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

Complete source-defined N-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 N-glycan quantitative profiles from GPST000213. 679 union features and 86 source observations are represented.

Usage

glyhub_GPST000213_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 679 features and 86 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%20N-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) N-glycan source peak profiles: 130 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. Source QC: the full 130-value raw-intensity vectors for M480 (WT, source G) and M11 (MUT, source I) are identical, as are M10 (MUT, source H) and M444 (MUT, source K). All four source columns are preserved, but their analysis assay values are masked as NA because source sample provenance cannot be resolved. No member of either pair is guessed to be correct. 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) N-glycan source peak profiles: 130 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) N-glycan source peak profiles: 130 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) N-glycan source peak profiles: 130 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 (F) N-glycan source peak profiles: 130 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 (F) N-glycan source peak profiles: 130 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 Plasma (M F) N-glycan source peak profiles: 29 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_N") to load this dataset.