Red-blood-cell O-glycan precursor quantification

Complete public Panorama precursor-by-sample TotalArea export; all source precursors including explicitly marked glucose QC/normalization standards retained.

Usage

glyhub_GPST000128_o_precursor(
  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 35 features and 6 observations. The abundance assay is in peak_area. rowData has no glycan_structure column because no feature has a supported structural annotation.

Source

GlycoPOST GPST000128. Panorama PrecursorChromInfo. Study: https://doi.org/10.1182/bloodadvances.2020003376. Repository: https://glycopost.glycosmos.org/entry/GPST000128. Quantitative source: https://panoramaweb.org/Panorama%20Public/2020/U%20of%20Nebraska%20Medical%20Center%20Gundry%20Lab%20-%20Sickle%20Cell%20Manuscript/query-selectRows.api?schemaName=targetedms&query.queryName=PrecursorChromInfo&query.maxRows=2000.

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

Six source sample identifiers 07,08,13,39,55,56 retained. Clinical group mapping not verified, group=NA. Multiple precursors per glycan remain separate by source precursor ID; no arbitrary charge merging. This is an already integrated processed quantity export, no raw-MS reprocessing.

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_GPST000128_o_precursor") to load this dataset.