Cardiac N-glycomes in fatal COVID-19

N-glycan MS1 peak areas from cardiac tissue and isolated cardiomyocytes of COVID-positive and COVID-negative donors.

Usage

glyhub_GPST000460_N(
  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 162 features and 43 observations. The abundance assay is in peak area. rowData includes a typed glycan_structure column; features without a supported structure are NA.

Source

GlycoPOST GPST000460. Tables S5-S8. Study: https://doi.org/10.1021/acs.analchem.3c03649. Repository: https://glycopost.glycosmos.org/entry/GPST000460.

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

Four source tables are combined by exact composition-plus-retention labels, normalizing only GU/RRT notation and spacing. The sample metadata distinguishes FFPE tissue from isolated cardiomyocytes and COVID status. Features absent from a source table remain missing rather than zero. Maltodextrin calibration ladders and class summaries are excluded. Published GlyTouCan structures are linked only when composition and retention position identify a unique annotation; inconsistent registry assignments remain unresolved. Clinical metadata uses exact published patient identifiers; abbreviated ambiguous cardiomyocyte IDs are not guessed.

Author glycan labels, additive monosaccharide counts, and uniquely matched registry structures. Source/registry annotation conflicts are preserved for review.

Access

Use glyhub_load("glyhub_GPST000460_N") to load this dataset.