Onchocerca volvulus adult-female GSL glycan profile

A complete published MALDI peak-area profile from adult female Onchocerca volvulus, used to investigate shared antigenic glycans across filarial nematodes.

Usage

glyhub_GPST000299_GSL(
  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 41 features and 1 observations. The abundance assay is in unnormalized MALDI peak area. rowData includes a typed glycan_structure column; features without a supported structure are NA.

Source

GlycoPOST GPST000299. GSL glycans. Study: https://doi.org/10.3389/fimmu.2023.1102344. Repository: https://glycopost.glycosmos.org/entry/GPST000299.

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

Table S4 supplies one profile per glycan class without biological-replicate columns. All measured peaks with numerical areas are retained, including unassigned peaks with missing molecular annotation. Areas are preserved without normalization and cannot support replicate-based statistical inference. Same-row SNFG topology is transcribed where unambiguous; unspecified glycosidic bonds and phosphocholine positions remain unknown. Ambiguous antenna attachment, alternative isomers or missing modification placement are retained in the source workbook rather than resolved by assumption. Analytical 2-AA is excluded from the native glycan annotation and recorded separately.

Source-derived compositions and original labels are retained. 18 source-supported structures are typed; unspecified bonds remain unknown. Unresolved or conflicting structures remain missing with source provenance.

Access

Use glyhub_load("glyhub_GPST000299_GSL") to load this dataset.