Plasma N-glycomes of ASGR1- and MRC1-deficient mice under dietary challenge

Seventy-two sialic-linkage-resolved plasma N-glycan features across 46 MALDI-TOF-MS observations from a study of hepatic and macrophage glycan-receptor deficiency. Observations include experimental animals and pooled controls.

Usage

glyhub_GPST000351_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 72 features and 46 observations. The abundance assay is in relative abundance fraction. rowData has no glycan_structure column because no feature has a supported structural annotation.

Source

GlycoPOST GPST000351. . Study: https://doi.org/10.1016/j.mcpro.2023.100615. Repository: https://glycopost.glycosmos.org/entry/GPST000351. Quantitative source: https://glycopost.glycosmos.org/data/GPST000351.0/TPNG%20curated%20data%20MALDI.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

The complete author-renormalized matrix is retained as fractions, with its individual acquisition filenames as observation identifiers. Genotype, diet, sex, sample ID and source group are joined by exact acquisition filename. Pooled controls remain explicitly identified; the source metadata are not reinterpreted as independent animals. Neu5Ac/Neu5Gc linkage-specific derivatization and O-acetylated species are preserved. No additional normalization or imputation is performed.

H and N encode Hex and HexNAc; F encodes Fuc. Ge/Gl encode alpha2,6/alpha2,3-linked Neu5Gc, E/L encode the corresponding Neu5Ac linkages, and Ac denotes an acetyl substituent. Linkage counts remain in source annotations; composition does not imply a full structure.

Access

Use glyhub_load("glyhub_GPST000351_N") to load this dataset.