PMC:7640975 / 15888-17366
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T108 | 88-93 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T109 | 112-116 | Body_part | denotes | Gene | http://purl.org/sig/ont/fma/fma74402 |
| T110 | 543-550 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T111 | 737-744 | Body_part | denotes | Genomes | http://purl.org/sig/ont/fma/fma84116 |
| T112 | 1248-1255 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T113 | 1256-1263 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
LitCovid-PD-MONDO
| Id | Subject | Object | Predicate | Lexical cue | mondo_id |
|---|---|---|---|---|---|
| T23 | 319-321 | Disease | denotes | MF | http://purl.obolibrary.org/obo/MONDO_0009691|http://purl.obolibrary.org/obo/MONDO_0020481 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T222 | 88-93 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T223 | 112-116 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | Gene |
| T224 | 270-288 | http://purl.obolibrary.org/obo/GO_0005575 | denotes | cellular component |
| T225 | 290-292 | http://purl.obolibrary.org/obo/GO_0005575 | denotes | CC |
| T226 | 458-462 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T227 | 479-482 | http://purl.obolibrary.org/obo/CLO_0001547 | denotes | a p |
| T228 | 727-732 | http://purl.obolibrary.org/obo/OGG_0000000002 | denotes | Genes |
| T229 | 960-961 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T230 | 979-987 | http://purl.obolibrary.org/obo/CLO_0001040 | denotes | 1 × 10–5 |
| T231 | 1145-1149 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T127 | 265-267 | Chemical | denotes | BP | http://purl.obolibrary.org/obo/CHEBI_29865 |
| T128 | 290-292 | Chemical | denotes | CC | http://purl.obolibrary.org/obo/CHEBI_28940 |
| T129 | 319-321 | Chemical | denotes | MF | http://purl.obolibrary.org/obo/CHEBI_74708 |
| T130 | 543-550 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T131 | 1248-1255 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T132 | 1256-1263 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T85 | 0-28 | Sentence | denotes | 2.8 Bioinformatics Analysis |
| T86 | 29-323 | Sentence | denotes | The data for the identified DEPs of PDCoV-infected IPEC-J2 cells were submitted to Gene Ontology (GO) Terms (http://geneontology.org/) for GO analysis, by which the DEPs were assigned into three branches of ontology—biological process (BP), cellular component (CC), and molecular function (MF). |
| T87 | 324-538 | Sentence | denotes | GO enrichment analysis for the DEPs was done using the Goatools software (https://github.com/tanghaibao/GOatools) with Fisher’s exact test, and those with a p-value < 0.05 were thought to be significantly enriched. |
| T88 | 539-700 | Sentence | denotes | The protein database of clusters of Orthologous Groups (COG; http://www.ncbi.nlm.nih.gov/COG/) was also used to assign possible functions to the identified DEPs. |
| T89 | 701-1007 | Sentence | denotes | The Kyoto Encyclopedia of Genes and Genomes (KEGG; http://www.genome.jp/kegg/) pathway analyses were performed to reveal the potential functions of the DEPs, which were annotated using the BlastP program of the Diamond software against the KEGG database with a cutoff E-value ≤ 1 × 10–5 and identity ≥0.98. |
| T90 | 1008-1478 | Sentence | denotes | The pathway enrichment statistics were performed using the KOBAS software (http://kobas.cbi.pku.edu.cn/home.do/) with the Fisher’s exact test, and those with p-values < 0.05 were regarded as statistically significant.30,31 Furthermore, the protein–protein interaction networks were created using the online STRING database (http://string-db.org/) and visualized by Cytoscape (https://cytoscape.org/), which was widely used for analyzing the relationships between DEPs.32 |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 272 | 65-79 | Disease | denotes | PDCoV-infected | MESH:D007239 |
| 273 | 80-87 | CellLine | denotes | IPEC-J2 | CVCL:2246 |