LitCovid-sample-sentences  

PMC:7443692 / 70538-72116 JSONTXT 5 Projects

Annnotations TAB TSV DIC JSON TextAE

Id Subject Object Predicate Lexical cue
T469 0-39 Sentence denotes Quantification and Statistical Analysis
T470 40-167 Sentence denotes Raw glycoproteomic data from the mass spectrometers was searched using Proteome Discoverer v1.4 (SEQUEST), Protein Metrics Inc.
T471 168-202 Sentence denotes Byonic v3.8.13, and pGlyco v2.2.2.
T472 203-335 Sentence denotes For data searches using Proteome Discoverer, the results were processed to apply false discovery rate filtering using ProteoIQ v2.7.
T473 336-508 Sentence denotes For the deglycosylated protein work, search results from SEQUEST were filtered in ProteoIQ with a 1% false discovery rate at the protein level and 10% at the peptide level.
T474 509-642 Sentence denotes For N-linked glycopeptide analysis, pGlyco was used with false discovery rate of 1% at the glycan level and 10% at the peptide level.
T475 643-759 Sentence denotes For disulfide bond analysis and O-glycopeptide searches, Byonic was used and the false discovery rate was set to 1%.
T476 760-812 Sentence denotes All mass spectrometry results were manually curated.
T477 813-1065 Sentence denotes Antigen accessibility simulations were carried out as described in the Method Details section and the mean of four simulations (three of length 350ns, one of length 200ns; amounting to 1.25 μs of total molecular dynamics simulation time) were utilized.
T478 1066-1384 Sentence denotes Glycan-glycan and glycan-peptide interactions were also calculated based on simulations as a percentage of time residues were in contact and averaged (mean) to produce the corresponding supplemental (colored) sequence figures with the raw numbers for coloring present also in each corresponding supplemental table tab.
T479 1385-1481 Sentence denotes 3D distances were computed using Rpdb as described in more detail in the Method Details section.
T480 1482-1578 Sentence denotes This data is presented using box & whisker plots with all underlying statistics calculated in R.