | denotes | diabetes mellitus | MESH:D003920 |
| 230 | 1802-1823 | Disease | denotes | Chronic heart failure | MESH:D006333 |
| 231 | 1876-1898 | Disease | denotes | Coronary heart disease | MESH:D003324 |
| 233 | 96-105 | Disease | denotes | Pneumonia | MESH:D011014 |
| 239 | 2131-2155 | Gene | denotes | alanine aminotransferase | Gene:2875 |
| 240 | 2202-2205 | Gene | denotes | AST | Gene:26503 |
| 241 | 1993-2012 | Disease | denotes | respiratory failure | MESH:D012131 |
| 242 | 2368-2377 | Disease | denotes | pneumonia | MESH:D011014 |
| 243 | 2435-2448 | Disease | denotes | organ failure | MESH:D009102 |