> top > docs > PMC:7239617 > annotations

PMC:7239617 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
4 74-82 Species denotes patients Tax:9606
5 23-55 Disease denotes invasive pulmonary aspergillosis MESH:D055744
6 59-73 Disease denotes critically ill MESH:D016638
7 88-96 Disease denotes COVID-19 MESH:C000657245
25 110-118 Species denotes patients Tax:9606
26 213-221 Species denotes patients Tax:9606
27 345-349 Species denotes H1N1 Tax:114727
28 479-487 Species denotes patients Tax:9606
29 624-632 Species denotes patients Tax:9606
30 831-839 Species denotes patients Tax:9606
31 947-955 Species denotes patients Tax:9606
32 882-893 Species denotes Aspergillus Tax:746128
33 1049-1062 Chemical denotes galactomannan MESH:C012990
34 124-148 Disease denotes coronavirus disease 2019 MESH:C000657245
35 150-158 Disease denotes COVID-19 MESH:C000657245
36 253-273 Disease denotes secondary infections MESH:D060085
37 284-316 Disease denotes invasive pulmonary aspergillosis MESH:D055744
38 464-478 Disease denotes critically ill MESH:D016638
39 545-554 Disease denotes mortality MESH:D003643
40 723-729 Disease denotes Cancer MESH:D009369
41 796-809 Disease denotes aspergillosis MESH:D001228
55 1173-1181 Species denotes patients Tax:9606
56 1274-1282 Species denotes patients Tax:9606
57 1302-1310 Species denotes patients Tax:9606
58 1773-1794 Species denotes Aspergillus fumigatus Tax:746128
59 1598-1609 Species denotes Aspergillus Tax:746128
60 1710-1721 Species denotes Aspergillus Tax:746128
61 1448-1458 Chemical denotes β-D-glucan
62 1808-1810 Chemical denotes BA
63 4108-4121 Chemical denotes galactomannan MESH:C012990
66 1259-1273 Disease denotes critically ill MESH:D016638
67 1288-1296 Disease denotes COVID-19 MESH:C000657245
122 3601-3604 Gene denotes AZI Gene:51582
123 3614-3617 Gene denotes AZI Gene:51582
124 3583-3586 Gene denotes AZI Gene:51582
125 3565-3568 Gene denotes AZI Gene:51582
126 3545-3548 Gene denotes AZI Gene:51582
127 2589-2597 Species denotes patients Tax:9606
128 2622-2629 Species denotes patient Tax:9606
129 2641-2648 Species denotes Patient Tax:9606
130 2668-2675 Species denotes Patient Tax:9606
131 2725-2732 Species denotes Patient Tax:9606
132 2754-2761 Species denotes Patient Tax:9606
133 2781-2788 Species denotes Patient Tax:9606
134 2808-2815 Species denotes Patient Tax:9606
135 2835-2842 Species denotes Patient Tax:9606
136 2864-2871 Species denotes Patient Tax:9606
137 2697-2704 Species denotes Patient Tax:9606
138 3528-3535 Chemical denotes LPV–RTV
139 3536-3543 Chemical denotes LPV–RTV
140 3549-3556 Chemical denotes LPV–RTV
141 3557-3564 Chemical denotes LPV–RTV
142 3569-3576 Chemical denotes LPV–RTV
143 3587-3594 Chemical denotes LPV–RTV
144 3605-3612 Chemical denotes LPV–RTV
145 2556-2588 Disease denotes invasive pulmonary aspergillosis MESH:D055744
146 2914-2922 Disease denotes COVID-19 MESH:C000657245
147 2923-2935 Disease denotes Hypertension MESH:D006973
148 2937-2944 Disease denotes obesity MESH:D009765
149 2946-2969 Disease denotes ischaemic heart disease MESH:D003324
150 2970-2982 Disease denotes Hypertension MESH:D006973
151 2984-2992 Disease denotes diabetes MESH:D003920
152 2994-3014 Disease denotes obesity Hypertension MESH:D006973
153 3016-3036 Disease denotes obesity Hypertension MESH:D006973
154 3038-3046 Disease denotes diabetes MESH:D003920
155 3048-3104 Disease denotes ischaemic heart disease Asthma Hypertension Hypertension MESH:D006973
156 3106-3125 Disease denotes asthma Hypertension MESH:D006973
157 3127-3135 Disease denotes diabetes MESH:D003920
158 3204-3211 Disease denotes Myeloma MESH:D009101
159 3296-3304 Disease denotes COVID-19 MESH:C000657245
160 3313-3321 Disease denotes COVID-19 MESH:C000657245
161 3330-3338 Disease denotes COVID-19 MESH:C000657245
162 3347-3355 Disease denotes COVID-19 MESH:C000657245
163 3364-3372 Disease denotes COVID-19 MESH:C000657245
164 3381-3389 Disease denotes COVID-19 MESH:C000657245
165 3426-3434 Disease denotes COVID-19 MESH:C000657245
166 3436-3445 Disease denotes emphysema MESH:D004646
167 3454-3462 Disease denotes COVID-19 MESH:C000657245
168 3471-3479 Disease denotes COVID-19 MESH:C000657245
169 3509-3517 Disease denotes COVID-19 MESH:C000657245
170 3639-3648 Disease denotes pneumonia MESH:D011014
171 3840-3872 Disease denotes Invasive pulmonary aspergillosis MESH:D055744
180 2457-2465 Species denotes patients Tax:9606
181 2442-2456 Disease denotes critically ill MESH:D016638
182 2471-2479 Disease denotes COVID-19 MESH:C000657245
183 2508-2540 Disease denotes invasive pulmonary aspergillosis MESH:D055744
193 4538-4541 Gene denotes AZI Gene:51582
194 4498-4505 Chemical denotes LPV–RTV
195 4506-4524 Chemical denotes lopnavir–ritonavir
196 4542-4554 Chemical denotes azithromycin MESH:D017963
197 4556-4559 Chemical denotes HCQ MESH:D006886
198 4560-4578 Chemical denotes hydroxychloroquine MESH:D006886
199 4650-4662 Chemical denotes voriconazole MESH:D065819
200 4668-4679 Chemical denotes caspofungin MESH:D000077336
201 4437-4443 Disease denotes Cancer MESH:D009369
203 4712-4715 Gene denotes Pt3 Gene:7694
205 4775-4788 Chemical denotes Dexamethasone MESH:D003907
207 4984-5005 Species denotes Aspergillus fumigatus Tax:746128
215 2209-2213 Gene denotes IPAs Gene:64344
216 2156-2160 Gene denotes IPAs Gene:64344
217 1966-1974 Species denotes patients Tax:9606
218 2183-2190 Species denotes patient Tax:9606
219 2238-2246 Species denotes patients Tax:9606
220 2295-2306 Species denotes Aspergillus Tax:746128
221 1980-1988 Disease denotes COVID-19 MESH:C000657245
229 5177-5185 Species denotes patients Tax:9606
230 5613-5621 Species denotes patients Tax:9606
231 5686-5694 Species denotes patients Tax:9606
232 5429-5440 Species denotes Aspergillus Tax:746128
233 5535-5542 Chemical denotes steroid MESH:D013256
234 5128-5140 Disease denotes hypertension MESH:D006973
235 5509-5514 Disease denotes COVID MESH:C000657245
242 5818-5826 Species denotes patients Tax:9606
243 5882-5890 Species denotes patients Tax:9606
244 5915-5922 Species denotes patient Tax:9606
245 5832-5840 Disease denotes COVID-19 MESH:C000657245
246 5928-5935 Disease denotes myeloma MESH:D009101
247 6055-6063 Disease denotes COVID-19 MESH:C000657245
258 6134-6142 Species denotes patients Tax:9606
259 6552-6560 Species denotes patients Tax:9606
260 6747-6755 Species denotes patients Tax:9606
261 6267-6277 Chemical denotes β-D-glucan
262 6388-6401 Chemical denotes galactomannan MESH:C012990
263 6709-6722 Chemical denotes Galactomannan MESH:C012990
264 6709-6722 Chemical denotes Galactomannan MESH:C012990
265 6766-6784 Chemical denotes hydroxychloroquine MESH:D006886
266 6165-6173 Disease denotes COVID-19 MESH:C000657245
267 6592-6616 Disease denotes Aspergillus invasiveness MESH:D001228
272 6949-6957 Species denotes patients Tax:9606
273 6962-6983 Species denotes Aspergillus fumigatus Tax:746128
274 7027-7040 Chemical denotes galactomannan MESH:C012990
275 7063-7065 Chemical denotes BA
287 7327-7335 Species denotes patients Tax:9606
288 7404-7411 Species denotes patient Tax:9606
289 7468-7476 Species denotes patients Tax:9606
290 7515-7523 Species denotes patients Tax:9606
291 7385-7396 Species denotes Aspergillus Tax:746128
292 7542-7553 Species denotes Aspergillus Tax:746128
293 7312-7326 Disease denotes critically ill MESH:D016638
294 7341-7349 Disease denotes COVID-19 MESH:C000657245
295 7487-7492 Disease denotes death MESH:D003643
296 7584-7597 Disease denotes aspergillosis MESH:D001228
297 7615-7627 Disease denotes septic shock MESH:D012772
311 7787-7795 Species denotes patients Tax:9606
312 8000-8008 Species denotes patients Tax:9606
313 8078-8086 Species denotes patients Tax:9606
314 7965-7976 Species denotes Aspergillus Tax:746128
315 8104-8115 Species denotes Aspergillus Tax:746128
316 8171-8182 Species denotes Aspergillus Tax:746128
317 7820-7831 Chemical denotes oseltamivir MESH:D053139
318 7739-7760 Disease denotes Aspergillus infection MESH:D001228
319 7772-7786 Disease denotes critically ill MESH:D016638
320 7801-7809 Disease denotes COVID-19 MESH:C000657245
321 8092-8100 Disease denotes COVID-19 MESH:C000657245
322 8186-8194 Disease denotes COVID-19 MESH:C000657245
323 8203-8220 Disease denotes lung inflammation MESH:D011014

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T1 1113-1118 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T2 1442-1447 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T3 1510-1515 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T4 1815-1820 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T5 1885-1890 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T6 1920-1925 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T7 2956-2961 Body_part denotes heart http://purl.org/sig/ont/fma/fma7088
T8 3058-3063 Body_part denotes heart http://purl.org/sig/ont/fma/fma7088
T9 3401-3405 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195
T10 4022-4027 Body_part denotes Serum http://purl.org/sig/ont/fma/fma63083
T11 4102-4107 Body_part denotes Serum http://purl.org/sig/ont/fma/fma63083
T12 6015-6020 Body_part denotes chest http://purl.org/sig/ont/fma/fma9576
T13 6281-6286 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T14 6299-6304 Body_part denotes serum http://purl.org/sig/ont/fma/fma63083
T15 6496-6501 Body_part denotes Serum http://purl.org/sig/ont/fma/fma63083
T16 8203-8207 Body_part denotes lung http://purl.org/sig/ont/fma/fma7195

LitCovid-PD-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 1113-1118 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T2 1442-1447 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T3 1510-1515 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T4 1815-1820 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T5 1885-1890 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T6 1920-1925 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T7 2956-2961 Body_part denotes heart http://purl.obolibrary.org/obo/UBERON_0000948
T8 3058-3063 Body_part denotes heart http://purl.obolibrary.org/obo/UBERON_0000948
T9 3401-3405 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048
T10 4022-4027 Body_part denotes Serum http://purl.obolibrary.org/obo/UBERON_0001977
T11 4102-4107 Body_part denotes Serum http://purl.obolibrary.org/obo/UBERON_0001977
T12 6015-6020 Body_part denotes chest http://purl.obolibrary.org/obo/UBERON_0001443
T13 6281-6286 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T14 6299-6304 Body_part denotes serum http://purl.obolibrary.org/obo/UBERON_0001977
T15 6496-6501 Body_part denotes Serum http://purl.obolibrary.org/obo/UBERON_0001977
T16 8203-8207 Body_part denotes lung http://purl.obolibrary.org/obo/UBERON_0002048

LitCovid-PD-HP

Id Subject Object Predicate Lexical cue hp_id
T1 23-55 Phenotype denotes invasive pulmonary aspergillosis http://purl.obolibrary.org/obo/HP_0020103
T2 284-316 Phenotype denotes invasive pulmonary aspergillosis http://purl.obolibrary.org/obo/HP_0020103
T3 318-321 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T4 361-364 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T5 723-729 Phenotype denotes Cancer http://purl.obolibrary.org/obo/HP_0002664
T6 925-928 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T7 1247-1250 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T8 1414-1417 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T9 1576-1579 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T10 1739-1749 Phenotype denotes aspiration http://purl.obolibrary.org/obo/HP_0002835
T11 2271-2274 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T12 2508-2540 Phenotype denotes invasive pulmonary aspergillosis http://purl.obolibrary.org/obo/HP_0020103
T13 2556-2588 Phenotype denotes invasive pulmonary aspergillosis http://purl.obolibrary.org/obo/HP_0020103
T14 2618-2621 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T15 2923-2935 Phenotype denotes Hypertension http://purl.obolibrary.org/obo/HP_0000822
T16 2937-2944 Phenotype denotes obesity http://purl.obolibrary.org/obo/HP_0001513
T17 2970-2982 Phenotype denotes Hypertension http://purl.obolibrary.org/obo/HP_0000822
T18 2994-3001 Phenotype denotes obesity http://purl.obolibrary.org/obo/HP_0001513
T19 3002-3014 Phenotype denotes Hypertension http://purl.obolibrary.org/obo/HP_0000822
T20 3016-3023 Phenotype denotes obesity http://purl.obolibrary.org/obo/HP_0001513
T21 3024-3036 Phenotype denotes Hypertension http://purl.obolibrary.org/obo/HP_0000822
T22 3072-3078 Phenotype denotes Asthma http://purl.obolibrary.org/obo/HP_0002099
T23 3079-3091 Phenotype denotes Hypertension http://purl.obolibrary.org/obo/HP_0000822
T24 3092-3104 Phenotype denotes Hypertension http://purl.obolibrary.org/obo/HP_0000822
T25 3106-3112 Phenotype denotes asthma http://purl.obolibrary.org/obo/HP_0002099
T26 3113-3125 Phenotype denotes Hypertension http://purl.obolibrary.org/obo/HP_0000822
T27 3406-3417 Phenotype denotes atelectasis http://purl.obolibrary.org/obo/HP_0100750
T28 3436-3445 Phenotype denotes emphysema http://purl.obolibrary.org/obo/HP_0002097
T29 3639-3648 Phenotype denotes pneumonia http://purl.obolibrary.org/obo/HP_0002090
T30 3840-3872 Phenotype denotes Invasive pulmonary aspergillosis http://purl.obolibrary.org/obo/HP_0020103
T31 4437-4443 Phenotype denotes Cancer http://purl.obolibrary.org/obo/HP_0002664
T32 4621-4631 Phenotype denotes aspiration http://purl.obolibrary.org/obo/HP_0002835
T33 5128-5140 Phenotype denotes hypertension http://purl.obolibrary.org/obo/HP_0000822
T34 5191-5194 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T35 5325-5328 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T36 5627-5630 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T37 5670-5673 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T38 5682-5685 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T39 5763-5766 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T40 5960-5963 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T41 6225-6228 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T42 6626-6629 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T43 6867-6870 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T44 7238-7241 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T45 7294-7297 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T46 7482-7485 Phenotype denotes IPA http://purl.obolibrary.org/obo/HP_0020103
T47 7622-7627 Phenotype denotes shock http://purl.obolibrary.org/obo/HP_0031273

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T1 42-55 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T2 88-96 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T3 124-148 Disease denotes coronavirus disease 2019 http://purl.obolibrary.org/obo/MONDO_0100096
T4 150-158 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T5 263-273 Disease denotes infections http://purl.obolibrary.org/obo/MONDO_0005550
T6 303-316 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T7 345-359 Disease denotes H1N1 influenza http://purl.obolibrary.org/obo/MONDO_0005460
T8 350-359 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T9 493-502 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T10 723-729 Disease denotes Cancer http://purl.obolibrary.org/obo/MONDO_0004992
T11 730-737 Disease denotes Mycoses http://purl.obolibrary.org/obo/MONDO_0002041
T12 796-809 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T13 1163-1172 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T14 1288-1296 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T15 1393-1402 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T16 1980-1988 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T17 2471-2479 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T18 2527-2540 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T19 2575-2588 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T20 2914-2922 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T21 2923-2935 Disease denotes Hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T22 2937-2944 Disease denotes obesity http://purl.obolibrary.org/obo/MONDO_0011122
T23 2956-2969 Disease denotes heart disease http://purl.obolibrary.org/obo/MONDO_0005267
T24 2970-2982 Disease denotes Hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T25 2984-2992 Disease denotes diabetes http://purl.obolibrary.org/obo/MONDO_0005015
T26 2994-3001 Disease denotes obesity http://purl.obolibrary.org/obo/MONDO_0011122
T27 3002-3014 Disease denotes Hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T28 3016-3023 Disease denotes obesity http://purl.obolibrary.org/obo/MONDO_0011122
T29 3024-3036 Disease denotes Hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T30 3038-3046 Disease denotes diabetes http://purl.obolibrary.org/obo/MONDO_0005015
T31 3058-3071 Disease denotes heart disease http://purl.obolibrary.org/obo/MONDO_0005267
T32 3072-3078 Disease denotes Asthma http://purl.obolibrary.org/obo/MONDO_0004979
T33 3079-3091 Disease denotes Hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T34 3092-3104 Disease denotes Hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T35 3106-3112 Disease denotes asthma http://purl.obolibrary.org/obo/MONDO_0004979
T36 3113-3125 Disease denotes Hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T37 3127-3135 Disease denotes diabetes http://purl.obolibrary.org/obo/MONDO_0005015
T38 3204-3211 Disease denotes Myeloma http://purl.obolibrary.org/obo/MONDO_0005170|http://purl.obolibrary.org/obo/MONDO_0009693
T40 3296-3304 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T41 3313-3321 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T42 3330-3338 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T43 3347-3355 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T44 3364-3372 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T45 3381-3389 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T46 3426-3434 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T47 3436-3445 Disease denotes emphysema http://purl.obolibrary.org/obo/MONDO_0004849
T48 3454-3462 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T49 3471-3479 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T50 3509-3517 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T51 3639-3648 Disease denotes pneumonia http://purl.obolibrary.org/obo/MONDO_0005249
T52 3859-3872 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T53 4275-4278 Disease denotes CSP http://purl.obolibrary.org/obo/MONDO_0005078
T54 4437-4443 Disease denotes Cancer http://purl.obolibrary.org/obo/MONDO_0004992
T55 4664-4667 Disease denotes CSP http://purl.obolibrary.org/obo/MONDO_0005078
T56 5128-5140 Disease denotes hypertension http://purl.obolibrary.org/obo/MONDO_0005044
T57 5832-5840 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T58 5896-5905 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T59 5928-5935 Disease denotes myeloma http://purl.obolibrary.org/obo/MONDO_0005170|http://purl.obolibrary.org/obo/MONDO_0009693
T61 6055-6063 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T62 6165-6173 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T63 7341-7349 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T64 7354-7363 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T65 7584-7597 Disease denotes aspergillosis http://purl.obolibrary.org/obo/MONDO_0005657
T66 7643-7661 Disease denotes multiorgan failure http://purl.obolibrary.org/obo/MONDO_0043726
T67 7751-7760 Disease denotes infection http://purl.obolibrary.org/obo/MONDO_0005550
T68 7801-7809 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T69 8014-8023 Disease denotes influenza http://purl.obolibrary.org/obo/MONDO_0005812
T70 8092-8100 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T71 8186-8194 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096
T72 8208-8220 Disease denotes inflammation http://purl.obolibrary.org/obo/MONDO_0021166
T73 8328-8336 Disease denotes COVID-19 http://purl.obolibrary.org/obo/MONDO_0100096

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T1 376-377 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T2 564-568 http://purl.obolibrary.org/obo/CLO_0001302 denotes 3, 4
T3 680-692 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T4 1142-1145 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T5 1911-1913 http://purl.obolibrary.org/obo/CLO_0008426 denotes pg
T6 1928-1930 http://purl.obolibrary.org/obo/CLO_0050509 denotes 27
T7 1990-1992 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T8 1993-1997 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T9 1993-1997 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T10 2007-2013 http://purl.obolibrary.org/obo/UBERON_0003100 denotes female
T11 2043-2045 http://purl.obolibrary.org/obo/CLO_0054055 denotes 71
T12 2652-2656 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T13 2652-2656 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T14 2679-2685 http://purl.obolibrary.org/obo/UBERON_0003100 denotes female
T15 2707-2713 http://purl.obolibrary.org/obo/UBERON_0003100 denotes female
T16 2736-2742 http://purl.obolibrary.org/obo/UBERON_0003100 denotes female
T17 2765-2769 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T18 2765-2769 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T19 2792-2796 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T20 2792-2796 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T21 2819-2823 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T22 2819-2823 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T23 2846-2852 http://purl.obolibrary.org/obo/UBERON_0003100 denotes female
T24 2875-2879 http://purl.obolibrary.org/obo/UBERON_0003101 denotes male
T25 2875-2879 http://www.ebi.ac.uk/efo/EFO_0000970 denotes male
T26 2956-2961 http://purl.obolibrary.org/obo/UBERON_0000948 denotes heart
T27 2956-2961 http://purl.obolibrary.org/obo/UBERON_0007100 denotes heart
T28 2956-2961 http://purl.obolibrary.org/obo/UBERON_0015228 denotes heart
T29 2956-2961 http://www.ebi.ac.uk/efo/EFO_0000815 denotes heart
T30 3058-3063 http://purl.obolibrary.org/obo/UBERON_0000948 denotes heart
T31 3058-3063 http://purl.obolibrary.org/obo/UBERON_0007100 denotes heart
T32 3058-3063 http://purl.obolibrary.org/obo/UBERON_0015228 denotes heart
T33 3058-3063 http://www.ebi.ac.uk/efo/EFO_0000815 denotes heart
T34 3244-3246 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T35 3401-3405 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T36 3401-3405 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T37 3940-3942 http://purl.obolibrary.org/obo/CLO_0001302 denotes 34
T38 4016-4018 http://purl.obolibrary.org/obo/CLO_0001313 denotes 36
T39 4065-4067 http://purl.obolibrary.org/obo/CLO_0008426 denotes pg
T40 4208-4211 http://purl.obolibrary.org/obo/CLO_0050507 denotes 2 2
T41 4347-4349 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T42 4362-4364 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T43 4394-4406 http://purl.obolibrary.org/obo/OBI_0000245 denotes Organization
T44 5220-5222 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T45 5608-5610 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T46 5727-5729 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T47 5841-5842 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T48 5906-5910 http://purl.obolibrary.org/obo/CLO_0001302 denotes 3, 4
T49 6015-6020 http://www.ebi.ac.uk/efo/EFO_0000965 denotes chest
T50 6105-6114 http://www.ebi.ac.uk/efo/EFO_0000876 denotes extremely
T51 6402-6409 http://purl.obolibrary.org/obo/UBERON_0000473 denotes testing
T52 6573-6574 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T53 6811-6812 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T54 7109-7110 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T55 7243-7245 http://purl.obolibrary.org/obo/CLO_0050507 denotes 22
T56 7690-7692 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11
T57 7877-7885 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T58 7886-7889 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T59 7908-7909 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T60 8203-8207 http://purl.obolibrary.org/obo/UBERON_0002048 denotes lung
T61 8203-8207 http://www.ebi.ac.uk/efo/EFO_0000934 denotes lung
T62 8469-8471 http://purl.obolibrary.org/obo/CLO_0053733 denotes 11

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T1 318-321 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T3 361-364 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T5 757-760 Chemical denotes MSG http://purl.obolibrary.org/obo/CHEBI_64220|http://purl.obolibrary.org/obo/CHEBI_64243
T7 925-928 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T9 1049-1062 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T10 1104-1107 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T11 1247-1250 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T13 1349-1352 Chemical denotes MSG http://purl.obolibrary.org/obo/CHEBI_64220|http://purl.obolibrary.org/obo/CHEBI_64243
T15 1414-1417 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T17 1452-1458 Chemical denotes glucan http://purl.obolibrary.org/obo/CHEBI_37163
T18 1576-1579 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T20 1633-1636 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T21 1803-1806 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T22 1823-1836 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T23 1851-1854 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T24 1857-1870 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T25 1900-1906 Chemical denotes glucan http://purl.obolibrary.org/obo/CHEBI_37163
T26 1993-1997 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T27 2271-2274 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T29 2329-2332 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T30 2618-2621 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T32 2652-2656 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T33 2765-2769 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T34 2792-2796 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T35 2819-2823 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T36 2875-2879 Chemical denotes male http://purl.obolibrary.org/obo/CHEBI_30780
T37 3213-3221 Chemical denotes steroids http://purl.obolibrary.org/obo/CHEBI_35341
T38 3229-3231 Chemical denotes II http://purl.obolibrary.org/obo/CHEBI_74067
T39 3806-3809 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T40 3810-3813 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T41 3817-3820 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T42 3821-3824 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T43 3825-3828 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T44 3829-3832 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T45 3833-3836 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T46 3883-3886 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T47 3914-3917 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T48 3957-3960 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T49 3961-3974 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T50 3991-3993 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T51 4019-4021 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T52 4040-4042 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T53 4057-4063 Chemical denotes glucan http://purl.obolibrary.org/obo/CHEBI_37163
T54 4075-4077 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T55 4108-4121 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T56 4515-4524 Chemical denotes ritonavir http://purl.obolibrary.org/obo/CHEBI_45409
T57 4542-4554 Chemical denotes azithromycin http://purl.obolibrary.org/obo/CHEBI_2955
T58 4560-4578 Chemical denotes hydroxychloroquine http://purl.obolibrary.org/obo/CHEBI_5801
T59 4580-4583 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T60 4633-4635 Chemical denotes ND http://purl.obolibrary.org/obo/CHEBI_73419
T61 4650-4662 Chemical denotes voriconazole http://purl.obolibrary.org/obo/CHEBI_10023
T62 4668-4679 Chemical denotes caspofungin http://purl.obolibrary.org/obo/CHEBI_474180
T63 4775-4788 Chemical denotes Dexamethasone http://purl.obolibrary.org/obo/CHEBI_41879
T64 5191-5194 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T66 5304-5307 Chemical denotes MSG http://purl.obolibrary.org/obo/CHEBI_64220|http://purl.obolibrary.org/obo/CHEBI_64243
T68 5325-5328 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T70 5535-5542 Chemical denotes steroid http://purl.obolibrary.org/obo/CHEBI_35341
T71 5627-5630 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T73 5670-5673 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T75 5682-5685 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T77 5763-5766 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T79 5960-5963 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T81 6097-6100 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T82 6225-6228 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T84 6271-6277 Chemical denotes glucan http://purl.obolibrary.org/obo/CHEBI_37163
T85 6372-6375 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T86 6388-6401 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T87 6502-6515 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T88 6626-6629 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T90 6766-6784 Chemical denotes hydroxychloroquine http://purl.obolibrary.org/obo/CHEBI_5801
T91 6867-6870 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T93 7027-7040 Chemical denotes galactomannan http://purl.obolibrary.org/obo/CHEBI_27680
T94 7041-7048 Chemical denotes antigen http://purl.obolibrary.org/obo/CHEBI_59132
T95 7056-7059 Chemical denotes BAL http://purl.obolibrary.org/obo/CHEBI_64198
T96 7238-7241 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T98 7294-7297 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T100 7482-7485 Chemical denotes IPA http://purl.obolibrary.org/obo/CHEBI_17824|http://purl.obolibrary.org/obo/CHEBI_30802
T102 7820-7831 Chemical denotes oseltamivir http://purl.obolibrary.org/obo/CHEBI_7798
T103 8464-8467 Chemical denotes CPP http://purl.obolibrary.org/obo/CHEBI_34603

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T1 8208-8220 http://purl.obolibrary.org/obo/GO_0006954 denotes inflammation

LitCovid-PD-GlycoEpitope

Id Subject Object Predicate Lexical cue glyco_epitope_db_id
T1 1049-1062 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T2 1823-1836 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T3 1857-1870 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T4 3961-3974 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T5 4108-4121 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T6 6388-6401 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T7 6502-6515 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T8 6709-6722 GlycoEpitope denotes Galactomannan http://www.glycoepitope.jp/epitopes/EP0510
T9 7027-7040 GlycoEpitope denotes galactomannan http://www.glycoepitope.jp/epitopes/EP0510

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T1 0-96 Sentence denotes Prevalence of putative invasive pulmonary aspergillosis in critically ill patients with COVID-19
T2 98-1123 Sentence denotes About 5% of patients with coronavirus disease 2019 (COVID-19) require intensive care unit (ICU) management.1 These patients are at high risk of developing secondary infections including invasive pulmonary aspergillosis (IPA).2 First reported with H1N1 influenza, IPA represents a frequent (20–30%) and early-onset complication (median, 3 days post-ICU admission) in critically ill patients with influenza, leading to enhanced illness severity and mortality (40–60%).3, 4 Most cases have been observed in non-immunocompromised patients, questioning the applicability of the European Organization for Research and Treatment of Cancer Mycoses Study Group (EORTC-MSG) consensus criteria used to define aspergillosis in immunocompromised patients.5 Therefore, an algorithm to discriminate Aspergillus spp colonisation from putative IPA was developed for patients in ICU on the basis of mycological criteria combining culture from respiratory specimens and galactomannan detection in the bronchoalveolar lavage (BAL) and serum.4, 6
T3 1124-1297 Sentence denotes Parallelling what has been reported in influenza patients, we designed this prospective observational study to investigate IPA risk in critically ill patients with COVID-19.
T4 1298-1566 Sentence denotes The patients were classified by means of the EORTC-MSG criteria5 (if immunocompromised) or the influenza-associated IPA criteria4 combined with serum β-D-glucan and quantitative real-time PCR (qPCR)7 done in the serum or pulmonary specimens (if non-immunocompromised).
T5 1567-1927 Sentence denotes Putative IPA was considered if Aspergillus spp were identified in BAL culture; or if two of the following conditions were met (ie, presence of Aspergillus spp in bronchial aspiration [BA] culture; positive Aspergillus fumigatus qPCR in BAL, BA, or serum;8 galactomannan index >0·8 in BAL;5 galactomannan index >0·5 in serum; and β-D-glucan >80 pg/mL in serum).
T6 1928-2062 Sentence denotes 27 successive mechanically ventilated patients with COVID-19 (18 male and nine female, median age 63 years [IQR 56-71]) were included.
T7 2063-2146 Sentence denotes Specimens (20 BALs and seven BAs) were obtained on day 3 [IQR 1–6] post-intubation.
T8 2147-2261 Sentence denotes Probable IPAs were diagnosed in one patient (4%) and putative IPAs were diagnosed in eight patients (30%; table ).
T9 2262-2402 Sentence denotes Putative IPA diagnosis relied on Aspergillus spp identification in BAL culture (n=2) and validation of 2 or more mycological criteria (n=6).
T10 2403-2546 Sentence denotes Table Clinical characteristics of nine critically ill patients with COVID-19 probable (n=1) and putative invasive pulmonary aspergillosis (n=8)
T11 2547-2640 Sentence denotes Putative invasive pulmonary aspergillosis patients (sex, age) Probable IPA patient (sex, age)
T12 2641-2890 Sentence denotes Patient 1 (male, 53 years) Patient 2 (female, 59 years) Patient3 (female, 69 years) Patient 4 (female, 63 years) Patient 5 (male, 43 years) Patient 6 (male, 79 years) Patient 7 (male, 77 years) Patient 8 (female, 75 years) Patient 9 (male, 47 years)
T13 2891-3140 Sentence denotes Risk factors of severe COVID-19 Hypertension, obesity, ischaemic heart disease Hypertension, diabetes, obesity Hypertension, obesity Hypertension, diabetes, ischaemic heart disease Asthma Hypertension Hypertension, asthma Hypertension, diabetes None
T14 3141-3221 Sentence denotes EORTC risk factors None None None None Steroids None None None Myeloma, steroids
T15 3222-3263 Sentence denotes APACHE II score 26 16 11 20 8 16 25 21 10
T16 3264-3503 Sentence denotes Thoracic CT-scan/x-ray* Typical COVID-19 Typical COVID-19 Typical COVID-19 Typical COVID-19 Typical COVID-19 Typical COVID-19, segmental lung atelectasis Typical COVID-19, emphysema Typical COVID-19 Typical COVID-19 + one peripheral nodule
T17 3504-3620 Sentence denotes Anti-COVID-19 therapies LPV–RTV LPV–RTV, AZI LPV–RTV LPV–RTV AZI LPV–RTV, HCQ, AZI LPV–RTV, HCQ, AZI LPV–RTV, AZI No
T18 3621-3682 Sentence denotes Steroids to treat pneumonia† Yes No Yes Yes No Yes Yes Yes No
T19 3683-3738 Sentence denotes Renal replacement therapy Yes No No Yes No No Yes No No
T20 3739-3785 Sentence denotes Vasopressor Yes Yes Yes Yes No Yes Yes Yes Yes
T21 3786-3839 Sentence denotes Pulmonary specimen‡ BAL BAL BA BAL BAL BAL BAL BAL BA
T22 3840-3882 Sentence denotes Invasive pulmonary aspergillosis diagnosis
T23 3883-3913 Sentence denotes BAL culture§ − + + − + + + + +
T24 3914-3956 Sentence denotes BAL/BA qPCR¶ − − 23·9 − − 34·5 29·0 31·7 −
T25 3957-4021 Sentence denotes BAL galactomannan index 0·89 0·03 ND 0·15 0·12 0·05 3·91 0·36 ND
T26 4022-4052 Sentence denotes Serum qPCR¶ − − − ND − − − − −
T27 4053-4101 Sentence denotes β-D-glucan, pg/mL 523 ND 7·8 105 7 23 135 450 14
T28 4102-4172 Sentence denotes Serum galactomannan index 0·13 0·04 0·03 0·51 0·04 0·02 0·37 0·37 0·09
T29 4173-4221 Sentence denotes Number of mycological criteria 2 1 2 2 1 2 3 3 1
T30 4222-4283 Sentence denotes Antifungal therapy None None None None None None VRC CSP None
T31 4284-4378 Sentence denotes Outcome Alive Alive Alive Death (day 0) Alive Alive Death (day 18) Death (day 11) Death day 3)
T32 4379-4444 Sentence denotes EORTC=European Organization for Research and Treatment of Cancer.
T33 4445-4497 Sentence denotes APACHE= Acute Physiology and Chronic Health Enquiry.
T34 4498-4537 Sentence denotes LPV–RTV=lopnavir–ritonavir combination.
T35 4538-4555 Sentence denotes AZI=azithromycin.
T36 4556-4579 Sentence denotes HCQ=hydroxychloroquine.
T37 4580-4607 Sentence denotes BAL=Bronchoalveolar lavage.
T38 4608-4632 Sentence denotes BA=bronchial aspiration.
T39 4633-4645 Sentence denotes ND=not done.
T40 4646-4663 Sentence denotes VRC=voriconazole.
T41 4664-4680 Sentence denotes CSP=caspofungin.
T42 4681-4772 Sentence denotes * Thoracic CT scan was done in Pt3, Pt4, Pt5, 5 days (median) before respiratory specimens.
T43 4773-4897 Sentence denotes † Dexamethasone intravenous dose of 20 mg once daily from day 1 to day 5, followed by 10 mg once daily from day 6 to day 10;
T44 4898-4953 Sentence denotes ‡ No endotracheal or endobronchial lesion was observed.
T45 4954-5021 Sentence denotes § −=negative; +=positive with Aspergillus fumigatus identification.
T46 5022-5116 Sentence denotes ¶ qPCR=quantitative real-time PCR (−, negative; if positive, number of quantification cycles).
T47 5117-5233 Sentence denotes History of hypertension was reported more frequently in the patients with IPA (seven of nine vs six of 18, p=0·046).
T48 5234-5558 Sentence denotes No other significant differences were observed in terms of age, EORTC-MSG risk factors for IPA, time between onset of symptoms and intubation and time between onset of symptoms or intubation and Aspergillus spp respiratory specimen collection, severity, laboratory data, non-COVID CT-scan images, and steroid administration.
T49 5559-5631 Sentence denotes Antifungal therapy was initiated in two of nine (22%) patients with IPA.
T50 5632-5744 Sentence denotes Mortality rate did not differ between IPA and non-IPA patients (four of nine [44%] vs seven of 18 [39%], p=0·99.
T51 5745-6083 Sentence denotes We found putative IPA in almost one-third of our mechanically ventilated patients with COVID-19—a similar prevalence to that observed in patients with influenza.3, 4 One patient with myeloma presented with probable IPA on the basis of EORTC criteria5 with one nodule on chest x-rays in addition to the typical COVID-19-attributed lesions.
T52 6084-6239 Sentence denotes Since CT and BAL are extremely difficult to do in patients with life-threatening COVID-19, mycological data collection is essential to allow IPA diagnosis.
T53 6240-6495 Sentence denotes We strongly support adding β-D-glucan in serum and qPCR in serum and respiratory specimens to the accepted mycological work-up (ie, BAL culture and galactomannan testing)4, 6 until the most sensitive and specific biomarkers are identified in this setting.
T54 6496-6708 Sentence denotes Serum galactomannan was negative in eight of nine (89%) patients, suggesting a lesser degree of Aspergillus invasiveness or early IPA diagnosis, since respiratory specimens were obtained shortly after intubation.
T55 6709-6850 Sentence denotes Galactomannan was negative in our two patients receiving hydroxychloroquine, which is thought to have a negative effect on this measurement.9
T56 6851-6933 Sentence denotes We believe that IPA is more probable if at least two mycological criteria are met.
T57 6934-7066 Sentence denotes However, three patients had Aspergillus fumigatus culture without positive qPCR detection or galactomannan antigen in the BAL or BA.
T58 7067-7277 Sentence denotes Not considering positive culture alone as a diagnostic criterion in accordance with what is accepted,4, 6 would have resulted in underestimating the frequency of putative IPA (22% rather than 30% in our study).
T59 7278-7460 Sentence denotes Despite similar IPA prevalence in critically ill patients with COVID-19 and influenza, the contribution of Aspergillus to the patient presentation in each illness might be different.
T60 7461-7662 Sentence denotes In our patients with IPA, death, including in the two patients who received anti-Aspergillus treatment, was not related to aspergillosis but to bacterial septic shock complicated by multiorgan failure.
T61 7663-7810 Sentence denotes Consistent with others,10, 11 our findings support systematic screening for Aspergillus infection markers in critically ill patients with COVID-19.
T62 7811-8221 Sentence denotes Although oseltamivir-induced inhibition of the host neuraminidase activity has been suggested as a possible molecular mechanism leading to decreased anti-Aspergillus protective immunity in patients with influenza, the exact reasons for increased vulnerability of the patients with COVID-19 to Aspergillus remain to be identified as well as the contribution of Aspergillus to COVID-19-related lung inflammation.
T63 8223-8266 Sentence denotes The authors declare no competing interests.
T64 8267-8385 Sentence denotes This study was part of the COVID-ICU registry and the French COVID-19 cohort registry done by the REACTing consortium.
T65 8386-8491 Sentence denotes Our institutional ethics committee approved the study (IDRCB, 2020-A00256-33; CPP, 11-20 20.02.04.68737).