MLL-rearranged B-cell precursor ALL O-glycome

Complete source abundance matrix; O-table merged glycan identity spans alternative charge rows, with quantities taken from the sole nonempty quantitative row.

Usage

glyhub_GPST000183_o(
  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 21 features and 20 observations. The abundance assay is in relative_abundance_percent. rowData has no glycan_structure column because no feature has a supported structural annotation.

Source

GlycoPOST GPST000183. Glycomics Reporting. Study: https://doi.org/10.7150/thno.65398. Repository: https://glycopost.glycosmos.org/entry/GPST000183. Quantitative source: https://glycopost.glycosmos.org/data/GPST000183.0/Sup%20Table%204%20-%20O-glycomics%20Results.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

All published features and samples retained, including N-table BM41/R7B11 that paper later excluded from final preparations due to low yield; flag rather than silently discard. GlyTouCan IDs retained as identifiers, not invented full structures. N table is seven per-donor relative abundance profiles; O suffixes 1-4 are technical replicates per paper figure caption.

Molecular annotations retain source precision. Unresolved compositions or structures are NA; original annotations are retained in rowData. All quantitative source features are preserved.

Access

Use glyhub_load("glyhub_GPST000183_o") to load this dataset.