PMC:7417788 / 73296-74109
Annnotations
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1507 | 122-133 | NCBITaxon:1 | denotes | individuals |
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T541 | 107-112 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T542 | 143-147 | Body_part | denotes | cell | http://purl.org/sig/ont/fma/fma68646 |
| T543 | 221-224 | Body_part | denotes | NKs | http://purl.org/sig/ont/fma/fma63147 |
| T544 | 298-301 | Body_part | denotes | NKs | http://purl.org/sig/ont/fma/fma63147 |
| T545 | 525-530 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T546 | 560-565 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T141 | 637-640 | Disease | denotes | SNE | http://purl.obolibrary.org/obo/MONDO_0018859 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1186 | 107-112 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1187 | 143-152 | http://purl.obolibrary.org/obo/CL_0000000 | denotes | cell type |
| T1188 | 209-212 | http://purl.obolibrary.org/obo/CLO_0050938 | denotes | TCs |
| T1189 | 209-212 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | TCs |
| T1190 | 221-224 | http://purl.obolibrary.org/obo/CL_0000623 | denotes | NKs |
| T1191 | 233-236 | http://purl.obolibrary.org/obo/CL_0000236 | denotes | BCs |
| T1192 | 245-248 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | MCs |
| T1193 | 259-262 | http://purl.obolibrary.org/obo/CL_0000451 | denotes | DCs |
| T1194 | 286-289 | http://purl.obolibrary.org/obo/CLO_0050938 | denotes | TCs |
| T1195 | 286-289 | http://purl.obolibrary.org/obo/CL_0000084 | denotes | TCs |
| T1196 | 298-301 | http://purl.obolibrary.org/obo/CL_0000623 | denotes | NKs |
| T1197 | 310-313 | http://purl.obolibrary.org/obo/CL_0000236 | denotes | BCs |
| T1198 | 322-325 | http://purl.obolibrary.org/obo/CL_0000576 | denotes | MCs |
| T1199 | 336-339 | http://purl.obolibrary.org/obo/CL_0000451 | denotes | DCs |
| T1200 | 525-530 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1201 | 560-565 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T1202 | 679-680 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T411 | 0-41 | Sentence | denotes | Mass cytometry visualizing and clustering |
| T412 | 42-153 | Sentence | denotes | We created mass cytometry datasets for analysis by concatenating cells from all individuals for each cell type. |
| T413 | 154-365 | Sentence | denotes | In this way, we created downsampled datasets of 95,316 TCs, 35,254 NKs, 22,042 BCs, 39,144 MCs and 8,244 DCs in cohort-1 and 57,910 TCs, 34,857 NKs, 13,812 BCs, 45,431 MCs and 7,990 DCs in cohort-2 for analysis. |
| T414 | 366-396 | Sentence | denotes | We used FlowCore (65 flowCore: |
| T415 | 397-491 | Sentence | denotes | Basic structures for flow cytometry data.) to read and process FCS files for further analysis. |
| T416 | 492-614 | Sentence | denotes | For sample with more than 20,000 cells, we randomly selected 20,000 cells to ensure that samples were equally represented. |
| T417 | 615-813 | Sentence | denotes | At last, we run the t-SNE dimensionality reduction algorithm on a combined data sample using the Seurat package based on harmony embedding (https://github.com/immunogenomics/harmony, version 1.0.0). |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| 1499 | 712-718 | Chemical | denotes | Seurat |