{ "bcoid": "GLY_000410", "title": "GlyGen-UniProtKB Crossreferences Mapping", "description": "The GlyGen-UniProtKB Crossreferences dataset contains UniProtKB glycoprotein accessions for human [taxid:9606], ...", "filename": "protein_glygen_uniprotkb_xref_mapping.tsv", "filetype": "tsv", "categories": { "molecule": [ "Protein" ], "tag": [ "GlyGen-UniProtKB Crossreferences" ], "file_type": [ "tsv" ], "status": [ "Reviewed" ], "scope": [ "internal" ], "species": [ "Homo sapiens", "Rattus norvegicus", "Mus musculus", "Drosophila melanogaster", "Saccharomyces cerevisiae S288C", "Hepatitis C virus (isolate Japanese)", "Severe acute respiratory syndrome coronavirus 2", "Severe acute respiratory syndrome-related coronavirus", "Hepatitis C virus (isolate H)" ] }, "minitable": { "content": [ [ "...", "1 site, 1 C-..." ], [ "P24387...", "1 site, 6 N-..." ] ], "headers": [ "uniprotkb_pr...", "additional_i..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_primary_accession" }, { "type": "string", "label": "additional_info" } ], [ "", "1 site, 1 C-linked glycan (1 site), 109 Free glycans (1 site), 581 N-linked glycans (1 site), 1 N-linked/o-linked glycan (1 site), 462 O-linked glycans (1 site)" ], [ "P24387", "1 site, 6 N-linked glycans (1 site)" ], [ "Q07444", "3 sites" ], [ "D3ZLH5", "9 sites" ], [ "Q9BYT8", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9UBU7", "2 sites, 1 O-linked glycan (2 sites)" ], [ "Q9Z137", "2 sites" ], [ "Q13228", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9BZW8", "8 sites" ], [ "Q8CGC7", "1 site, 1 O-linked glycan (1 site)" ], [ "Q16538", "1 site" ], [ "P26339", "1 site" ], [ "P14901", "1 site, 1 O-linked glycan (1 site)" ], [ "Q6PFX9", "1 site, 1 O-linked glycan (1 site)" ], [ "O75019", "6 sites" ], [ "Q4V8G8", "6 sites" ], [ "Q08357", "1 site" ], [ "Q7TPM1", "9 sites, 1 O-linked glycan (9 sites)" ], [ "Q8TE77", "1 site, 1 O-linked glycan (1 site)" ], [ "P08046", "2 sites, 1 O-linked glycan (2 sites)" ], [ "Q7M758", "10 sites" ], [ "O14519", "1 site, 1 O-linked glycan (1 site)" ], [ "Q8N5L8", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9EPK6", "3 sites, 3 N-linked glycans (1 site), 1 O-linked glycan (1 site)" ], [ "Q9Z1S7", "6 sites" ], [ "P49771", "2 sites" ], [ "O60359", "1 site, 1 O-linked glycan (1 site)" ], [ "Q5VV52", "1 site, 1 O-linked glycan (1 site)" ], [ "P35251", "1 site, 1 O-linked glycan (1 site)" ], [ "A1Z877", "8 sites, 1 O-linked glycan (2 sites)" ], [ "Q9H161", "2 sites, 1 O-linked glycan (2 sites)" ], [ "Q6UVK1", "19 sites, 2 N-linked glycans (1 site), 4 O-linked glycans (3 sites)" ], [ "Q9CQN1", "1 site, 1 O-linked glycan (1 site)" ], [ "Q91WN2", "2 sites" ], [ "Q96A11", "4 sites" ], [ "P06330", "1 site, 1 O-linked glycan (1 site)" ], [ "O88792", "2 sites" ], [ "Q02575", "1 site, 1 O-linked glycan (1 site)" ], [ "Q96DN0", "1 site" ], [ "P51684", "2 sites" ], [ "O14798", "4 sites, 1 O-linked glycan (1 site)" ], [ "P61009", "2 sites, 1 O-linked glycan (1 site)" ], [ "P32906", "3 sites" ], [ "P53890", "7 sites, 1 O-linked glycan (7 sites)" ], [ "Q9NT22", "6 sites, 1 O-linked glycan (1 site)" ], [ "Q8C0N1", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9VDH6", "9 sites" ], [ "Q5QD14", "1 site" ], [ "P60981", "1 site, 1 O-linked glycan (1 site)" ], [ "Q3SXP7", "2 sites" ], [ "Q00960", "7 sites, 12 N-linked glycans (4 sites)" ], [ "A6NDX4", "1 site" ], [ "P55316", "1 site, 1 O-linked glycan (1 site)" ], [ "Q61200", "6 sites, 3 N-linked glycans (3 sites)" ], [ "Q5PR73", "1 site, 1 O-linked glycan (1 site)" ], [ "Q8NGF1", "1 site" ], [ "Q9UPN4", "1 site, 1 O-linked glycan (1 site)" ], [ "Q8CGK7", "2 sites, 1 O-linked glycan (2 sites)" ], [ "A6NGU5", "9 sites, 4 N-linked glycans (2 sites), 1 O-linked glycan (2 sites)" ], [ "Q9NZU1", "2 sites" ], [ "P29375", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9ESX5", "1 site, 1 O-linked glycan (1 site)" ], [ "P09601", "1 site, 1 O-linked glycan (1 site)" ], [ "O94967", "1 site, 1 O-linked glycan (1 site)" ], [ "P13221", "1 site, 1 O-linked glycan (1 site)" ], [ "Q8BG39", "4 sites, 1 O-linked glycan (1 site)" ], [ "Q91YP0", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9WV48", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9QUM9", "1 site, 1 O-linked glycan (1 site)" ], [ "Q920B9", "1 site, 1 O-linked glycan (1 site)" ], [ "Q0P678", "2 sites, 1 O-linked glycan (2 sites)" ], [ "Q99504", "3 sites, 2 O-linked glycans (3 sites)" ], [ "P14600", "2 sites" ], [ "Q9NY97", "8 sites, 9 N-linked glycans (6 sites), 1 O-linked glycan (1 site)" ], [ "Q9H1K0", "2 sites, 1 O-linked glycan (2 sites)" ], [ "P30405", "1 site, 1 O-linked glycan (1 site)" ], [ "Q9Y6M5", "2 sites, 2 O-linked glycans (1 site)" ], [ "Q4FZT0", "1 site, 1 O-linked glycan (1 site)" ], [ "P01906", "3 sites" ], [ "Q9VJD4", "1 site, 1 O-linked glycan (1 site)" ], [ "Q08967", "2 sites" ], [ "Q7TSH8", "6 sites" ], [ "Q9Y3N9", "3 sites, 1 O-linked glycan (2 sites)" ], [ "Q92521", "2 sites" ] ] }, "readme": "Name\n - GlyGen-UniProtKB Crossreferences Mapping\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2020-04-01T12:08:42.022917\n\nModified on\n - 2022-09-26T09:05:56.496595\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The GlyGen-UniProtKB Crossreferences dataset contains UniProtKB glycoprotein accessions for human [taxid:9606], mouse [taxid:10090], rat [taxid:10116], hcv1a [taxid:11108], hcv1b [taxid:11116], sarscov1 [taxid:694009] and sarscov2 [taxid:2697049] glycoproteins for the purpose of UniProtKB to GlyGen crossreferences. In the dataset, the UniProtKB glycoprotein accessions have corresponding glycosylation annotation present in the datasets. The glycosylation annotation provides information about total (N,O,S,C) glycosylation sites followed by (if available) reported N-glycans and/or reported O-glycans with the number of sites. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB, NCBI RefSeq and GlyGen\n\nDescription Domain\n Keywords\n - UniProtKB\n - GlyGen\n - crossreferences\n - human\n - mouse\n - rat\n\n Pipeline Steps\n - Step-1: The script loads the GlyGen's UniProtKB protein accessions for human, mouse and rat species and extracts it into a csv dataset file\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: dicty_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/dicty_protein_masterlist.csv\n Name: dicty_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/dicty_protein_xref_refseq.csv\n Name: fruitfly_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/fruitfly_protein_masterlist.csv\n Name: fruitfly_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/fruitfly_protein_xref_refseq.csv\n Name: glycan_xref_pubchem.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/glycan_xref_pubchem.csv\n Name: hcv1a_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/hcv1a_protein_masterlist.csv\n Name: hcv1a_proteoform_glycosylation_sites_literature.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/hcv1a_proteoform_glycosylation_sites_literature.csv\n Name: hcv1a_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/hcv1a_proteoform_glycosylation_sites_uniprotkb.csv\n Name: hcv1b_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/hcv1b_protein_masterlist.csv\n Name: hcv1b_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/hcv1b_proteoform_glycosylation_sites_uniprotkb.csv\n Name: human_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_protein_masterlist.csv\n Name: human_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_protein_xref_refseq.csv\n Name: human_proteoform_glycosylation_sites_glyconnect.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_glyconnect.csv\n Name: human_proteoform_glycosylation_sites_gptwiki.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_gptwiki.csv\n Name: human_proteoform_glycosylation_sites_harvard.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_harvard.csv\n Name: human_proteoform_glycosylation_sites_literature.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_literature.csv\n Name: human_proteoform_glycosylation_sites_literature_mining.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_literature_mining.csv\n Name: human_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n Name: human_proteoform_glycosylation_sites_oglcnac_atlas.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_oglcnac_atlas.csv\n Name: human_proteoform_glycosylation_sites_oglcnac_mcw.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_oglcnac_mcw.csv\n Name: human_proteoform_glycosylation_sites_o_gluc.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_o_gluc.csv\n Name: human_proteoform_glycosylation_sites_pdb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_pdb.csv\n Name: human_proteoform_glycosylation_sites_tyr_o_linked.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_tyr_o_linked.csv\n Name: human_proteoform_glycosylation_sites_unicarbkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_unicarbkb.csv\n Name: human_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n Name: human_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_proteoform_glycosylation_sites_uniprotkb.csv\n Name: mouse_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_protein_masterlist.csv\n Name: mouse_protein_xref_mgi.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_protein_xref_mgi.csv\n Name: mouse_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_protein_xref_refseq.csv\n Name: mouse_proteoform_glycosylation_sites_glyconnect.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_glyconnect.csv\n Name: mouse_proteoform_glycosylation_sites_literature_mining.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_literature_mining.csv\n Name: mouse_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n Name: mouse_proteoform_glycosylation_sites_oglcnac_atlas.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_oglcnac_atlas.csv\n Name: mouse_proteoform_glycosylation_sites_oglcnac_mcw.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_oglcnac_mcw.csv\n Name: mouse_proteoform_glycosylation_sites_pdb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_pdb.csv\n Name: mouse_proteoform_glycosylation_sites_unicarbkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_unicarbkb.csv\n Name: mouse_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/mouse_proteoform_glycosylation_sites_uniprotkb.csv\n Name: rat_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_masterlist.csv\n Name: rat_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_xref_refseq.csv\n Name: rat_proteoform_glycosylation_sites_glyconnect.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_glyconnect.csv\n Name: rat_proteoform_glycosylation_sites_literature_mining.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_literature_mining.csv\n Name: rat_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n Name: rat_proteoform_glycosylation_sites_oglcnac_atlas.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_oglcnac_atlas.csv\n Name: rat_proteoform_glycosylation_sites_oglcnac_mcw.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_oglcnac_mcw.csv\n Name: rat_proteoform_glycosylation_sites_pdb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_pdb.csv\n Name: rat_proteoform_glycosylation_sites_unicarbkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_unicarbkb.csv\n Name: rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n Name: rat_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_uniprotkb.csv\n Name: sarscov1_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov1_protein_masterlist.csv\n Name: sarscov1_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov1_protein_xref_refseq.csv\n Name: sarscov1_proteoform_glycosylation_sites_literature.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov1_proteoform_glycosylation_sites_literature.csv\n Name: sarscov1_proteoform_glycosylation_sites_unicarbkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov1_proteoform_glycosylation_sites_unicarbkb.csv\n Name: sarscov1_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov1_proteoform_glycosylation_sites_uniprotkb.csv\n Name: sarscov2_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov2_protein_masterlist.csv\n Name: sarscov2_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov2_protein_xref_refseq.csv\n Name: sarscov2_proteoform_glycosylation_sites_glyconnect.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov2_proteoform_glycosylation_sites_glyconnect.csv\n Name: sarscov2_proteoform_glycosylation_sites_unicarbkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov2_proteoform_glycosylation_sites_unicarbkb.csv\n Name: sarscov2_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/sarscov2_proteoform_glycosylation_sites_uniprotkb.csv\n Name: yeast_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_protein_masterlist.csv\n Name: yeast_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_protein_xref_refseq.csv\n Name: yeast_proteoform_glycosylation_sites_glyconnect.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_proteoform_glycosylation_sites_glyconnect.csv\n Name: yeast_proteoform_glycosylation_sites_oglcnac_atlas.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_proteoform_glycosylation_sites_oglcnac_atlas.csv\n Name: yeast_proteoform_glycosylation_sites_oglcnac_mcw.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_proteoform_glycosylation_sites_oglcnac_mcw.csv\n Name: yeast_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_proteoform_glycosylation_sites_uniprotkb.csv\n Output Subdomain\n Name: protein_glygen_uniprotkb_xref_mapping.tsv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/protein_glygen_uniprotkb_xref_mapping.tsv\n Name: protein_glygen_uniprotkb_xref_mapping.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/protein_glygen_uniprotkb_xref_mapping.stat.csv\n\nFields\n Name: \"uniprotkb_primary_accession\"\n Description: \"\"\n Unique Values: \"23284\"\n Name: \"additional_info\"\n Description: \"\"\n Unique Values: \"1634\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/protein_glygen_uniprotkb_xref_mapping.tsv" }