PMC:7417788 / 66946-67739
Annnotations
LitCovid-PMC-OGER-BB
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1445 | 86-91 | SO:0002031 | denotes | scRNA |
| T1446 | 373-378 | SO:0000466 | denotes | genes |
| T1447 | 411-416 | SO:0000466 | denotes | genes |
| T1448 | 680-685 | SO:0000704 | denotes | genes |
| T1449 | 756-761 | SO:0005855 | denotes | genes |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T139 | 253-256 | Disease | denotes | SNE | http://purl.obolibrary.org/obo/MONDO_0018859 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T1120 | 373-378 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
| T1121 | 594-595 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T1122 | 680-685 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | genes |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T35821 | 342-345 | Chemical | denotes | PCA | http://purl.obolibrary.org/obo/CHEBI_36751|http://purl.obolibrary.org/obo/CHEBI_62248 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T372 | 0-70 | Sentence | denotes | Dimensionality reduction and clustering analysis of scRNA-seq datasets |
| T373 | 71-317 | Sentence | denotes | To analyze the scRNA-seq data, we log normalized data (1 + counts per 10,000) with the ‘‘sc.pp.normalize_total’’ function before clustering, reduction and performing 2-dimensional t-SNE algorithm clustering with the first 50 principal components. |
| T374 | 318-465 | Sentence | denotes | This was done following PCA on top 5,000 most variable genes by using “sc.pp.highly_variable_genes” function in Scanpy with the default parameters. |
| T375 | 466-672 | Sentence | denotes | Dimensionality method and identification of significant clusters and was performed using Leiden clustering algorithm which uses a shared nearest neighbour modularity optimization-based clustering algorithm. |
| T376 | 673-793 | Sentence | denotes | Marker genes for each significant cluster were found using the function sc.tl.rank_genes_groups with default parameters. |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 1457 | 707-714 | Species | denotes | cluster | Tax:100569 |