PubMed:33163956
Annnotations
LitCovid-PD-FMA-UBERON
Id | Subject | Object | Predicate | Lexical cue | fma_id |
---|---|---|---|---|---|
T1 | 173-178 | Body_part | denotes | brain | http://purl.org/sig/ont/fma/fma50801 |
T2 | 316-324 | Body_part | denotes | cytokine | http://purl.org/sig/ont/fma/fma84050 |
T3 | 348-361 | Body_part | denotes | interleukin 6 | http://purl.org/sig/ont/fma/fma264829 |
T4 | 348-359 | Body_part | denotes | interleukin | http://purl.org/sig/ont/fma/fma86578 |
T5 | 596-611 | Body_part | denotes | immunoglobulins | http://purl.org/sig/ont/fma/fma62871 |
T6 | 616-624 | Body_part | denotes | cytokine | http://purl.org/sig/ont/fma/fma84050 |
T7 | 723-729 | Body_part | denotes | mental | http://purl.org/sig/ont/fma/fma264279 |
T8 | 781-786 | Body_part | denotes | brain | http://purl.org/sig/ont/fma/fma50801 |
T9 | 850-855 | Body_part | denotes | brain | http://purl.org/sig/ont/fma/fma50801 |
T10 | 897-912 | Body_part | denotes | frontal regions | http://purl.org/sig/ont/fma/fma61824 |
T11 | 914-928 | Body_part | denotes | right thalamus | http://purl.org/sig/ont/fma/fma258714 |
T12 | 940-954 | Body_part | denotes | temporal lobes | http://purl.org/sig/ont/fma/fma61825 |
T13 | 959-977 | Body_part | denotes | cerebral peduncles | http://purl.org/sig/ont/fma/fma62394 |
T14 | 1015-1034 | Body_part | denotes | Cerebrospinal fluid | http://purl.org/sig/ont/fma/fma20935 |
T15 | 1036-1039 | Body_part | denotes | CSF | http://purl.org/sig/ont/fma/fma20935 |
T16 | 1050-1059 | Body_part | denotes | leukocyte | http://purl.org/sig/ont/fma/fma62852 |
T17 | 1080-1091 | Body_part | denotes | lymphocytes | http://purl.org/sig/ont/fma/fma62863 |
T18 | 1094-1101 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
T19 | 1126-1133 | Body_part | denotes | glucose | http://purl.org/sig/ont/fma/fma82743 |
T20 | 1260-1263 | Body_part | denotes | CSF | http://purl.org/sig/ont/fma/fma20935 |
T21 | 1299-1304 | Body_part | denotes | blood | http://purl.org/sig/ont/fma/fma9670 |
T22 | 1324-1334 | Body_part | denotes | lymphocyte | http://purl.org/sig/ont/fma/fma62863 |
T23 | 1465-1480 | Body_part | denotes | immunoglobulins | http://purl.org/sig/ont/fma/fma62871 |
T24 | 1485-1493 | Body_part | denotes | cytokine | http://purl.org/sig/ont/fma/fma84050 |
LitCovid-PD-UBERON
Id | Subject | Object | Predicate | Lexical cue | uberon_id |
---|---|---|---|---|---|
T1 | 173-178 | Body_part | denotes | brain | http://purl.obolibrary.org/obo/UBERON_0000955 |
T2 | 781-786 | Body_part | denotes | brain | http://purl.obolibrary.org/obo/UBERON_0000955 |
T3 | 850-855 | Body_part | denotes | brain | http://purl.obolibrary.org/obo/UBERON_0000955 |
T4 | 940-954 | Body_part | denotes | temporal lobes | http://purl.obolibrary.org/obo/UBERON_0001871 |
T5 | 959-977 | Body_part | denotes | cerebral peduncles | http://purl.obolibrary.org/obo/UBERON_0002623 |
T6 | 1015-1034 | Body_part | denotes | Cerebrospinal fluid | http://purl.obolibrary.org/obo/UBERON_0001359 |
T7 | 1299-1304 | Body_part | denotes | blood | http://purl.obolibrary.org/obo/UBERON_0000178 |
LitCovid-PD-MONDO
Id | Subject | Object | Predicate | Lexical cue | mondo_id |
---|---|---|---|---|---|
T1 | 0-8 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T2 | 20-32 | Disease | denotes | encephalitis | http://purl.obolibrary.org/obo/MONDO_0019956 |
T3 | 98-110 | Disease | denotes | encephalitis | http://purl.obolibrary.org/obo/MONDO_0019956 |
T4 | 134-148 | Disease | denotes | viral diseases | http://purl.obolibrary.org/obo/MONDO_0005108 |
T5 | 156-165 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
T6 | 219-243 | Disease | denotes | coronavirus disease 2019 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T7 | 245-253 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T8 | 409-421 | Disease | denotes | encephalitis | http://purl.obolibrary.org/obo/MONDO_0019956 |
T9 | 451-498 | Disease | denotes | severe acute respiratory syndrome coronavirus-2 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T10 | 451-484 | Disease | denotes | severe acute respiratory syndrome | http://purl.obolibrary.org/obo/MONDO_0005091 |
T11 | 500-508 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T12 | 512-521 | Disease | denotes | infection | http://purl.obolibrary.org/obo/MONDO_0005550 |
T13 | 1147-1155 | Disease | denotes | SARS-CoV | http://purl.obolibrary.org/obo/MONDO_0005091 |
T14 | 1593-1610 | Disease | denotes | encephalomyelitis | http://purl.obolibrary.org/obo/MONDO_0005156 |
T15 | 1764-1772 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
T16 | 1791-1803 | Disease | denotes | encephalitis | http://purl.obolibrary.org/obo/MONDO_0019956 |
T17 | 1843-1860 | Disease | denotes | encephalomyelitis | http://purl.obolibrary.org/obo/MONDO_0005156 |
LitCovid-PD-CLO
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T1 | 173-178 | http://purl.obolibrary.org/obo/UBERON_0000955 | denotes | brain |
T2 | 173-178 | http://www.ebi.ac.uk/efo/EFO_0000302 | denotes | brain |
T3 | 274-275 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T4 | 348-361 | http://purl.obolibrary.org/obo/PR_000001393 | denotes | interleukin 6 |
T5 | 380-381 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T6 | 648-649 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T7 | 779-780 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
T8 | 781-786 | http://purl.obolibrary.org/obo/UBERON_0000955 | denotes | brain |
T9 | 781-786 | http://www.ebi.ac.uk/efo/EFO_0000302 | denotes | brain |
T10 | 850-855 | http://purl.obolibrary.org/obo/UBERON_0000955 | denotes | brain |
T11 | 850-855 | http://www.ebi.ac.uk/efo/EFO_0000302 | denotes | brain |
T12 | 1048-1049 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T13 | 1299-1304 | http://purl.obolibrary.org/obo/UBERON_0000178 | denotes | blood |
T14 | 1299-1304 | http://www.ebi.ac.uk/efo/EFO_0000296 | denotes | blood |
T15 | 1305-1310 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | tests |
T16 | 1389-1390 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
T17 | 1629-1630 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-PD-CHEBI
Id | Subject | Object | Predicate | Lexical cue | chebi_id |
---|---|---|---|---|---|
T1 | 363-365 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
T3 | 1094-1101 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
T4 | 1126-1133 | Chemical | denotes | glucose | http://purl.obolibrary.org/obo/CHEBI_17234|http://purl.obolibrary.org/obo/CHEBI_4167 |
T6 | 1364-1366 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
T8 | 1508-1519 | Chemical | denotes | tocilizumab | http://purl.obolibrary.org/obo/CHEBI_64360 |
T9 | 1524-1526 | Chemical | denotes | IL | http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072 |
T11 | 1538-1548 | Chemical | denotes | antagonist | http://purl.obolibrary.org/obo/CHEBI_48706 |
LitCovid-PD-GO-BP
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T1 | 289-310 | http://purl.obolibrary.org/obo/GO_0006954 | denotes | inflammatory response |
T2 | 1206-1219 | http://purl.obolibrary.org/obo/GO_0003968 | denotes | transcriptase |
T3 | 1206-1219 | http://purl.obolibrary.org/obo/GO_0003899 | denotes | transcriptase |
T4 | 1697-1718 | http://purl.obolibrary.org/obo/GO_0006954 | denotes | inflammatory response |
LitCovid-PubTator
Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
---|---|---|---|---|---|
2 | 0-8 | Disease | denotes | COVID-19 | MESH:C000657245 |
3 | 20-32 | Disease | denotes | encephalitis | MESH:D004660 |
28 | 98-110 | Disease | denotes | encephalitis | MESH:D004660 |
29 | 134-148 | Disease | denotes | viral diseases | MESH:D001102 |
30 | 156-178 | Disease | denotes | infection of the brain | MESH:D007239 |
31 | 213-238 | Disease | denotes | novel coronavirus disease | MESH:C000657245 |
32 | 245-253 | Disease | denotes | COVID-19 | MESH:C000657245 |
33 | 348-361 | Gene | denotes | interleukin 6 | Gene:3569 |
34 | 363-367 | Gene | denotes | IL-6 | Gene:3569 |
35 | 403-421 | Disease | denotes | acute encephalitis | MESH:D000071072 |
36 | 451-498 | Species | denotes | severe acute respiratory syndrome coronavirus-2 | Tax:2697049 |
37 | 500-510 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
38 | 512-521 | Disease | denotes | infection | MESH:D007239 |
39 | 723-744 | Disease | denotes | mental disorientation | MESH:D003221 |
40 | 759-764 | Disease | denotes | fever | MESH:D005334 |
41 | 769-777 | Disease | denotes | headache | MESH:D006261 |
42 | 1126-1133 | Chemical | denotes | glucose | MESH:D005947 |
43 | 1147-1157 | Species | denotes | SARS-CoV-2 | Tax:2697049 |
44 | 1364-1368 | Gene | denotes | IL-6 | Gene:3569 |
45 | 1508-1519 | Chemical | denotes | tocilizumab | MESH:C502936 |
46 | 1524-1528 | Gene | denotes | IL-6 | Gene:3569 |
47 | 1579-1610 | Disease | denotes | demyelinating encephalomyelitis | MESH:D003711 |
48 | 1616-1623 | Species | denotes | patient | Tax:9606 |
49 | 1764-1772 | Disease | denotes | COVID-19 | MESH:C000657245 |
50 | 1791-1812 | Disease | denotes | encephalitis syndrome | MESH:D004660 |
51 | 1823-1860 | Disease | denotes | acute demyelinating encephalomyelitis | MESH:D004684 |
LitCovid-sentences
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T1 | 0-79 | Sentence | denotes | COVID-19-associated encephalitis successfully treated with combination therapy. |
T2 | 80-91 | Sentence | denotes | Background: |
T3 | 92-205 | Sentence | denotes | Acute encephalitis can occur in different viral diseases due to infection of the brain or by an immune mechanism. |
T4 | 206-369 | Sentence | denotes | Severe novel coronavirus disease 2019 (COVID-19) is associated with a major immune inflammatory response with cytokine upregulation including interleukin 6 (IL-6). |
T5 | 370-634 | Sentence | denotes | We report a case presenting with acute encephalitis that was diagnosed as having severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) infection with hyperinflammatory systemic response and recovered after therapy with immunoglobulins and cytokine blockade. |
T6 | 635-647 | Sentence | denotes | Case report: |
T7 | 648-778 | Sentence | denotes | A 39-year-old-man was brought to the Emergency Department with drowsiness, mental disorientation, intermittent fever and headache. |
T8 | 779-1014 | Sentence | denotes | A brain magnetic resonance imaging showed extensive involvement of the brain including cortical and subcortical right frontal regions, right thalamus, bilateral temporal lobes and cerebral peduncles, with no leptomeningeal enhancement. |
T9 | 1015-1146 | Sentence | denotes | Cerebrospinal fluid (CSF) showed a leukocyte count of 20/µL (90% lymphocytes), protein level of 198 mg/dL, and glucose of 48 mg/dL. |
T10 | 1147-1264 | Sentence | denotes | SARS-CoV-2 was detected in nasopharyngeal swabs by reverse-transcriptase-PCR (RT-PCR) but it was negative in the CSF. |
T11 | 1265-1381 | Sentence | denotes | Remarkable laboratory findings in blood tests included low lymphocyte count and elevated ferritin, IL-6 and D-dimer. |
T12 | 1382-1452 | Sentence | denotes | He had a complicated clinical course requiring mechanical ventilation. |
T13 | 1453-1611 | Sentence | denotes | Intravenous immunoglobulins and cytokine blockade with tocilizumab, an IL-6 receptor antagonist, were added considering acute demyelinating encephalomyelitis. |
T14 | 1612-1719 | Sentence | denotes | The patient made a full recovery, suggesting that it could have been related to host inflammatory response. |
T15 | 1720-1731 | Sentence | denotes | Conclusion: |
T16 | 1732-1910 | Sentence | denotes | This case report indicates that COVID-19 may present as an encephalitis syndrome mimicking acute demyelinating encephalomyelitis that could be amenable to therapeutic modulation. |
LitCovid-PD-HP
Id | Subject | Object | Predicate | Lexical cue | hp_id |
---|---|---|---|---|---|
T1 | 20-32 | Phenotype | denotes | encephalitis | http://purl.obolibrary.org/obo/HP_0002383 |
T2 | 98-110 | Phenotype | denotes | encephalitis | http://purl.obolibrary.org/obo/HP_0002383 |
T3 | 409-421 | Phenotype | denotes | encephalitis | http://purl.obolibrary.org/obo/HP_0002383 |
T4 | 711-721 | Phenotype | denotes | drowsiness | http://purl.obolibrary.org/obo/HP_0002329 |
T5 | 723-744 | Phenotype | denotes | mental disorientation | http://purl.obolibrary.org/obo/HP_0001289 |
T6 | 746-764 | Phenotype | denotes | intermittent fever | http://purl.obolibrary.org/obo/HP_0001954 |
T7 | 769-777 | Phenotype | denotes | headache | http://purl.obolibrary.org/obo/HP_0002315 |
T8 | 987-1013 | Phenotype | denotes | leptomeningeal enhancement | http://purl.obolibrary.org/obo/HP_0032070 |
T9 | 1579-1592 | Phenotype | denotes | demyelinating | http://purl.obolibrary.org/obo/HP_0011096 |
T10 | 1791-1803 | Phenotype | denotes | encephalitis | http://purl.obolibrary.org/obo/HP_0002383 |
T11 | 1829-1842 | Phenotype | denotes | demyelinating | http://purl.obolibrary.org/obo/HP_0011096 |
Inflammaging
Id | Subject | Object | Predicate | Lexical cue |
---|---|---|---|---|
T1 | 0-79 | Sentence | denotes | COVID-19-associated encephalitis successfully treated with combination therapy. |
T2 | 80-91 | Sentence | denotes | Background: |
T3 | 92-205 | Sentence | denotes | Acute encephalitis can occur in different viral diseases due to infection of the brain or by an immune mechanism. |
T4 | 206-369 | Sentence | denotes | Severe novel coronavirus disease 2019 (COVID-19) is associated with a major immune inflammatory response with cytokine upregulation including interleukin 6 (IL-6). |
T5 | 370-634 | Sentence | denotes | We report a case presenting with acute encephalitis that was diagnosed as having severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) infection with hyperinflammatory systemic response and recovered after therapy with immunoglobulins and cytokine blockade. |
T6 | 635-647 | Sentence | denotes | Case report: |
T7 | 648-778 | Sentence | denotes | A 39-year-old-man was brought to the Emergency Department with drowsiness, mental disorientation, intermittent fever and headache. |
T8 | 779-1014 | Sentence | denotes | A brain magnetic resonance imaging showed extensive involvement of the brain including cortical and subcortical right frontal regions, right thalamus, bilateral temporal lobes and cerebral peduncles, with no leptomeningeal enhancement. |
T9 | 1015-1146 | Sentence | denotes | Cerebrospinal fluid (CSF) showed a leukocyte count of 20/µL (90% lymphocytes), protein level of 198 mg/dL, and glucose of 48 mg/dL. |
T10 | 1147-1264 | Sentence | denotes | SARS-CoV-2 was detected in nasopharyngeal swabs by reverse-transcriptase-PCR (RT-PCR) but it was negative in the CSF. |
T11 | 1265-1381 | Sentence | denotes | Remarkable laboratory findings in blood tests included low lymphocyte count and elevated ferritin, IL-6 and D-dimer. |
T12 | 1382-1452 | Sentence | denotes | He had a complicated clinical course requiring mechanical ventilation. |
T13 | 1453-1611 | Sentence | denotes | Intravenous immunoglobulins and cytokine blockade with tocilizumab, an IL-6 receptor antagonist, were added considering acute demyelinating encephalomyelitis. |
T14 | 1612-1719 | Sentence | denotes | The patient made a full recovery, suggesting that it could have been related to host inflammatory response. |
T15 | 1720-1731 | Sentence | denotes | Conclusion: |
T16 | 1732-1910 | Sentence | denotes | This case report indicates that COVID-19 may present as an encephalitis syndrome mimicking acute demyelinating encephalomyelitis that could be amenable to therapeutic modulation. |
T1 | 0-79 | Sentence | denotes | COVID-19-associated encephalitis successfully treated with combination therapy. |
T2 | 80-91 | Sentence | denotes | Background: |
T3 | 92-205 | Sentence | denotes | Acute encephalitis can occur in different viral diseases due to infection of the brain or by an immune mechanism. |
T4 | 206-369 | Sentence | denotes | Severe novel coronavirus disease 2019 (COVID-19) is associated with a major immune inflammatory response with cytokine upregulation including interleukin 6 (IL-6). |
T5 | 370-634 | Sentence | denotes | We report a case presenting with acute encephalitis that was diagnosed as having severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) infection with hyperinflammatory systemic response and recovered after therapy with immunoglobulins and cytokine blockade. |
T6 | 635-647 | Sentence | denotes | Case report: |
T7 | 648-778 | Sentence | denotes | A 39-year-old-man was brought to the Emergency Department with drowsiness, mental disorientation, intermittent fever and headache. |
T8 | 779-1014 | Sentence | denotes | A brain magnetic resonance imaging showed extensive involvement of the brain including cortical and subcortical right frontal regions, right thalamus, bilateral temporal lobes and cerebral peduncles, with no leptomeningeal enhancement. |
T9 | 1015-1146 | Sentence | denotes | Cerebrospinal fluid (CSF) showed a leukocyte count of 20/µL (90% lymphocytes), protein level of 198 mg/dL, and glucose of 48 mg/dL. |
T10 | 1147-1264 | Sentence | denotes | SARS-CoV-2 was detected in nasopharyngeal swabs by reverse-transcriptase-PCR (RT-PCR) but it was negative in the CSF. |
T11 | 1265-1381 | Sentence | denotes | Remarkable laboratory findings in blood tests included low lymphocyte count and elevated ferritin, IL-6 and D-dimer. |
T12 | 1382-1452 | Sentence | denotes | He had a complicated clinical course requiring mechanical ventilation. |
T13 | 1453-1611 | Sentence | denotes | Intravenous immunoglobulins and cytokine blockade with tocilizumab, an IL-6 receptor antagonist, were added considering acute demyelinating encephalomyelitis. |
T14 | 1612-1719 | Sentence | denotes | The patient made a full recovery, suggesting that it could have been related to host inflammatory response. |
T15 | 1720-1731 | Sentence | denotes | Conclusion: |
T16 | 1732-1910 | Sentence | denotes | This case report indicates that COVID-19 may present as an encephalitis syndrome mimicking acute demyelinating encephalomyelitis that could be amenable to therapeutic modulation. |