Mouse CTX (M) O-glycan source peak profiles and related study experiments

Complete source-defined O-glycan peak-intensity matrix for mouse CTX (M). The repository includes wild-type and Slc39a8 A391T mutant observations; specimen labels and source genotypes are retained where given. Combined O-glycan quantitative profiles from GPST000213. 148 union features and 39 source observations are represented.

Usage

glyhub_GPST000213_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 148 features and 39 observations. The abundance assay is in source peak intensity. rowData has no glycan_structure column because no feature has a supported structural annotation.

Source

GlycoPOST GPST000213. CTX (M). Study: https://doi.org/10.1038/s41467-021-27781-9. Repository: https://glycopost.glycosmos.org/entry/GPST000213. Quantitative source: https://glycopost.glycosmos.org/data/GPST000213.0/Source%20Data%20O-Glycans.xlsx. Related study: https://doi.org/10.1038/s41380-022-01490-1.

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

Source experiments are identified in colData and original panel-specific metadata, annotations and measurements are retained in metadata. Feature identities are aligned only when supported by author identifiers or explicit molecular structures; other features retain source-specific identities. The source_coverage matrix distinguishes unmeasured combinations from measured missing values. Units: source peak intensity.

Mouse CTX (M) O-glycan source peak profiles: 30 quantified source peaks are retained, including peaks without resolved molecular annotation. This is the complete raw-intensity block of the processed workbook, not raw MS reprocessing. Peaks are indexed within the source sheet; no mass-tolerance matching or inter-tissue alignment is imposed. Published normalized and signal-to-noise tables remain in the original workbook; they are not substituted for the intensity assay. Sex and specimen labels are source-defined. Glycan composition is unknown for these peak-level features because the separate rounded-mass annotation list has no exact source feature key. The repository combines wild-type profiling with Slc39a8 A391T data discussed in the related study (DOI: 10.1038/s41380-022-01490-1); the linked Nature Communications data-availability statement explicitly identifies this shared accession.

Mouse HIP (M) O-glycan source peak profiles: 30 quantified source peaks are retained, including peaks without resolved molecular annotation. This is the complete raw-intensity block of the processed workbook, not raw MS reprocessing. Peaks are indexed within the source sheet; no mass-tolerance matching or inter-tissue alignment is imposed. Published normalized and signal-to-noise tables remain in the original workbook; they are not substituted for the intensity assay. Sex and specimen labels are source-defined. Glycan composition is unknown for these peak-level features because the separate rounded-mass annotation list has no exact source feature key. The repository combines wild-type profiling with Slc39a8 A391T data discussed in the related study (DOI: 10.1038/s41380-022-01490-1); the linked Nature Communications data-availability statement explicitly identifies this shared accession.

Mouse STR (M) O-glycan source peak profiles: 30 quantified source peaks are retained, including peaks without resolved molecular annotation. This is the complete raw-intensity block of the processed workbook, not raw MS reprocessing. Peaks are indexed within the source sheet; no mass-tolerance matching or inter-tissue alignment is imposed. Published normalized and signal-to-noise tables remain in the original workbook; they are not substituted for the intensity assay. Sex and specimen labels are source-defined. Glycan composition is unknown for these peak-level features because the separate rounded-mass annotation list has no exact source feature key. The repository combines wild-type profiling with Slc39a8 A391T data discussed in the related study (DOI: 10.1038/s41380-022-01490-1); the linked Nature Communications data-availability statement explicitly identifies this shared accession.

Mouse CBLM (M) O-glycan source peak profiles: 30 quantified source peaks are retained, including peaks without resolved molecular annotation. This is the complete raw-intensity block of the processed workbook, not raw MS reprocessing. Peaks are indexed within the source sheet; no mass-tolerance matching or inter-tissue alignment is imposed. Published normalized and signal-to-noise tables remain in the original workbook; they are not substituted for the intensity assay. Sex and specimen labels are source-defined. Glycan composition is unknown for these peak-level features because the separate rounded-mass annotation list has no exact source feature key. The repository combines wild-type profiling with Slc39a8 A391T data discussed in the related study (DOI: 10.1038/s41380-022-01490-1); the linked Nature Communications data-availability statement explicitly identifies this shared accession.

Mouse CTX (Female) O-glycan source peak profiles: 28 quantified source peaks are retained, including peaks without resolved molecular annotation. This is the complete raw-intensity block of the processed workbook, not raw MS reprocessing. Peaks are indexed within the source sheet; no mass-tolerance matching or inter-tissue alignment is imposed. Published normalized and signal-to-noise tables remain in the original workbook; they are not substituted for the intensity assay. Sex and specimen labels are source-defined. Glycan composition is unknown for these peak-level features because the separate rounded-mass annotation list has no exact source feature key. The repository combines wild-type profiling with Slc39a8 A391T data discussed in the related study (DOI: 10.1038/s41380-022-01490-1); the linked Nature Communications data-availability statement explicitly identifies this shared accession.

No molecular annotation is inferred from mass alone; source m/z labels remain available.

Access

Use glyhub_load("glyhub_GPST000213_O") to load this dataset.