{ "bcoid": "GLY_000284", "title": "Glycan Enzyme", "description": "The dataset provides information on biosynthetic enzymes (UniProtKB Ac.) associated to the glycan structures ...", "filename_list": "glycan_enzyme.csv", "filename": "glycan_enzyme.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tag": [ "Biosynthetic Enzyme" ], "status": [ "Reviewed" ], "file_type": [ "csv" ], "scope": [ "internal" ], "species": [ "Homo sapiens", "Mus musculus", "Sus scrofa", "Drosophila melanogaster", "Rattus norvegicus", "Severe acute respiratory syndrome coronavirus 2", "Rattus", "Saccharomyces cerevisiae", "Dictyostelium discoideum" ] }, "minitable": { "content": [ [ "G00002CF...", "O-glycan_cor..." ], [ "G00002CF...", "O-glycan_cor..." ] ], "headers": [ "glytoucan_ac...", "residue_name..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_ac" }, { "type": "string", "label": "residue_name" }, { "type": "string", "label": "residue_id" }, { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "uniprotkb_ac" }, { "type": "string", "label": "gene_name" }, { "type": "string", "label": "gene_id" }, { "type": "string", "label": "parent_residue_id" }, { "type": "string", "label": "enzyme_type" }, { "type": "string", "label": "species" }, { "type": "string", "label": "recommended_name_full" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" } ], [ "G00002CF", "O-glycan_core_x-D-Glcx_C3", "OC3", "G5E897-1", "G5E897", "Poglut3", "68304", "0", "GT", "Mus musculus", "Protein O-glucosyltransferase 3", "glycan_xref_sandbox", "G00002CF" ], [ "G00002CF", "O-glycan_core_x-D-Glcx_C3", "OC3", "Q6UW63-1", "Q6UW63", "POGLUT2", "79070", "0", "GT", "Homo sapiens", "Protein O-glucosyltransferase 2", "glycan_xref_sandbox", "G00002CF" ] ] }, "readme": "Name\n - Glycan Enzyme\n\nVersion\n - v-2.9.1\n\nCreated on\n - 2019-11-13T13:19:08.883378\n\nModified on\n - 2024-05-17T11:23:54.942Z\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@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 - Will York [will@ccrc.uga.edu], Allison Nairn [avnairn@uga.edu]\n\nChecksum\n - \n\nUsability Domain\n - The dataset provides information on biosynthetic enzymes (UniProtKB Ac.) associated to the glycan structures (GlyTouCan Accessions). The enzymes listed are human or mouse proteins that are associated with the canonical monosaccharides. The association of a glycan structure to the canonical monosaccharides are based on the Glyco tree model. The glycans listed in the database may or may not have a human (TaxID:9606) or mouse (TaxID:10090) species annotation from the source (GlyTouCan or UniCarbKB) database. Please note that a human or mouse biosynthetic enzyme association should not be considered as a human or mouse species annotation for that glycan.\n\nDescription Domain\n Keywords\n - Glycan\n - GlyTouCan Accession\n - Enzyme\n\n Pipeline Steps\n - Step-1: The input file was downloaded from the source authors and a python script was used to extract columns: glytoucan_ac,residue_name,residue_id,uniprot,gene_name,gene_id,parent_residue_id,type,species. The script also assigned protein recommended name based on the UniProtKB accession. \n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-species-agnostic-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: arabidopsis_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/arabidopsis_protein_masterlist.csv\n Name: arabidopsis_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/arabidopsis_protein_recnames.csv\n Name: bovine_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/bovine_protein_masterlist.csv\n Name: bovine_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/bovine_protein_recnames.csv\n Name: chicken_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/chicken_protein_masterlist.csv\n Name: chicken_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/chicken_protein_recnames.csv\n Name: dicty_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/dicty_protein_masterlist.csv\n Name: dicty_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/dicty_protein_recnames.csv\n Name: fruitfly_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/fruitfly_protein_masterlist.csv\n Name: fruitfly_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/fruitfly_protein_recnames.csv\n Name: glycan_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/glycan_masterlist.csv\n Name: hamster_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/hamster_protein_masterlist.csv\n Name: hamster_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/hamster_protein_recnames.csv\n Name: hcv1a_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/hcv1a_protein_masterlist.csv\n Name: hcv1a_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/hcv1a_protein_recnames.csv\n Name: hcv1b_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/hcv1b_protein_masterlist.csv\n Name: hcv1b_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/hcv1b_protein_recnames.csv\n Name: human_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/human_protein_masterlist.csv\n Name: human_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/human_protein_recnames.csv\n Name: mouse_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/mouse_protein_masterlist.csv\n Name: mouse_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/mouse_protein_recnames.csv\n Name: pig_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/pig_protein_masterlist.csv\n Name: pig_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/pig_protein_recnames.csv\n Name: rat_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_protein_masterlist.csv\n Name: rat_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/rat_protein_recnames.csv\n Name: sarscov1_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/sarscov1_protein_masterlist.csv\n Name: sarscov1_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/sarscov1_protein_recnames.csv\n Name: sarscov2_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/sarscov2_protein_masterlist.csv\n Name: sarscov2_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/sarscov2_protein_recnames.csv\n Name: yeast_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/yeast_protein_masterlist.csv\n Name: yeast_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/yeast_protein_recnames.csv\n Name: zebrafish_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/zebrafish_protein_masterlist.csv\n Name: zebrafish_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/zebrafish_protein_recnames.csv\n Name: glycotree_annotated_glycans.tsv\n URI: https:/data.glygen.org/ln2downloads/sandbox/02_11_2025/glycotree_annotated_glycans.tsv\n Output Subdomain\n Name: glycan_enzyme.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/glycan_enzyme.csv\n Name: glycan_enzyme.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.9.1/reviewed/glycan_enzyme.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"29176\"\n Name: \"residue_name\"\n Description: \"Residue name of the glycan\"\n Unique Values: \"280\"\n Name: \"residue_id\"\n Description: \"residue id associated with the glycan\"\n Unique Values: \"280\"\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"227\"\n Name: \"uniprotkb_ac\"\n Description: \"Accession assigned to the protein in the UniProtKB database\"\n Unique Values: \"227\"\n Name: \"gene_name\"\n Description: \"\"Official gene name/symbol assigned to the gene. Human gene name/symbol are approved by the HUGO Gene Nomenclature Committee (HGNC) and mouse gene name are approved by the Mouse Genome Informatics (MGI)\"\n Unique Values: \"227\"\n Name: \"gene_id\"\n Description: \"NCBI Gene identifier\"\n Unique Values: \"227\"\n Name: \"parent_residue_id\"\n Description: \"parent residue id associated with the glycan\"\n Unique Values: \"96\"\n Name: \"enzyme_type\"\n Description: \" Type of Enzyme (GH/GT)-Glycohydrolases\"\n Unique Values: \"1\"\n Name: \"species\"\n Description: \"Species of the protein.\"\n Unique Values: \"2\"\n Name: \"recommended_name_full\"\n Description: \"Recommended full name of the protein in the UniProtKB database\"\n Unique Values: \"117\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"29176\"", "downloadurl": "/ln2data/releases/data/v-2.9.1/reviewed/glycan_enzyme.csv" }