Rat serum N-glycopeptides across repeated sampling

Glycopeptide-level grouped abundances from albumin/IgG-depleted rat serum, sampled on five days in three female rats and one male rat.

Usage

glyhub_GPST000601_N_glycopeptides(
  kind = c("curated", "raw"),
  cache_dir = getOption("glyhub.cache_dir", tools::R_user_dir("glyhub", "cache")),
  refresh = FALSE,
  offline = FALSE
)

Format

A glyexp::GlycomicSE with 1256 features and 20 observations. The abundance assay is in source grouped abundance (relative scale). rowData has no glycan_structure column because no feature has a supported structural annotation.

Source

GlycoPOST GPST000601. Table S2. Study: https://doi.org/10.3390/ijms26157266. Repository: https://glycopost.glycosmos.org/entry/GPST000601.

Arguments

kind: "curated" returns a data object; "raw" returns the path to a verified source archive. Raw archives are currently available for CPTAC.
cache_dir: Cache directory, defaulting to tools::R_user_dir("glyhub", "cache"). Set option glyhub.cache_dir to change the default.
refresh: Download the pinned resource again, even if cached.
offline: Prohibit downloads; require a verified local resource.

Details

Supplementary Table S2 provides 1256 quantified peptide-glycan feature rows. Grouped abundance columns are preserved on the published scale. Individual acquisition columns have mixed normalization labels and are retained only in the source workbook. Glycan acetyl counts are represented explicitly. A single protein site is assigned only when one protein position and one localized N-glycosylation site are unambiguous; all original peptide and protein mappings are retained.

Source-derived compositions and original annotation fields are preserved; unknown linkages are not inferred.

Access

Use glyhub_load("glyhub_GPST000601_N_glycopeptides") to load this dataset.