| 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. |
