PMC:7455510 / 8704-10217
Annnotations
LitCovid-PD-FMA-UBERON
Id | Subject | Object | Predicate | Lexical cue | fma_id |
---|---|---|---|---|---|
T20 | 24-47 | Body_part | denotes | hematopoietic stem cell | http://purl.org/sig/ont/fma/fma86475 |
T21 | 43-47 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
T22 | 99-103 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
T23 | 110-123 | Body_part | denotes | lymphoblastic | http://purl.org/sig/ont/fma/fma83030 |
T24 | 142-146 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
T25 | 153-166 | Body_part | denotes | lymphoblastic | http://purl.org/sig/ont/fma/fma83030 |
LitCovid-PD-MONDO
Id | Subject | Object | Predicate | Lexical cue | mondo_id |
---|---|---|---|---|---|
T54 | 60-63 | Disease | denotes | PID | http://purl.obolibrary.org/obo/MONDO_0000922 |
T55 | 72-88 | Disease | denotes | immunodeficiency | http://purl.obolibrary.org/obo/MONDO_0021094 |
T56 | 90-95 | Disease | denotes | B-ALL | http://purl.obolibrary.org/obo/MONDO_0020511 |
T57 | 97-132 | Disease | denotes | B cell acute lymphoblastic leukemia | http://purl.obolibrary.org/obo/MONDO_0004947|http://purl.obolibrary.org/obo/MONDO_0020511 |
T59 | 104-132 | Disease | denotes | acute lymphoblastic leukemia | http://purl.obolibrary.org/obo/MONDO_0004967 |
T60 | 110-132 | Disease | denotes | lymphoblastic leukemia | http://purl.obolibrary.org/obo/MONDO_0001018 |
T61 | 124-132 | Disease | denotes | leukemia | http://purl.obolibrary.org/obo/MONDO_0005059 |
T62 | 134-139 | Disease | denotes | T-ALL | http://purl.obolibrary.org/obo/MONDO_0004963|http://purl.obolibrary.org/obo/MONDO_0020512 |
T64 | 140-175 | Disease | denotes | T cell acute lymphoblastic leukemia | http://purl.obolibrary.org/obo/MONDO_0003540|http://purl.obolibrary.org/obo/MONDO_0004963 |
T66 | 147-175 | Disease | denotes | acute lymphoblastic leukemia | http://purl.obolibrary.org/obo/MONDO_0004967 |
T67 | 153-175 | Disease | denotes | lymphoblastic leukemia | http://purl.obolibrary.org/obo/MONDO_0001018 |
T68 | 167-175 | Disease | denotes | leukemia | http://purl.obolibrary.org/obo/MONDO_0005059 |
T69 | 278-281 | Disease | denotes | HLH | http://purl.obolibrary.org/obo/MONDO_0015540 |
T70 | 282-316 | Disease | denotes | hemophagocytic lymphohistiocytosis | http://purl.obolibrary.org/obo/MONDO_0015540 |
T71 | 318-321 | Disease | denotes | MMF | http://purl.obolibrary.org/obo/MONDO_0018942 |
T72 | 412-420 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T73 | 1291-1294 | Disease | denotes | HLH | http://purl.obolibrary.org/obo/MONDO_0015540 |
LitCovid-PD-CLO
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T60 | 2-8 | http://purl.obolibrary.org/obo/UBERON_0003100 | denotes | female |
T61 | 12-16 | http://purl.obolibrary.org/obo/UBERON_0003101 | denotes | male |
T62 | 12-16 | http://www.ebi.ac.uk/efo/EFO_0000970 | denotes | male |
T63 | 38-47 | http://purl.obolibrary.org/obo/CL_0000034 | denotes | stem cell |
T64 | 90-91 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
T65 | 97-103 | http://purl.obolibrary.org/obo/CL_0000236 | denotes | B cell |
T66 | 140-146 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | T cell |
T67 | 370-374 | http://purl.obolibrary.org/obo/CLO_0001302 | denotes | 3, 4 |
T68 | 428-429 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T69 | 995-996 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T70 | 1108-1109 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T71 | 1321-1322 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T72 | 1478-1479 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
Id | Subject | Object | Predicate | Lexical cue | chebi_id |
---|---|---|---|---|---|
T41 | 12-16 | Chemical | denotes | male | http://purl.obolibrary.org/obo/CHEBI_30780 |
T42 | 60-63 | Chemical | denotes | PID | http://purl.obolibrary.org/obo/CHEBI_8066 |
T43 | 196-214 | Chemical | denotes | hydroxychloroquine | http://purl.obolibrary.org/obo/CHEBI_5801 |
T44 | 246-265 | Chemical | denotes | lopinavir/ritonavir | http://purl.obolibrary.org/obo/CHEBI_145924 |
T45 | 246-255 | Chemical | denotes | lopinavir | http://purl.obolibrary.org/obo/CHEBI_31781 |
T46 | 256-265 | Chemical | denotes | ritonavir | http://purl.obolibrary.org/obo/CHEBI_45409 |
T47 | 267-269 | Chemical | denotes | O2 | http://purl.obolibrary.org/obo/CHEBI_15379 |
T48 | 270-276 | Chemical | denotes | oxygen | http://purl.obolibrary.org/obo/CHEBI_25805 |
T49 | 318-321 | Chemical | denotes | MMF | http://purl.obolibrary.org/obo/CHEBI_8764 |
T50 | 322-335 | Chemical | denotes | mycophenolate | http://purl.obolibrary.org/obo/CHEBI_62932 |
T51 | 1256-1269 | Chemical | denotes | Dexamethasone | http://purl.obolibrary.org/obo/CHEBI_41879 |
T52 | 1499-1513 | Chemical | denotes | hydrocortisone | http://purl.obolibrary.org/obo/CHEBI_17650 |
LitCovid-PD-HP
Id | Subject | Object | Predicate | Lexical cue | hp_id |
---|---|---|---|---|---|
T27 | 72-88 | Phenotype | denotes | immunodeficiency | http://purl.obolibrary.org/obo/HP_0002721 |
T28 | 99-135 | Phenotype | denotes | cell acute lymphoblastic leukemia, T | http://purl.obolibrary.org/obo/HP_0006727 |
T29 | 140-175 | Phenotype | denotes | T cell acute lymphoblastic leukemia | http://purl.obolibrary.org/obo/HP_0006727 |
T30 | 610-615 | Phenotype | denotes | fever | http://purl.obolibrary.org/obo/HP_0001945 |
LitCovid-sentences
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T97 | 0-96 | Sentence | denotes | F female, M male, HSCT: hematopoietic stem cell transplant, PID primary immunodeficiency, B-ALL: |
T98 | 97-317 | Sentence | denotes | B cell acute lymphoblastic leukemia, T-ALL T cell acute lymphoblastic leukemia, Tx transplant, HCQ hydroxychloroquine, IS immunosuppressors, LPV/Rtv lopinavir/ritonavir, O2 oxygen; HLH hemophagocytic lymphohistiocytosis. |
T99 | 318-335 | Sentence | denotes | MMF mycophenolate |
T100 | 336-497 | Sentence | denotes | *HCQ was initiated in patients 1, 3, 4, and 8 once confirmation of positive SARS-CoV-2 with a nasal swab was obtained (< 24 h from consultation at our hospital). |
T101 | 498-595 | Sentence | denotes | Patients 1, 3, and 8 attended the Emergency Department in the first 24 h after onset of symptoms. |
T102 | 596-762 | Sentence | denotes | Patient 4 had fever of 4 days when the nasal swab was obtained, and patient 7 received 5 days of LPV/Rtv initially and due to persistent symptoms was switched to HCQ. |
T103 | 763-967 | Sentence | denotes | According to our guidelines, the oral dose was as follows: HCQ 6.5 mg/kg/day (dosing q12 h) in 6 year-olds, and HCQ 10 mg/kg/day (dosing q12 h) in children > 6 years (maximum daily dose 400 mg) for 5 days |
T104 | 968-1252 | Sentence | denotes | **Remdesivir was given for a total of 7 days on patient 1 and 10 days on patient 4, at an intravenous dose of 5 mg/kg on day 1, followed by a maintenance dose of 2.5 mg/kg from days 2 to 9 (patients <40 kg) or 200 mg/iv on day 1 followed by 100 mg/iv on days 2-9 (for patients >40 kg) |
T105 | 1253-1340 | Sentence | denotes | ***Dexamethasone was given as per the HLH 2004 trial, although with a shorter duration: |
T106 | 1341-1513 | Sentence | denotes | 10 mg/m2/day for 7 days, followed by 5 mg/m2/day for another 7 days, followed by 2.5 mg/m2 for 7 days and 1.25 mg/m2 for 2 days and then a tapering dose with hydrocortisone |
LitCovid-PMC-OGER-BB
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T102 | 24-37 | GO:0030097;CL:0000037 | denotes | hematopoietic |
T103 | 38-47 | CL:0000037 | denotes | stem cell |
T104 | 97-103 | CL:0000236 | denotes | B cell |
T105 | 140-146 | CL:0000084 | denotes | T cell |
T106 | 196-214 | CHEBI:5801;DG_20;CHEBI:5801 | denotes | hydroxychloroquine |
T107 | 219-236 | CHEBI:35705;CHEBI:35705 | denotes | immunosuppressors |
T108 | 246-255 | DG_23 | denotes | lopinavir |
T109 | 256-265 | DG_30 | denotes | ritonavir |
T110 | 267-269 | CHEBI:15379;CHEBI:15379 | denotes | O2 |
T111 | 282-296 | GO:0030097 | denotes | hemophagocytic |
T112 | 322-335 | CHEBI:62932;CHEBI:62932 | denotes | mycophenolate |
T113 | 412-422 | SP_7 | denotes | SARS-CoV-2 |
T114 | 430-435 | UBERON:0000004 | denotes | nasal |
T115 | 635-640 | UBERON:0001707 | denotes | nasal |
T116 | 641-645 | UBERON:0001823 | denotes | swab |
T117 | 796-800 | UBERON:0000165 | denotes | oral |
T118 | 970-980 | DG_28 | denotes | Remdesivir |
T119 | 1256-1269 | CHEBI:41879;CHEBI:41879 | denotes | Dexamethasone |
T120 | 1499-1513 | CHEBI:24751;CHEBI:24751 | denotes | hydrocortisone |
T55685 | 24-37 | GO:0030097;CL:0000037 | denotes | hematopoietic |
T53406 | 38-47 | CL:0000037 | denotes | stem cell |
T50125 | 97-103 | CL:0000236 | denotes | B cell |
T74346 | 140-146 | CL:0000084 | denotes | T cell |
T78965 | 196-214 | CHEBI:5801;DG_20;CHEBI:5801 | denotes | hydroxychloroquine |
T93758 | 219-236 | CHEBI:35705;CHEBI:35705 | denotes | immunosuppressors |
T25906 | 246-255 | DG_23 | denotes | lopinavir |
T85834 | 256-265 | DG_30 | denotes | ritonavir |
T87655 | 267-269 | CHEBI:15379;CHEBI:15379 | denotes | O2 |
T74525 | 282-296 | GO:0030097 | denotes | hemophagocytic |
T46160 | 322-335 | CHEBI:62932;CHEBI:62932 | denotes | mycophenolate |
T4239 | 412-422 | SP_7 | denotes | SARS-CoV-2 |
T71468 | 430-435 | UBERON:0000004 | denotes | nasal |
T51839 | 635-640 | UBERON:0001707 | denotes | nasal |
T14851 | 641-645 | UBERON:0001823 | denotes | swab |
T13016 | 796-800 | UBERON:0000165 | denotes | oral |
T62411 | 970-980 | DG_28 | denotes | Remdesivir |
T85530 | 1256-1269 | CHEBI:41879;CHEBI:41879 | denotes | Dexamethasone |
T80219 | 1499-1513 | CHEBI:24751;CHEBI:24751 | denotes | hydrocortisone |
LitCovid-PubTator
Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
---|---|---|---|---|---|
178 | 192-214 | Chemical | denotes | HCQ hydroxychloroquine | |
179 | 238-245 | Chemical | denotes | LPV/Rtv | |
180 | 246-265 | Chemical | denotes | lopinavir/ritonavir | MESH:C558899 |
181 | 267-276 | Chemical | denotes | O2 oxygen | MESH:D010100 |
182 | 318-321 | Chemical | denotes | MMF | MESH:D009173 |
183 | 322-335 | Chemical | denotes | mycophenolate | MESH:D009173 |
184 | 60-88 | Disease | denotes | PID primary immunodeficiency | MESH:D000081207 |
185 | 110-132 | Disease | denotes | lymphoblastic leukemia | MESH:D054198 |
186 | 134-175 | Disease | denotes | T-ALL T cell acute lymphoblastic leukemia | MESH:D054218 |
187 | 278-316 | Disease | denotes | HLH hemophagocytic lymphohistiocytosis | MESH:D051359 |
200 | 358-366 | Species | denotes | patients | Tax:9606 |
201 | 412-422 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
202 | 498-506 | Species | denotes | Patients | Tax:9606 |
203 | 596-603 | Species | denotes | Patient | Tax:9606 |
204 | 664-671 | Species | denotes | patient | Tax:9606 |
205 | 910-918 | Species | denotes | children | Tax:9606 |
206 | 337-340 | Chemical | denotes | HCQ | MESH:D006886 |
207 | 693-700 | Chemical | denotes | LPV/Rtv | |
208 | 758-761 | Chemical | denotes | HCQ | MESH:D006886 |
209 | 822-825 | Chemical | denotes | HCQ | MESH:D006886 |
210 | 875-878 | Chemical | denotes | HCQ | MESH:D006886 |
211 | 610-615 | Disease | denotes | fever | MESH:D005334 |
217 | 1016-1023 | Species | denotes | patient | Tax:9606 |
218 | 1041-1048 | Species | denotes | patient | Tax:9606 |
219 | 1158-1166 | Species | denotes | patients | Tax:9606 |
220 | 1236-1244 | Species | denotes | patients | Tax:9606 |
221 | 970-980 | Chemical | denotes | Remdesivir | MESH:C000606551 |
223 | 1256-1269 | Chemical | denotes | Dexamethasone | MESH:D003907 |