Package: glyhub 0.1.0

Bin Fu

glyhub: Curated Glycomics and Glycoproteomics Data Resources

Provides access to curated public glycomics and glycoproteomics datasets from GlycoPOST, CPTAC, and published studies as 'glyexp' 'GlycomicSE' and 'GlycoproteomicSE' objects. Datasets preserve source molecular annotations, measurement provenance, and explicit processing records. A catalog and shared loader retrieve data from versioned GitHub Releases, verify file integrity with SHA-256 checksums, and cache downloads for offline reuse.

Authors:Bin Fu [aut, cre, cph]

glyhub_0.1.0.tar.gz
glyhub_0.1.0.zip(r-4.7-any)glyhub_0.1.0.zip(r-4.6-any)glyhub_0.1.0.zip(r-4.5-any)
glyhub_0.1.0.tgz(r-4.6-any)glyhub_0.1.0.tgz(r-4.5-any)
glyhub_0.1.0.tar.gz(r-4.7-any)glyhub_0.1.0.tar.gz(r-4.6-any)
glyhub_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
glyhub/json (API)

# Install 'glyhub' in R:
install.packages('glyhub', repos = c('https://glycoverse.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/glycoverse/glyhub/issues

Pkgdown/docs site:https://glycoverse.github.io

On CRAN:

Conda:

datasetsglycomicsglycoproteomicsglycoverse

1.70 score 99 exports 44 dependencies

Last updated from:8be78ea4a2 (on v0.1.0). Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK236
source / vignettesOK210
linux-releaseOK339
macos-releaseOK245
macos-oldrelOK250
windows-develOK177
windows-releaseOK169
windows-oldrelOK210
wasm-releaseOK97

Exports:glyhub_catalogglyhub_CPTAC_CCRCCglyhub_CPTAC_COADglyhub_CPTAC_HGSCglyhub_CPTAC_HNSCCglyhub_CPTAC_LSCCglyhub_CPTAC_LUADglyhub_CPTAC_PDACglyhub_CPTAC_UCECglyhub_GPST000009_Oglyhub_GPST000027_031_Nglyhub_GPST000035_Oglyhub_GPST000079_Nglyhub_GPST000120_O_Spike_ACE2glyhub_GPST000125_GSL_HEK293glyhub_GPST000125_N_HEK293glyhub_GPST000125_O_HEK293glyhub_GPST000128_n_precursorglyhub_GPST000128_o_precursorglyhub_GPST000170_Nglyhub_GPST000170_Oglyhub_GPST000183_nglyhub_GPST000183_oglyhub_GPST000190_Nglyhub_GPST000211_Oglyhub_GPST000213_Nglyhub_GPST000213_Oglyhub_GPST000214_N_AML_CellLinesglyhub_GPST000214_O_AML_CellLinesglyhub_GPST000239_GSLglyhub_GPST000240_GSLglyhub_GPST000240_Nglyhub_GPST000271_N_CAL51glyhub_GPST000271_O_CAL51glyhub_GPST000294_N_Celegans_L4glyhub_GPST000294_O_Celegans_Developmentglyhub_GPST000296_Nglyhub_GPST000296_N_Glycoproteomicsglyhub_GPST000297_Nglyhub_GPST000297_Oglyhub_GPST000299_GSLglyhub_GPST000299_Nglyhub_GPST000351_Nglyhub_GPST000374_Oglyhub_GPST000374_sssmug_gslglyhub_GPST000374_sssmug_nglyhub_GPST000381_N_Prosaposinglyhub_GPST000403_Nglyhub_GPST000431_Nglyhub_GPST000460_Nglyhub_GPST000473_Nglyhub_GPST000533_N_Glycopeptidesglyhub_GPST000533_N_Releasedglyhub_GPST000534_Nglyhub_GPST000562_CS_DSglyhub_GPST000578_N_Fetuin_TwoSitesglyhub_GPST000578_N_source_repeatability_intensityglyhub_GPST000578_N_total_peak_areaglyhub_GPST000584_Nglyhub_GPST000585_Nglyhub_GPST000596_Nglyhub_GPST000599_serum_nglyhub_GPST000601_Nglyhub_GPST000601_N_glycopeptidesglyhub_GPST000602_Sh_GSLglyhub_GPST000602_Sh_Nglyhub_GPST000602_Sh_Oglyhub_GPST000602_Sm_GSLglyhub_GPST000602_Sm_Nglyhub_GPST000604_CS_DSglyhub_GPST000604_HSglyhub_GPST000625_Nglyhub_GPST000643_Nglyhub_GPST000643_Oglyhub_GPST000647_Nglyhub_GPST000650_Oglyhub_GPST000667_Nglyhub_GPST000671_Nglyhub_GPST000671_N_Glycoproteomicsglyhub_GPST000671_Oglyhub_GPST000671_O_Glycoproteomicsglyhub_GPST000676_GAGglyhub_GPST000738_N_B4GalT1glyhub_GPST000738_N_ST6GAL1glyhub_IPX0011099000_N_Brainglyhub_loadglyhub_MSV000089484_N_HCCglyhub_PXD011063_O_Dilutionglyhub_PXD011063_O_SerumSAglyhub_PXD046637_N_Lungglyhub_PXD052447_N_Microbiomeglyhub_PXD052447_N_PNGaseglyhub_PXD052447_N_ProteinaseKglyhub_PXD052447_N_Solubilityglyhub_PXD052447_N_Tissuesglyhub_PXD052447_N_TwoFFglyhub_PXD065283_N_DiscoverySelectedglyhub_PXD065283_N_QCglyhub_PXD070547_N_HumanAtlas

Dependencies:abindbackportsBiobaseBiocGenericscheckmateclicpp11DelayedArraydigestdplyrgenericsGenomicRangesglueglyexpglyreprigraphIRangeslatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatspillarpkgconfigpurrrR6RcpprlangrstackdequeS4ArraysS4VectorsSeqinfoSparseArraystringistringrSummarizedExperimenttibbletidyrtidyselectutf8vctrswithrXVector

Readme and manuals

Help Manual

Help pageTopics
List available glyhub datasetsglyhub_catalog
Clear cell renal cell carcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_CCRCC
Colon adenocarcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_COAD
High-grade serous ovarian carcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_HGSC
Head and neck squamous cell carcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_HNSCC
Lung squamous cell carcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_LSCC
Lung adenocarcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_LUAD
Pancreatic ductal adenocarcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_PDAC
Uterine corpus endometrial carcinoma: CPTAC N-glycoproteomeglyhub_CPTAC_UCEC
Measurement and annotation conventions for glyhub datasetsglyhub_data_conventions
Atlantic salmon epithelial mucin O-glycansglyhub_GPST000009_O
Mgat3 mouse brain and kidney N-glycan source profilesglyhub_GPST000027_031_N
O-glycan profile of Fetuin_standard and related study experimentsglyhub_GPST000035_O
Postnatal mouse skeletal-muscle N-glycomeglyhub_GPST000079_N
Released O-glycans of recombinant SARS-CoV-2 Spike and ACE2glyhub_GPST000120_O_Spike_ACE2
Glycosphingolipid glycan profiles in HEK293 glycosylation-knockout cellsglyhub_GPST000125_GSL_HEK293
N-glycan profiles in HEK293 glycosylation-knockout cellsglyhub_GPST000125_N_HEK293
O-glycan profiles in HEK293 glycosylation-knockout cellsglyhub_GPST000125_O_HEK293
Red-blood-cell N-glycan precursor quantificationglyhub_GPST000128_n_precursor
Red-blood-cell O-glycan precursor quantificationglyhub_GPST000128_o_precursor
Ion-source dopant effects on N-glycan signalglyhub_GPST000170_N
Ion-source dopant effects on O-glycan signalglyhub_GPST000170_O
MLL-rearranged B-cell precursor ALL N-glycomeglyhub_GPST000183_n
MLL-rearranged B-cell precursor ALL O-glycomeglyhub_GPST000183_o
Linkage-specific sialic-acid derivatization of plasma N-glycansglyhub_GPST000190_N
O-glycans released by thrombin-activated human plateletsglyhub_GPST000211_O
Mouse CTX (M) N-glycan source peak profiles and related study experimentsglyhub_GPST000213_N
Mouse CTX (M) O-glycan source peak profiles and related study experimentsglyhub_GPST000213_O
N-glycan profiles of 21 acute myeloid leukemia cell linesglyhub_GPST000214_N_AML_CellLines
O-glycan profiles of 21 acute myeloid leukemia cell linesglyhub_GPST000214_O_AML_CellLines
Colorectal-cancer cell-line glycosphingolipid glycansglyhub_GPST000239_GSL
Brugia malayi glycosphingolipid glycans across life stagesglyhub_GPST000240_GSL
Brugia malayi N-glycans across life stagesglyhub_GPST000240_N
N-glycan profiles in CAL51 Golgi knockout cellsglyhub_GPST000271_N_CAL51
O-glycan profiles in CAL51 Golgi knockout cellsglyhub_GPST000271_O_CAL51
Caenorhabditis elegans L4 N-glycans across culture and release fractionsglyhub_GPST000294_N_Celegans_L4
Caenorhabditis elegans developmental O-glycan profilesglyhub_GPST000294_O_Celegans_Development
Oral tumor N-glycans associated with lymph node metastasisglyhub_GPST000296_N
Site-specific N-glycoproteome of oral squamous-cell carcinoma tissuesglyhub_GPST000296_N_Glycoproteomics
Cornu aspersum mucus N-glycan profilesglyhub_GPST000297_N
Cornu aspersum mucus O-glycan profilesglyhub_GPST000297_O
Onchocerca volvulus adult-female GSL glycan profileglyhub_GPST000299_GSL
Onchocerca volvulus adult-female N glycan profileglyhub_GPST000299_N
Plasma N-glycomes of ASGR1- and MRC1-deficient mice under dietary challengeglyhub_GPST000351_N
SSSMuG: Same Sample Sequential Multi-Glycomics. and related study experimentsglyhub_GPST000374_O
SSSMuG: Same Sample Sequential Multi-Glycomics.glyhub_GPST000374_sssmug_gsl
SSSMuG: Same Sample Sequential Multi-Glycomics.glyhub_GPST000374_sssmug_n
Released N-glycans of pSAP65 and pSAP75 prosaposin formsglyhub_GPST000381_N_Prosaposin
Rat serum N-glycans after chronic herbicide exposureglyhub_GPST000403_N
Swift Universal Glycan Acquisition (SUGA) Enables Quantitative Glycan Profiling across Diverse Sample Types. and related study experimentsglyhub_GPST000431_N
Cardiac N-glycomes in fatal COVID-19glyhub_GPST000460_N
N-glycan remodeling after TANGO2 lossglyhub_GPST000473_N
Desialylated haptoglobin glycopeptides in sepsis serumglyhub_GPST000533_N_Glycopeptides
Desialylated haptoglobin released N-glycans in sepsis serumglyhub_GPST000533_N_Released
N-glycan profiles of two tardigrade speciesglyhub_GPST000534_N
CS/DS disaccharide amounts in A549 and BEAS-2B small extracellular vesiclesglyhub_GPST000562_CS_DS
Fetuin N-glycan peak areas across two instrument sitesglyhub_GPST000578_N_Fetuin_TwoSites
Ovalbumin N-glycan repeatability profiles and related study experimentsglyhub_GPST000578_N_source_repeatability_intensity
Immunoglobulins N-glycan total peak areas and related study experimentsglyhub_GPST000578_N_total_peak_area
Serum N-glycan profiles across hepatocellular carcinoma progressionglyhub_GPST000584_N
Bladder-tissue N-glycans across cancer stagesglyhub_GPST000585_N
Platelet N-glycan isomer profiles in control and FUT8-knockout miceglyhub_GPST000596_N
Septic shock longitudinal serum N-glycomeglyhub_GPST000599_serum_n
Longitudinal rat-serum released N-glycansglyhub_GPST000601_N
Rat serum N-glycopeptides across repeated samplingglyhub_GPST000601_N_glycopeptides
Major human schistosome species express different glycans with immunological and diagnostic implicationsglyhub_GPST000602_Sh_GSL
Major human schistosome species express different glycans with immunological and diagnostic implicationsglyhub_GPST000602_Sh_N
Major human schistosome species express different glycans with immunological and diagnostic implicationsglyhub_GPST000602_Sh_O
Major human schistosome species express different glycans with immunological and diagnostic implicationsglyhub_GPST000602_Sm_GSL
Major human schistosome species express different glycans with immunological and diagnostic implicationsglyhub_GPST000602_Sm_N
Chondroitin/dermatan sulfate disaccharide profiles measured by HILIC-Q-TOF-MSglyhub_GPST000604_CS_DS
Heparan sulfate disaccharide profiles measured by HILIC-Q-TOF-MSglyhub_GPST000604_HS
Human intervertebral-disc N-glycan chromatographic profilesglyhub_GPST000625_N
GH20 activity on N-glycans from pretreated PSGL-1 and related study experimentsglyhub_GPST000643_N
Fucosidase treatment of porcine colonic mucin O-glycans and related study experimentsglyhub_GPST000643_O
Whole-brain N-glycans in Slc35a3-deficient miceglyhub_GPST000647_N
Whole-brain O-glycans in Slc35a3-deficient miceglyhub_GPST000650_O
N-glycan profiles of A549 and BEAS-2B small extracellular vesicles and culture mediaglyhub_GPST000667_N
N-glycomes of influenza-infected A549 organelle and secreted fractionsglyhub_GPST000671_N
Site-resolved N-glycoform proportions during influenza infection of A549 cellsglyhub_GPST000671_N_Glycoproteomics
O-glycomes of influenza-infected A549 organelle and secreted fractionsglyhub_GPST000671_O
Site-resolved O-glycoform proportions during influenza infection of A549 cellsglyhub_GPST000671_O_Glycoproteomics
Sulfatase modifying factors control the timing of zebrafish convergence and extension morphogenesis. and related study experimentsglyhub_GPST000676_GAG
Galactosylation of bovine fetuin N-glycans in an enzyme reactorglyhub_GPST000738_N_B4GalT1
Sialylation of bovine fetuin N-glycans in an enzyme reactorglyhub_GPST000738_N_ST6GAL1
Mouse brain Glyco-Decipher chromatographic areasglyhub_IPX0011099000_N_Brain
Load any glyhub datasetglyhub_load
pGlycoQuant HCC cell-line source intensitiesglyhub_MSV000089484_N_HCC
Glyco-DIA precursor peak areas in a dilution experimentglyhub_PXD011063_O_Dilution
Glyco-DIA SA serum source precursor peak areasglyhub_PXD011063_O_SerumSA
Paired lung nodule glycoproteomicsglyhub_PXD046637_N_Lung
DQGlyco microbiome experiment reporter intensitiesglyhub_PXD052447_N_Microbiome
DQGlyco PNGase accessibility reporter intensitiesglyhub_PXD052447_N_PNGase
DQGlyco proteinase K accessibility reporter intensitiesglyhub_PXD052447_N_ProteinaseK
DQGlyco mouse brain solubility reporter intensitiesglyhub_PXD052447_N_Solubility
DQGlyco mouse tissue reporter intensitiesglyhub_PXD052447_N_Tissues
DQGlyco 2-fluorofucose time course reporter intensitiesglyhub_PXD052447_N_TwoFF
HCC discovery cohort selected processed featuresglyhub_PXD065283_N_DiscoverySelected
HCC study quality-control injectionsglyhub_PXD065283_N_QC
Human organ atlas raw XIC matrixglyhub_PXD070547_N_HumanAtlas