PMC:7640975 / 14249-15886
Annnotations
LitCovid-PD-FMA-UBERON
| Id | Subject | Object | Predicate | Lexical cue | fma_id |
|---|---|---|---|---|---|
| T101 | 672-680 | Body_part | denotes | cysteine | http://purl.org/sig/ont/fma/fma82751 |
| T102 | 778-785 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T103 | 1121-1128 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T104 | 1247-1254 | Body_part | denotes | protein | http://purl.org/sig/ont/fma/fma67257 |
| T105 | 1397-1405 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
| T106 | 1447-1452 | Body_part | denotes | cells | http://purl.org/sig/ont/fma/fma68646 |
| T107 | 1463-1471 | Body_part | denotes | proteins | http://purl.org/sig/ont/fma/fma67257 |
LitCovid-PD-CLO
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T210 | 13-15 | http://purl.obolibrary.org/obo/CLO_0007874 | denotes | MS |
| T211 | 16-18 | http://purl.obolibrary.org/obo/CLO_0007874 | denotes | MS |
| T212 | 644-654 | http://purl.obolibrary.org/obo/OBI_0000968 | denotes | instrument |
| T213 | 999-1001 | http://www.ebi.ac.uk/efo/EFO_0000265 | denotes | Da |
| T214 | 1066-1068 | http://purl.obolibrary.org/obo/CLO_0007874 | denotes | MS |
| T215 | 1109-1116 | http://purl.obolibrary.org/obo/PR_000018263 | denotes | peptide |
| T216 | 1195-1196 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T217 | 1235-1242 | http://purl.obolibrary.org/obo/PR_000018263 | denotes | peptide |
| T218 | 1278-1282 | http://purl.obolibrary.org/obo/UBERON_0000473 | denotes | test |
| T219 | 1447-1452 | http://purl.obolibrary.org/obo/GO_0005623 | denotes | cells |
| T220 | 1477-1478 | http://purl.obolibrary.org/obo/CLO_0001020 | denotes | a |
| T221 | 1510-1513 | http://purl.obolibrary.org/obo/CLO_0001547 | denotes | a p |
LitCovid-PD-CHEBI
| Id | Subject | Object | Predicate | Lexical cue | chebi_id |
|---|---|---|---|---|---|
| T116 | 13-15 | Chemical | denotes | MS | http://purl.obolibrary.org/obo/CHEBI_73613 |
| T117 | 16-18 | Chemical | denotes | MS | http://purl.obolibrary.org/obo/CHEBI_73613 |
| T118 | 672-680 | Chemical | denotes | cysteine | http://purl.obolibrary.org/obo/CHEBI_15356 |
| T119 | 778-785 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T120 | 1066-1068 | Chemical | denotes | MS | http://purl.obolibrary.org/obo/CHEBI_73613 |
| T121 | 1109-1116 | Chemical | denotes | peptide | http://purl.obolibrary.org/obo/CHEBI_16670 |
| T122 | 1121-1128 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T123 | 1235-1242 | Chemical | denotes | peptide | http://purl.obolibrary.org/obo/CHEBI_16670 |
| T124 | 1247-1254 | Chemical | denotes | protein | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T125 | 1397-1405 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
| T126 | 1463-1471 | Chemical | denotes | proteins | http://purl.obolibrary.org/obo/CHEBI_36080 |
LitCovid-PD-GO-BP
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T31 | 708-717 | http://purl.obolibrary.org/obo/GO_0007586 | denotes | digestion |
LitCovid-sentences
| Id | Subject | Object | Predicate | Lexical cue |
|---|---|---|---|---|
| T78 | 0-131 | Sentence | denotes | The original MS/MS raw data were analyzed using the Proteome Discoverer Software 2.1 (Thermo Fisher Scientific, San Jose, CA, USA). |
| T79 | 132-301 | Sentence | denotes | The data were searched against the database of UniProt Sus scrofa (February 26, 2017, containing 26 103 sequences, http://www.uniprot.org/proteomes/UP000008227, version: |
| T80 | 302-519 | Sentence | denotes | Uniprot-proteome-UP000008227-Sus scrofa (Pig)-26103s-20170226.fasta) and porcine deltacoronavirus Uniprot database (February 26, 2017, containing 442 sequences, http://www.uniprot.org/porcinedeltacoronavirus, version: |
| T81 | 520-584 | Sentence | denotes | Uniprot-Porcine deltacoronavirus [1586324]-442s-20170226.fasta). |
| T82 | 585-1032 | Sentence | denotes | The parameters for database searching were set as follows: instrument, TripleTOF 5600; cysteine alkylation, iodoacetamide; digestion, trypsin; dynamic modification, oxidation (M), acetylation (protein N-terminus), and iTRAQ8plex (Y); static modification, iTRAQ8plex (K), iTRAQ8plex (N-terminus), and carbamidomethyl (C); maximum missed cleavages, 2; precursor mass tolerance, 10 ppm; fragment mass tolerance, 0.05 Da; validation based on, q-value. |
| T83 | 1033-1271 | Sentence | denotes | To guarantee the accuracy of the MS data analysis, the cutoff value for the peptide and protein confidences was set to >95% and >1.20, respectively, coupled with a false discovery rate (FDR) of ≤1% for peptide and protein identifications. |
| T84 | 1272-1637 | Sentence | denotes | The t test function in the R language software was applied to calculate the p-value of the expression difference of cellular proteins between mock- and PDCoV-infected IPEC-J2 cells, and only proteins with a fold change >1.20 or <0.83 and a p-value < 0.05, which have being widely used as the criteria for judging DEPs,28,29 were considered differentially expressed. |
LitCovid-PubTator
| Id | Subject | Object | Predicate | Lexical cue | tao:has_database_id |
|---|---|---|---|---|---|
| 262 | 187-197 | Species | denotes | Sus scrofa | Tax:9823 |
| 263 | 331-341 | Species | denotes | Sus scrofa | Tax:9823 |
| 264 | 343-346 | Species | denotes | Pig | Tax:9823 |
| 265 | 375-399 | Species | denotes | porcine deltacoronavirus | Tax:1586324 |
| 266 | 528-552 | Species | denotes | Porcine deltacoronavirus | Tax:1586324 |
| 267 | 902-913 | Species | denotes | C); maximum | Tax:13423 |
| 268 | 1424-1438 | Disease | denotes | PDCoV-infected | MESH:D007239 |
| 269 | 1439-1446 | CellLine | denotes | IPEC-J2 | CVCL:2246 |