PMC:7402624 / 42376-44084
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T390 | 1281-1288 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
LitCovid-PD-UBERON
| Id | Subject | Object | Predicate | Lexical cue | uberon_id |
|---|---|---|---|---|---|
| T18 | 137-142 | Body_part | denotes | scale | http://purl.obolibrary.org/obo/UBERON_0002542 |
| T19 | 948-953 | Body_part | denotes | scale | http://purl.obolibrary.org/obo/UBERON_0002542 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 446 | 601-603 | Disease | denotes | HD | MESH:D006816 |
| 447 | 632-640 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 1492 | 100-107 | Species | denotes | patient | Tax:9606 |
| 1493 | 91-99 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 1505 | 464-468 | Chemical | denotes | UMAP | |
| 1506 | 147-155 | Disease | denotes | COVID-19 | MESH:C000657245 |
| 1507 | 428-437 | Disease | denotes | mortality | MESH:D003643 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T319 | 91-99 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T320 | 147-155 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
| T321 | 271-273 | Disease | denotes | BH | http://purl.obolibrary.org/obo/MONDO_0010873 |
| T322 | 601-603 | Disease | denotes | HD | http://purl.obolibrary.org/obo/MONDO_0007739 |
| T323 | 623-625 | Disease | denotes | RD | http://purl.obolibrary.org/obo/MONDO_0009973 |
| T324 | 632-640 | Disease | denotes | COVID-19 | http://purl.obolibrary.org/obo/MONDO_0100096 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T706 | 122-123 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | A |
| T707 | 176-177 | http://purl.obolibrary.org/obo/CLO_0001021 | denotes | B |
| T708 | 261-265 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T709 | 623-625 | http://purl.obolibrary.org/obo/CLO_0008770 | denotes | RD |
| T710 | 1118-1124 | http://purl.obolibrary.org/obo/CLO_0054111 | denotes | 1 (C1) |
| T711 | 1142-1144 | http://purl.obolibrary.org/obo/CLO_0002105 | denotes | C2 |
| T712 | 1142-1144 | http://purl.obolibrary.org/obo/CLO_0051742 | denotes | C2 |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T295 | 394-399 | Chemical | denotes | donor | http://purl.obolibrary.org/obo/CHEBI_17891 |
| T296 | 594-599 | Chemical | denotes | donor | http://purl.obolibrary.org/obo/CHEBI_17891 |
| T297 | 601-603 | Chemical | denotes | HD | http://purl.obolibrary.org/obo/CHEBI_73925 |
| T298 | 616-621 | Chemical | denotes | donor | http://purl.obolibrary.org/obo/CHEBI_17891 |
| T299 | 623-625 | Chemical | denotes | RD | http://purl.obolibrary.org/obo/CHEBI_73812 |
| T300 | 769-774 | Chemical | denotes | group | http://purl.obolibrary.org/obo/CHEBI_24433 |
| T301 | 1142-1144 | Chemical | denotes | C2 | http://purl.obolibrary.org/obo/CHEBI_30083 |
| T302 | 1281-1288 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T245 | 0-120 | Sentence | denotes | Fig. 6 High dimensional analysis of immune phenotypes with clinical data reveals distinct COVID-19 patient immunotypes. |
| T246 | 121-215 | Sentence | denotes | (A) NIH ordinal scale for COVID-19 clinical severity. (B) Frequencies of major immune subsets. |
| T247 | 216-709 | Sentence | denotes | Significance determined by unpaired Wilcoxon test with BH correction: *p < 0.05, **p < 0.01, ***p < 0.001, and ****p < 0.0001. (C) Heatmap of indicated immune parameters by row; donor type, disease severity, and mortality indicated across top. (D) UMAP projection of aggregated flow cytometry data. (E) Transformed UMAP projection; density contours drawn separately for healthy donor (HD), recovered donor (RD), and COVID-19 subjects (see Methods). (F) Bars represent mean of UMAP Component 1. |
| T248 | 710-908 | Sentence | denotes | Dots represent individual subjects; bars shaded by subject group and/or severity score. (G) Density contour plots indicating variation of specified immune features across UMAP Component coordinates. |
| T249 | 909-1030 | Sentence | denotes | Relative expression (according to heat scale) shown for both individual patients (points) and overall density (contours). |
| T250 | 1031-1708 | Sentence | denotes | Spearman’s Rank Correlation coefficient (ρ) and p-value for each feature vs. Component 1 (C1) and Component 2 (C2) shown. (H) (Left) Spearman correlation between UMAP Components 1 and 2 and FlowSOM clusters. (Right) Select FlowSOM clusters and their protein expression. (I) Spearman correlation between UMAP Components 1 and 2 and clinical metadata. (J) Heatmap of immune parameters used to define Immunotype 3 indicated by row; disease severity and mortality indicated across top. (K) (Left) Transformed UMAP projection; patient status for Immunotype 3 indicated by color. (Right) Spearman correlation between Immunotype 3 and disease severity, mortality, and UMAP Components. |