{ "bcoid": "GLY_000404", "title": "Human UniProtKB Xref Pharos", "description": "The Human UniProtKB Xref Pharos dataset contains human [taxid:9606] UniProtKB canonical accessions cross-referenced ...", "filename": "human_protein_xref_pharos.csv", "filetype": "csv", "categories": { "species": "Homo sapiens", "molecule": "Protein", "tags": "Pharos cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P30613-1...", "protein_xref..." ], [ "P23919-1...", "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" } ], [ "P30613-1", "protein_xref_pharos", "P30613", "Pyruvate kinase PKLR" ], [ "P23919-1", "protein_xref_pharos", "P23919", "Thymidylate kinase" ], [ "Q8NHX4-1", "protein_xref_pharos", "Q8NHX4", "Spermatogenesis-associated protein 3" ], [ "Q8NHX9-1", "protein_xref_pharos", "Q8NHX9", "Two pore calcium channel protein 2" ], [ "H3BTG2-1", "protein_xref_pharos", "H3BTG2", "Testis-expressed protein 46" ], [ "Q9C0H2-1", "protein_xref_pharos", "Q9C0H2", "Protein tweety homolog 3" ], [ "Q9C0H5-1", "protein_xref_pharos", "Q9C0H5", "Rho GTPase-activating protein 39" ], [ "Q9C0H6-1", "protein_xref_pharos", "Q9C0H6", "Kelch-like protein 4" ], [ "Q9C0H9-5", "protein_xref_pharos", "Q9C0H9", "SRC kinase signaling inhibitor 1" ], [ "Q96J66-1", "protein_xref_pharos", "Q96J66", "ATP-binding cassette sub-family C member 11" ], [ "Q96J65-1", "protein_xref_pharos", "Q96J65", "Multidrug resistance-associated protein 9" ], [ "Q9NYS7-1", "protein_xref_pharos", "Q9NYS7", "WD repeat and SOCS box-containing protein 2" ], [ "P40424-1", "protein_xref_pharos", "P40424", "Pre-B-cell leukemia transcription factor 1" ], [ "P40425-1", "protein_xref_pharos", "P40425", "Pre-B-cell leukemia transcription factor 2" ], [ "P40426-1", "protein_xref_pharos", "P40426", "Pre-B-cell leukemia transcription factor 3" ], [ "P40429-1", "protein_xref_pharos", "P40429", "60S ribosomal protein L13a" ], [ "Q9H2I8-1", "protein_xref_pharos", "Q9H2I8", "Leucine-rich melanocyte differentiation-associated protein" ], [ "P03891-1", "protein_xref_pharos", "P03891", "NADH-ubiquinone oxidoreductase chain 2" ], [ "P03897-1", "protein_xref_pharos", "P03897", "NADH-ubiquinone oxidoreductase chain 3" ], [ "P02768-1", "protein_xref_pharos", "P02768", "Serum albumin" ], [ "P02760-1", "protein_xref_pharos", "P02760", "Protein AMBP" ], [ "P02763-1", "protein_xref_pharos", "P02763", "Alpha-1-acid glycoprotein 1" ], [ "P02765-1", "protein_xref_pharos", "P02765", "Alpha-2-HS-glycoprotein" ], [ "P82921-1", "protein_xref_pharos", "P82921", "28S ribosomal protein S21, mitochondrial" ], [ "P02766-1", "protein_xref_pharos", "P02766", "Transthyretin" ], [ "Q9P2J5-1", "protein_xref_pharos", "Q9P2J5", "Leucine--tRNA ligase, cytoplasmic" ], [ "H0YL14-1", "protein_xref_pharos", "H0YL14", "Transmembrane protein 250" ], [ "Q9P2J8-1", "protein_xref_pharos", "Q9P2J8", "Zinc finger protein 624" ], [ "O43399-1", "protein_xref_pharos", "O43399", "Tumor protein D54" ], [ "Q9BXR3-1", "protein_xref_pharos", "Q69384", "Endogenous retrovirus group K member 6 Env polyprotein" ], [ "Q9BXR3-1", "protein_xref_pharos", "Q69383", "Endogenous retrovirus group K member 6 Rec protein" ], [ "Q5VVP1-1", "protein_xref_pharos", "Q5VVP1", "Spermatogenesis-associated protein 31A6" ], [ "Q9BZG1-1", "protein_xref_pharos", "Q9BZG1", "Ras-related protein Rab-34" ], [ "Q9BZG2-1", "protein_xref_pharos", "Q9BZG2", "Testicular acid phosphatase" ], [ "Q9BZG8-1", "protein_xref_pharos", "Q9BZG8", "2-(3-amino-3-carboxypropyl)histidine synthase subunit 1" ], [ "Q6NUK4-1", "protein_xref_pharos", "Q6NUK4", "Receptor expression-enhancing protein 3" ], [ "P01236-1", "protein_xref_pharos", "P01236", "Prolactin" ], [ "Q8N865-1", "protein_xref_pharos", "Q8N865", "Uncharacterized protein C7orf31" ], [ "Q6NX49-1", "protein_xref_pharos", "Q6NX49", "Zinc finger protein 544" ], [ "P09001-1", "protein_xref_pharos", "P09001", "39S ribosomal protein L3, mitochondrial" ], [ "P53708-1", "protein_xref_pharos", "P53708", "Integrin alpha-8" ], [ "Q6NX45-1", "protein_xref_pharos", "Q6NX45", "Zinc finger protein 774" ], [ "Q9H963-1", "protein_xref_pharos", "Q9H963", "Putative zinc finger protein 702" ], [ "Q14568-1", "protein_xref_pharos", "Q14568", "Heat shock protein HSP 90-alpha A2" ], [ "Q9H967-1", "protein_xref_pharos", "Q9H967", "WD repeat-containing protein 76" ], [ "Q14563-1", "protein_xref_pharos", "Q14563", "Semaphorin-3A" ], [ "Q14562-1", "protein_xref_pharos", "Q14562", "ATP-dependent RNA helicase DHX8" ], [ "Q14566-1", "protein_xref_pharos", "Q14566", "DNA replication licensing factor MCM6" ], [ "Q14565-1", "protein_xref_pharos", "Q14565", "Meiotic recombination protein DMC1/LIM15 homolog" ], [ "A6NIR3-1", "protein_xref_pharos", "A6NIR3", "Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 5" ], [ "Q6ZMG9-1", "protein_xref_pharos", "Q6ZMG9", "Ceramide synthase 6" ], [ "Q86VY4-1", "protein_xref_pharos", "Q86VY4", "Testis-specific Y-encoded-like protein 5" ], [ "Q86VY9-1", "protein_xref_pharos", "Q86VY9", "Transmembrane protein 200A" ], [ "P19075-1", "protein_xref_pharos", "P19075", "Tetraspanin-8" ], [ "O60729-1", "protein_xref_pharos", "O60729", "Dual specificity protein phosphatase CDC14B" ], [ "A6NCL1-1", "protein_xref_pharos", "A6NCL1", "Geminin coiled-coil domain-containing protein 1" ], [ "Q8WUF8-1", "protein_xref_pharos", "Q8WUF8", "Protein FAM172A" ], [ "Q96BT1-1", "protein_xref_pharos", "Q96BT1", "Putative uncharacterized protein C3orf49" ], [ "Q8WUF5-1", "protein_xref_pharos", "Q8WUF5", "RelA-associated inhibitor" ], [ "Q96BT3-1", "protein_xref_pharos", "Q96BT3", "Centromere protein T" ], [ "Q96BT7-1", "protein_xref_pharos", "Q96BT7", "Alkylated DNA repair protein alkB homolog 8" ], [ "Q99519-1", "protein_xref_pharos", "Q99519", "Sialidase-1" ], [ "O15417-1", "protein_xref_pharos", "O15417", "Trinucleotide repeat-containing gene 18 protein" ], [ "Q96RU7-1", "protein_xref_pharos", "Q96RU7", "Tribbles homolog 3" ], [ "Q96RU3-1", "protein_xref_pharos", "Q96RU3", "Formin-binding protein 1" ], [ "Q96RU2-1", "protein_xref_pharos", "Q96RU2", "Ubiquitin carboxyl-terminal hydrolase 28" ], [ "Q96RU8-1", "protein_xref_pharos", "Q96RU8", "Tribbles homolog 1" ], [ "Q9ULV4-1", "protein_xref_pharos", "Q9ULV4", "Coronin-1C" ], [ "Q9Y5A7-1", "protein_xref_pharos", "Q9Y5A7", "NEDD8 ultimate buster 1" ], [ "Q9Y5A6-1", "protein_xref_pharos", "Q9Y5A6", "Zinc finger and SCAN domain-containing protein 21" ], [ "Q13643-1", "protein_xref_pharos", "Q13643", "Four and a half LIM domains protein 3" ], [ "Q13642-2", "protein_xref_pharos", "Q13642", "Four and a half LIM domains protein 1" ], [ "Q13641-1", "protein_xref_pharos", "Q13641", "Trophoblast glycoprotein" ], [ "Q9Y5A9-1", "protein_xref_pharos", "Q9Y5A9", "YTH domain-containing family protein 2" ], [ "Q02127-1", "protein_xref_pharos", "Q02127", "Dihydroorotate dehydrogenase (quinone), mitochondrial" ], [ "Q6ZRV3-1", "protein_xref_pharos", "Q6ZRV3", "Putative uncharacterized protein encoded by LINC00696" ], [ "Q6ZRV2-1", "protein_xref_pharos", "Q6ZRV2", "Protein FAM83H" ], [ "Q5T6X5-1", "protein_xref_pharos", "Q5T6X5", "G-protein coupled receptor family C group 6 member A" ], [ "A8MZ59-2", "protein_xref_pharos", "A8MZ59", "Leucine-twenty homeobox" ], [ "Q9Y3T6-1", "protein_xref_pharos", "Q9Y3T6", "R3H and coiled-coil domain-containing protein 1" ], [ "P16520-1", "protein_xref_pharos", "P16520", "Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-3" ], [ "Q8NCJ5-1", "protein_xref_pharos", "Q8NCJ5", "SPRY domain-containing protein 3" ], [ "Q9Y296-1", "protein_xref_pharos", "Q9Y296", "Trafficking protein particle complex subunit 4" ], [ "Q9Y297-1", "protein_xref_pharos", "Q9Y297", "F-box/WD repeat-containing protein 1A" ] ] }, "readme": "Name\n - Human UniProtKB Xref Pharos\n\nVersion\n - 1.10.6\n\nCreated on\n - 2020-03-20T14:14:17.733990\n\nModified on\n - 2020-04-03T23:11:14.573454\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu]\n\nAuthors\n - Tudor I Oprea [TOprea@salud.unm.edu], Paul Barrett [paul.barrett@nih.gov], Ajay Pillai [ajay.pillai3@nih.gov]\n\nChecksum\n - \n\nUsability Domain\n - The Human UniProtKB Xref Pharos dataset contains human [taxid:9606] UniProtKB canonical accessions cross-referenced to Pharos UniProtKB accessions. The data is from Pharos API based on TCRD version 5.4.0. If you use this dataset please provide proper attribution to Pharos and GlyGen\n - Pharos is the user interface to the Knowledge Management Center (KMC) for the Illuminating the Druggable Genome (IDG) program funded by the National Institutes.\n - The goal of KMC is to develop a comprehensive, integrated knowledge-base for the Druggable Genome (DG) to illuminate the uncharacterized and/or poorly annotated portion of the DG, focusing on three of the most commonly drug-targeted protein families: G-protein-coupled receptors (GPCRs), ion channels (ICs) and kinases\n - Nguyen, D.-T., Mathias, S. et al, Pharos: Collating Protein Information to Shed Light on the Druggable Genome , Nucl. Acids Res.i>, 2017, 45(D1), D995-D1002. DOI: 10.1093/nar/gkw1072\n - https://pharos.nih.gov/about\n\nDescription Domain\n Keywords\n - Pharos\n - Illuminating the Druggable Genome\n - drug-targeted protein families\n - G-protein-coupled receptors (GPCRs)\n - ion channels (ICs)\n - kinases\n\n Pipeline Steps\n - Step-1: The script extracts the UniProtKB accessions and protein name from the Pharos API and maps to the GlyGen's UniProtKB canonical accessions (masterlist) to generate a csv dataset. the accessions that are not mapped are logged in the log 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: human_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/human_protein_masterlist.csv\n Name: pharos_protein_all_9606.json\n URI: https://data.glygen.org/ln2wwwdata/source/pharos_protein_all_9606.json\n Output Subdomain\n Name: human_protein_xref_pharos.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_hgnc.csv\n Name: glygen_pharos_xref_mapping.log\n URI: http://data.glygen.org/ln2wwwdata/logs/glygen_pharos_xref_mapping.log\n Name: human_protein_xref_pharos.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_xref_pharos.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"123404\"", "downloadurl": "/ln2data/releases/data/v-1.10.6/reviewed/human_protein_xref_pharos.csv" }