Major human schistosome species express different glycans with immunological and diagnostic implications

Annotated Schistosoma haematobium O-glycan MALDI-TOF-MS peak-intensity records from Supplementary Data 1, sheet (E) Sh O-glycans; 122 source-specific peak records across 4 spectra.

Usage

glyhub_GPST000602_Sh_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 122 features and 4 observations. The abundance assay is in MALDI-TOF-MS peak intensity (source instrument units; arbitrary units). rowData has no glycan_structure column because no feature has a supported structural annotation.

Source

GlycoPOST GPST000602. Supplementary Data 1 / Table S1 - Raw MALDI-TOF-MS data. Study: https://doi.org/10.1038/s41467-026-70850-0. Repository: https://glycopost.glycosmos.org/entry/GPST000602. Quantitative source: https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-026-70850-0/MediaObjects/41467_2026_70850_MOESM3_ESM.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

Each retained source peak is a separate feature identified by sheet, spectrum block and row. The sparse matrix organizes spectrum-specific measurements without asserting cross-spectrum molecular identity. Off-spectrum entries have source_coverage=FALSE and are not measured missing values or biological absence. The object scope is one object per source worksheet across the five source worksheets. This object is not a ready-to-use cross-sample aligned feature matrix; cross-spectrum comparisons require an independently justified feature alignment. Only rows with a non-null author composition annotation are retained. Raw workbook bytes and complete retained/dropped cell-level ledgers preserve source evidence. No averaging, summation, normalization, imputation, mass filtering, peak selection by intensity, or raw-MS processing is performed. All retained numeric assay zeros become NA; nonzero values are unchanged. Putative compositions do not establish exact structures or distinguish isomers. AA and redEnd labels are stored separately from monosaccharide counts.

All retained features have source putative composition annotations parsed to typed monosaccharide counts; exact glycan structures remain NA. Original labels, m/z values, all source block values and source formulas are preserved.

Access

Use glyhub_load("glyhub_GPST000602_Sh_O") to load this dataset.