CS/DS disaccharide amounts in A549 and BEAS-2B small extracellular vesicles

Four chondroitin/dermatan sulfate disaccharides quantified as fmol in five A549 and six BEAS-2B small-extracellular-vesicle preparations.

Usage

glyhub_GPST000562_CS_DS(
  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 4 features and 11 observations. The abundance assay is in fmol. rowData has no glycan_structure column because no feature has a supported structural annotation.

Source

GlycoPOST GPST000562. . Study: https://doi.org/10.1016/j.mcpro.2026.101524. Repository: https://glycopost.glycosmos.org/entry/GPST000562. Quantitative source: https://glycopost.glycosmos.org/data/GPST000562.0/identification_quantification_table.xlsx.

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

Amounts derive from enzymatic CS/DS depolymerization and LC-MS/MS integration. D0a4 and D0a6 were distinguished by diagnostic fragments; the original 11 quantitative observations are preserved. The publication reports six preparations per cell line but excludes one A549 CS/DS preparation after a presumed preparation failure; the absent A5 observation is not manufactured. The N-glycan profiles from the same paper are stored under GPST000667.

Author CS/DS disaccharide codes and sulfate positions are retained. The measured lyase products contain an unsaturated uronic acid that the installed glyrepr vocabulary cannot represent faithfully; typed compositions therefore remain missing rather than substituting saturated HexA. D0a0, D0a4, D0a6 and D0a10 denote zero, 4-O, 6-O and 4,6-di-O-sulfation, respectively.

Access

Use glyhub_load("glyhub_GPST000562_CS_DS") to load this dataset.