{ "bcoid": "GLY_000336", "title": "Mouse Xref GlycoProtDB", "description": "The Mouse (TaxID:10090) Xref GlycoProtDB contains x-refs to IDs present in the GlycoProtDB database ...", "filename": "mouse_protein_xref_glycoprotdb.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "GlycoProtDB cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8BH24-1...", "protein_xref..." ], [ "Q8BH27-1...", "protein_xref..." ] ], "headers": [ "uniprotkb_ca...", "xref_key..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "xref_label" } ], [ "Q8BH24-1", "protein_xref_glycoprotdb", "GPDB0006196", "Transmembrane 9 superfamily member 4" ], [ "Q8BH27-1", "protein_xref_glycoprotdb", "GPDB0006197", "Multiple epidermal growth factor-like domains protein 9" ], [ "P70412-1", "protein_xref_glycoprotdb", "GPDB0003775", "CUB and zona pellucida-like domain-containing protein 1" ], [ "P70419-1", "protein_xref_glycoprotdb", "GPDB0003776", "Polypeptide N-acetylgalactosaminyltransferase 3" ], [ "Q9EP78-1", "protein_xref_glycoprotdb", "GPDB0007489", "Carbohydrate sulfotransferase 7" ], [ "Q9EP73-1", "protein_xref_glycoprotdb", "GPDB0007488", "Programmed cell death 1 ligand 1" ], [ "G5E8Q8-1", "protein_xref_glycoprotdb", "GPDB0002934", "Adhesion G protein-coupled receptor F5" ], [ "P50429-1", "protein_xref_glycoprotdb", "GPDB0003660", "Arylsulfatase B" ], [ "P50429-1", "protein_xref_glycoprotdb", "GPDB0003661", "Isoform 2 of Arylsulfatase B" ], [ "Q8BTJ4-1", "protein_xref_glycoprotdb", "GPDB0006382", "Bis(5'-adenosyl)-triphosphatase enpp4" ], [ "Q8BTJ4-1", "protein_xref_glycoprotdb", "GPDB0006383", "Isoform 2 of Bis(5'-adenosyl)-triphosphatase enpp4" ], [ "P21661-1", "protein_xref_glycoprotdb", "GPDB0003478", "Neuroendocrine convertase 2" ], [ "Q8CB67-1", "protein_xref_glycoprotdb", "GPDB0006599", "Low-density lipoprotein receptor-related protein 11" ], [ "Q3TNL8-1", "protein_xref_glycoprotdb", "GPDB0004304", "Inositol 1,4,5-trisphosphate receptor-interacting protein" ], [ "Q3TNL8-1", "protein_xref_glycoprotdb", "GPDB0004305", "Isoform 2 of Inositol 1,4,5-trisphosphate receptor-interacting protein" ], [ "Q99J85-1", "protein_xref_glycoprotdb", "GPDB0002439", "Neuronal pentraxin receptor" ], [ "Q8BR76-1", "protein_xref_glycoprotdb", "GPDB0002283", "Meckelin (Fragment)" ], [ "P06909-1", "protein_xref_glycoprotdb", "GPDB0002282", "Complement factor H" ], [ "Q9D306-1", "protein_xref_glycoprotdb", "GPDB0002165", "Alpha-1,3-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase C (Fragment)" ], [ "Q9WUZ9-1", "protein_xref_glycoprotdb", "GPDB0007798", "Ectonucleoside triphosphate diphosphohydrolase 5" ], [ "Q8BTH8-1", "protein_xref_glycoprotdb", "GPDB0001463", "Casein kinase I isoform gamma-1 (Fragment)" ], [ "Q9ESN3-1", "protein_xref_glycoprotdb", "GPDB0007533", "Transmembrane protein 8A" ], [ "Q9ESN3-1", "protein_xref_glycoprotdb", "GPDB0007534", "Isoform Beta of Transmembrane protein 8A" ], [ "O88307-1", "protein_xref_glycoprotdb", "GPDB0003201", "Sortilin-related receptor" ], [ "O70362-1", "protein_xref_glycoprotdb", "GPDB0006967", "Glycosylphosphatidylinositol specific phospholipase D1" ], [ "Q8VCU1-1", "protein_xref_glycoprotdb", "GPDB0006965", "Carboxylesterase 3B" ], [ "Q8VCU1-1", "protein_xref_glycoprotdb", "GPDB0006966", "Isoform 2 of Carboxylesterase 3B" ], [ "Q67BT3-1", "protein_xref_glycoprotdb", "GPDB0005671", "Solute carrier family 13 member 5" ], [ "F8VPK8-1", "protein_xref_glycoprotdb", "GPDB0001208", "Protein Pcdh9 (Fragment)" ], [ "P27467-1", "protein_xref_glycoprotdb", "GPDB0003528", "Protein Wnt-3a" ], [ "Q8VEK0-1", "protein_xref_glycoprotdb", "GPDB0006987", "Cell cycle control protein 50A" ], [ "P21803-1", "protein_xref_glycoprotdb", "GPDB0002551", "Fibroblast growth factor receptor 2 (Fragment)" ], [ "Q3UHK1-1", "protein_xref_glycoprotdb", "GPDB0004791", "Proton myo-inositol cotransporter" ], [ "Q61614-1", "protein_xref_glycoprotdb", "GPDB0005507", "Endothelin-1 receptor" ], [ "P43006-1", "protein_xref_glycoprotdb", "GPDB0003624", "Excitatory amino acid transporter 2" ], [ "P43006-1", "protein_xref_glycoprotdb", "GPDB0003625", "Isoform Glt-1A of Excitatory amino acid transporter 2" ], [ "P43006-1", "protein_xref_glycoprotdb", "GPDB0003626", "Isoform Glt-1B of Excitatory amino acid transporter 2" ], [ "P16294-1", "protein_xref_glycoprotdb", "GPDB0003428", "Coagulation factor IX" ], [ "Q80V53-1", "protein_xref_glycoprotdb", "GPDB0001712", "Carbohydrate sulfotransferase 14" ], [ "J3QNS5-1", "protein_xref_glycoprotdb", "GPDB0002999", "Protein Mfsd4b4" ], [ "P14427-1", "protein_xref_glycoprotdb", "GPDB0003385", "H-2 class I histocompatibility antigen, D-K alpha chain" ], [ "P14429-1", "protein_xref_glycoprotdb", "GPDB0003387", "H-2 class I histocompatibility antigen, Q7 alpha chain" ], [ "P01901-1", "protein_xref_glycoprotdb", "GPDB0003386", "H-2 class I histocompatibility antigen, K-Q alpha chain (Fragment)" ], [ "Q8BMD6-1", "protein_xref_glycoprotdb", "GPDB0006292", "Transmembrane protein 260" ], [ "Q8BMD6-1", "protein_xref_glycoprotdb", "GPDB0006293", "Isoform 2 of Transmembrane protein 260" ], [ "Q9R0M4-1", "protein_xref_glycoprotdb", "GPDB0007711", "Podocalyxin" ], [ "Q9R0M0-1", "protein_xref_glycoprotdb", "GPDB0007709", "Cadherin EGF LAG seven-pass G-type receptor 2" ], [ "Q9R0M0-1", "protein_xref_glycoprotdb", "GPDB0007710", "Isoform 2 of Cadherin EGF LAG seven-pass G-type receptor 2" ], [ "Q91ZV7-1", "protein_xref_glycoprotdb", "GPDB0001603", "Plexin domain-containing protein 1" ], [ "Q8BLK3-1", "protein_xref_glycoprotdb", "GPDB0001130", "Limbic system-associated membrane protein" ], [ "Q8R2S8-1", "protein_xref_glycoprotdb", "GPDB0006862", "CD177 antigen" ], [ "P22437-1", "protein_xref_glycoprotdb", "GPDB0003487", "Prostaglandin G/H synthase 1" ], [ "O35451-1", "protein_xref_glycoprotdb", "GPDB0003110", "Cyclic AMP-dependent transcription factor ATF-6 beta" ], [ "Q9EPK8-1", "protein_xref_glycoprotdb", "GPDB0007493", "Transient receptor potential cation channel subfamily V member 4" ], [ "Q9EPK6-1", "protein_xref_glycoprotdb", "GPDB0007492", "Nucleotide exchange factor SIL1" ], [ "Q9JLF7-1", "protein_xref_glycoprotdb", "GPDB0007609", "Toll-like receptor 5" ], [ "P01867-1", "protein_xref_glycoprotdb", "GPDB0003255", "Ig gamma-2B chain C region" ], [ "P01867-1", "protein_xref_glycoprotdb", "GPDB0003256", "Isoform 2 of Ig gamma-2B chain C region" ], [ "O55026-1", "protein_xref_glycoprotdb", "GPDB0003161", "Isoform Short of Ectonucleoside triphosphate diphosphohydrolase 2" ], [ "O55026-1", "protein_xref_glycoprotdb", "GPDB0003160", "Ectonucleoside triphosphate diphosphohydrolase 2" ], [ "O54998-1", "protein_xref_glycoprotdb", "GPDB0003157", "Peptidyl-prolyl cis-trans isomerase FKBP7" ], [ "O54990-1", "protein_xref_glycoprotdb", "GPDB0003150", "Prominin-1" ], [ "O54990-1", "protein_xref_glycoprotdb", "GPDB0003151", "Isoform 2 of Prominin-1" ], [ "O54990-1", "protein_xref_glycoprotdb", "GPDB0003152", "Isoform 3 of Prominin-1" ], [ "O54990-1", "protein_xref_glycoprotdb", "GPDB0003153", "Isoform 4 of Prominin-1" ], [ "O54990-1", "protein_xref_glycoprotdb", "GPDB0003154", "Isoform 5 of Prominin-1" ], [ "O54990-1", "protein_xref_glycoprotdb", "GPDB0003155", "Isoform 6 of Prominin-1" ], [ "O54991-1", "protein_xref_glycoprotdb", "GPDB0003156", "Contactin-associated protein 1" ], [ "E9PVB5-1", "protein_xref_glycoprotdb", "GPDB0001645", "Tetratricopeptide repeat protein 17" ], [ "P63056-1", "protein_xref_glycoprotdb", "GPDB0003740", "Noelin-3" ], [ "P63056-1", "protein_xref_glycoprotdb", "GPDB0003741", "Isoform 2 of Noelin-3" ], [ "Q6S9I3-1", "protein_xref_glycoprotdb", "GPDB0005868", "Kng2 protein" ], [ "Q6S9I3-1", "protein_xref_glycoprotdb", "GPDB0005869", "HMW-kininogen-II variant" ], [ "Q6S9I3-1", "protein_xref_glycoprotdb", "GPDB0005870", "HMW kininogen-II" ], [ "Q7TQH7-1", "protein_xref_glycoprotdb", "GPDB0006005", "Low-density lipoprotein receptor-related protein 10" ], [ "Q80TR1-1", "protein_xref_glycoprotdb", "GPDB0002974", "Adhesion G protein-coupled receptor L1" ], [ "P11627-1", "protein_xref_glycoprotdb", "GPDB0003354", "Neural cell adhesion molecule L1" ], [ "Q91Y57-1", "protein_xref_glycoprotdb", "GPDB0007102", "Sialic acid-binding Ig-like lectin 12" ], [ "Q8BPX9-1", "protein_xref_glycoprotdb", "GPDB0006335", "Solute carrier family 15 member 3" ], [ "Q9D3A9-1", "protein_xref_glycoprotdb", "GPDB0001459", "Protein tweety homolog" ], [ "Q9Z1M0-1", "protein_xref_glycoprotdb", "GPDB0005782", "P2X purinoceptor 7" ], [ "P04186-1", "protein_xref_glycoprotdb", "GPDB0002743", "Complement factor B" ], [ "Q64302-1", "protein_xref_glycoprotdb", "GPDB0005628", "Transmembrane 4 L6 family member 1" ], [ "Q9JL06-1", "protein_xref_glycoprotdb", "GPDB0007595", "Lysophosphatidic acid receptor 2" ] ] }, "readme": "Name\n - Mouse Xref GlycoProtDB\n\nVersion\n - 1.11.2\n\nCreated on\n - 2020-02-10T14:47:12.024589\n\nModified on\n - 2020-04-09T18:03:03.346761\n\nCreated by\n - Rahi Navelkar [rsn13@gwu.edu], Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@email.gwu.edu]\n\nAuthors\n - Kiyoko F. Aoki-Kinoshita [kkiyoko@soka.ac.jp]\n\nChecksum\n - \n\nUsability Domain\n - The Mouse (TaxID:10090) Xref GlycoProtDB contains x-refs to IDs present in the GlycoProtDB database (https://acgg.asia/gpdb2/index). If you use this dataset please provide proper attribution to GlycoProtDB and GlyGen. \n\nDescription Domain\n Keywords\n - GlycoProtDB\n - cross-reference\n\n Pipeline Steps\n - Step-1: The input file was received directly from the author (Kiyoko F. Aoki-Kinoshita). all the accessions from the input file were checked in the UniProtKB through ID mapping tool. It was found that all the UniProtKB accessions belonged to the Mouse [TaxID:10090] species. The QC checks mapped the UniProtKB accessions to UniProtKB canonical accessions. Any GlycoProtDB ID which was mapped to a protein outside GlyGen protein master list was excluded from the output file.\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-protein-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: protein_xref_glycoprotdb.csv\n URI: https:/data.glygen.org/ln2downloads/glycoprotdb/protein_xref_glycoprotdb.csv\n Output Subdomain\n Name: mouse_protein_xref_glycoprotdb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-1.12.3/reviewed/mouse_protein_xref_glycoprotdb.csv\n Name: mouse_protein_xref_glycoprotdb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-1.12.3/reviewed/mouse_protein_xref_glycoprotdb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"1921\"\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: \"4241\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"3191\"", "downloadurl": "/ln2data/releases/data/v-1.12.3/reviewed/mouse_protein_xref_glycoprotdb.csv" }