{ "bcoid": "GLY_000733", "title": "Rat Glycosylation Sites UniCarbKB Glycomics Study", "description": "The Rat UniCarbKB Glycomics Study contains Rattus norvegicus [taxid: 10116] glycan tissue expression ...", "filename_list": "rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv", "filename": "rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv", "filetype": "csv", "categories": { "species": [ "Rattus norvegicus" ], "molecule": [ "Proteoform" ], "tag": [ "UniCarbKB glycosylation sites glycomics study" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ], "file_category": [ "glycosylation_sites_" ] }, "minitable": { "content": [ [ "...", "..." ], [ "...", "..." ] ], "headers": [ "uniprotkb_ca...", "glycosylatio..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "glycosylation_site_uniprotkb" }, { "type": "string", "label": "amino_acid" }, { "type": "string", "label": "saccharide" }, { "type": "string", "label": "glycosylation_type" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" }, { "type": "string", "label": "unicarbkb_id" }, { "type": "string", "label": "composition" }, { "type": "string", "label": "curation_notes" }, { "type": "string", "label": "additonal_notes" }, { "type": "string", "label": "protein" }, { "type": "string", "label": "position" }, { "type": "string", "label": "Id" }, { "type": "string", "label": "toucan" }, { "type": "string", "label": "type_amino_acid" }, { "type": "string", "label": "notes" }, { "type": "string", "label": "pmid" }, { "type": "string", "label": "additional_notes" }, { "type": "string", "label": "doi" }, { "type": "string", "label": "glytoucan_structure" }, { "type": "string", "label": "swiss_model" }, { "type": "string", "label": "source_tissue_id" }, { "type": "string", "label": "source_tissue_name" }, { "type": "string", "label": "species" }, { "type": "string", "label": "Uoxf" }, { "type": "string", "label": "HexNAc" }, { "type": "string", "label": "Hex" }, { "type": "string", "label": "dHex" }, { "type": "string", "label": "NeuAc" }, { "type": "string", "label": "abundance" }, { "type": "string", "label": "pdb" }, { "type": "string", "label": "related" }, { "type": "string", "label": "preprint" }, { "type": "string", "label": "peptide" }, { "type": "string", "label": "composition1" }, { "type": "string", "label": "composition2" }, { "type": "string", "label": "composition3" }, { "type": "string", "label": "pos_start" }, { "type": "string", "label": "pos_end" }, { "type": "string", "label": "doid" }, { "type": "string", "label": "disease_name" }, { "type": "string", "label": "RT" }, { "type": "string", "label": "GU" }, { "type": "string", "label": "Sia" }, { "type": "string", "label": "Fuc" }, { "type": "string", "label": "COMPLEX" }, { "type": "string", "label": "HM" }, { "type": "string", "label": "PM" }, { "type": "string", "label": "sample_preparation" }, { "type": "string", "label": "n_sequon" }, { "type": "string", "label": "n_sequon_type" }, { "type": "string", "label": "start_pos" }, { "type": "string", "label": "end_pos" }, { "type": "string", "label": "start_aa" }, { "type": "string", "label": "end_aa" }, { "type": "string", "label": "site_seq" }, { "type": "string", "label": "isoform_mapping_notes" } ], [ "", "", "", "G22768VO", "N-linked", "protein_xref_pubmed", "33993882", "protein_xref_unicarbkb_ds", "GLY_000733", "G22768VO", "", "", "Average peak area (%) in LPS-injected striatum", "", "", "G22768VO", "G22768VO", "", "HILIC-UPLC 2AB", "33993882", "Average peak area (%) in LPS-injected striatum", "10.1186/s12974-021-02163-6", "", "", "UBERON:0002435", "striatum", "Rattus norvegicus", "M3", "", "", "", "", "0.3680.078", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "BAO:0002016; lipopolysaccharide", "", "", "", "", "", "", "", "" ], [ "", "", "", "G35619UY", "N-linked", "protein_xref_pubmed", "33993882", "protein_xref_unicarbkb_ds", "GLY_000733", "G35619UY", "", "", "Average peak area (%) in LPS-injected striatum", "", "", "G35619UY", "G35619UY", "", "HILIC-UPLC 2AB", "33993882", "Average peak area (%) in LPS-injected striatum", "10.1186/s12974-021-02163-6", "", "", "UBERON:0002435", "striatum", "Rattus norvegicus", "M3B", "", "", "", "", "1.8840.183", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "BAO:0002016; lipopolysaccharide", "", "", "", "", "", "", "", "" ] ] }, "readme": "Name\n - Rat Glycosylation Sites UniCarbKB Glycomics Study\n\nVersion\n - v-2.12.1\n\nCreated on\n - 2023-03-10T03:58:50.149Z\n\nModified on\n - 2025-03-03T16:13:01.653Z\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n - Matthew Campbell [m.campbell2@griffith.edu.au]\n\nChecksum\n - \n\nUsability Domain\n - The Rat UniCarbKB Glycomics Study contains Rattus norvegicus [taxid: 10116] glycan tissue expression data. If you use this dataset please provide proper attribution to UniCarbKB and GlyGen. UniCarbKB is an initiative that aims to promote the creation of an online information storage and search platform for glycomics and glycobiology research. \n\nDescription Domain\n Keywords\n - Publications\n - Citations\n - PubMed\n - glycomics\n - UniCarbKB\n - glycan\n\n Pipeline Steps\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-proteoform-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: n_sequon_info.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/misc/n_sequon_info.csv\n Name: sample_mapping.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/misc/sample_mapping.csv\n Name: cellosaurus.txt\n URI: https:/data.glygen.org/ln2downloads/cellosaurus/2026_06_02/cellosaurus.txt\n Name: known_unicarbkb_glycomics_study.csv\n URI: https:/data.glygen.org/ln2downloads/unicarbkb/01_11_2022/known_unicarbkb_glycomics_study.csv\n Output Subdomain\n Name: rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n Name: rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\"\n Description: \"\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv" }