{ "bcoid": "GLY_000258", "title": "Homolog Clusters", "description": "The Homolog Clusters dataset contains homologs of human [taxid: 9606], mouse [taxid:10090] and rat [taxid:10116] ...", "filename": "protein_homolog_clusters.csv", "filetype": "csv", "categories": { "molecule": "Protein", "tags": "Homologs", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "35234...", "Q8BFQ8-1..." ], [ "35234...", "Q8NB37-1..." ] ], "headers": [ "homolog_clus...", "uniprotkb_ca..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "homolog_cluster_id" }, { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "tax_id" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" } ], [ "35234", "Q8BFQ8-1", "10090", "protein_xref_mgi_homologset", "35234" ], [ "35234", "Q8NB37-1", "9606", "protein_xref_mgi_homologset", "35234" ], [ "35234", "D3ZVI9-1", "10116", "protein_xref_mgi_homologset", "35234" ], [ "110555", "Q7TR16-1", "10090", "protein_xref_mgi_homologset", "110555" ], [ "110555", "A0A0G2K1C2-1", "10116", "protein_xref_mgi_homologset", "110555" ], [ "110555", "D3ZW68-1", "10116", "protein_xref_mgi_homologset", "110555" ], [ "110555", "A0A0G2K6E1-1", "10116", "protein_xref_mgi_homologset", "110555" ], [ "110550", "Q7TQZ0-1", "10090", "protein_xref_mgi_homologset", "110550" ], [ "110550", "Q8NGF8-1", "9606", "protein_xref_mgi_homologset", "110550" ], [ "110550", "A0A0G2JZJ2-1", "10116", "protein_xref_mgi_homologset", "110550" ], [ "73393", "B9EJV3-1", "10090", "protein_xref_mgi_homologset", "73393" ], [ "73393", "Q9C091-1", "9606", "protein_xref_mgi_homologset", "73393" ], [ "73463", "A7L9Z8-1", "10090", "protein_xref_mgi_homologset", "73463" ], [ "73463", "O75185-1", "9606", "protein_xref_mgi_homologset", "73463" ], [ "73463", "Q8R4C1-1", "10116", "protein_xref_mgi_homologset", "73463" ], [ "35542", "E9QAE1-1", "10090", "protein_xref_mgi_homologset", "35542" ], [ "35542", "O14513-1", "9606", "protein_xref_mgi_homologset", "35542" ], [ "35238", "Q8C4S8-1", "10090", "protein_xref_mgi_homologset", "35238" ], [ "35238", "Q9ULE3-1", "9606", "protein_xref_mgi_homologset", "35238" ], [ "35238", "D3ZLQ1-1", "10116", "protein_xref_mgi_homologset", "35238" ], [ "35239", "Q8CCH2-1", "10090", "protein_xref_mgi_homologset", "35239" ], [ "35239", "Q5JS37-1", "9606", "protein_xref_mgi_homologset", "35239" ], [ "11542", "Q99P68-1", "10090", "protein_xref_mgi_homologset", "11542" ], [ "11542", "Q9BQB4-1", "9606", "protein_xref_mgi_homologset", "11542" ], [ "11542", "Q99P67-1", "10116", "protein_xref_mgi_homologset", "11542" ], [ "32238", "Q8K2H6-1", "10090", "protein_xref_mgi_homologset", "32238" ], [ "32238", "Q9UM13-1", "9606", "protein_xref_mgi_homologset", "32238" ], [ "32238", "B5DEP3-1", "10116", "protein_xref_mgi_homologset", "32238" ], [ "11546", "Q99LQ4-1", "10090", "protein_xref_mgi_homologset", "11546" ], [ "11546", "Q8N300-1", "9606", "protein_xref_mgi_homologset", "11546" ], [ "11546", "Q4KLG3-1", "10116", "protein_xref_mgi_homologset", "11546" ], [ "11875", "Q925I7-1", "10090", "protein_xref_mgi_homologset", "11875" ], [ "11875", "Q9GZP0-1", "9606", "protein_xref_mgi_homologset", "11875" ], [ "11875", "Q9EQT1-1", "10116", "protein_xref_mgi_homologset", "11875" ], [ "11544", "Q9D666-1", "10090", "protein_xref_mgi_homologset", "11544" ], [ "11544", "O94901-8", "9606", "protein_xref_mgi_homologset", "11544" ], [ "11544", "A0A0G2K016-1", "10116", "protein_xref_mgi_homologset", "11544" ], [ "11545", "Q8R4U7-1", "10090", "protein_xref_mgi_homologset", "11545" ], [ "11545", "Q86V48-1", "9606", "protein_xref_mgi_homologset", "11545" ], [ "11545", "Q9ESV1-1", "10116", "protein_xref_mgi_homologset", "11545" ], [ "131539", "A0A140LHH9-1", "10090", "protein_xref_mgi_homologset", "131539" ], [ "131539", "F1LYQ6-1", "10116", "protein_xref_mgi_homologset", "131539" ], [ "11548", "Q9ERR8-1", "10090", "protein_xref_mgi_homologset", "11548" ], [ "11548", "Q9P2F9-1", "9606", "protein_xref_mgi_homologset", "11548" ], [ "11548", "D4AEC6-1", "10116", "protein_xref_mgi_homologset", "11548" ], [ "103894", "P62257-1", "10090", "protein_xref_mgi_homologset", "103894" ], [ "103894", "P62256-1", "9606", "protein_xref_mgi_homologset", "103894" ], [ "73902", "Q99N19-1", "10090", "protein_xref_mgi_homologset", "73902" ], [ "73902", "Q08477-1", "9606", "protein_xref_mgi_homologset", "73902" ], [ "73902", "P51871-1", "10116", "protein_xref_mgi_homologset", "73902" ], [ "5982", "Q9DAM5-1", "10090", "protein_xref_mgi_homologset", "5982" ], [ "5982", "Q9HC21-1", "9606", "protein_xref_mgi_homologset", "5982" ], [ "5982", "Q6AYL0-1", "10116", "protein_xref_mgi_homologset", "5982" ], [ "19396", "Q80T54-1", "10090", "protein_xref_mgi_homologset", "19396" ], [ "19396", "D3ZQ49-1", "10116", "protein_xref_mgi_homologset", "19396" ], [ "5980", "Q8CCF0-1", "10090", "protein_xref_mgi_homologset", "5980" ], [ "5980", "Q8WWY3-1", "9606", "protein_xref_mgi_homologset", "5980" ], [ "5980", "D3ZI68-1", "10116", "protein_xref_mgi_homologset", "5980" ], [ "5981", "Q9CRA8-1", "10090", "protein_xref_mgi_homologset", "5981" ], [ "5981", "Q9NQT4-1", "9606", "protein_xref_mgi_homologset", "5981" ], [ "5981", "F1LSX7-1", "10116", "protein_xref_mgi_homologset", "5981" ], [ "5984", "Q9EQ61-1", "10090", "protein_xref_mgi_homologset", "5984" ], [ "5984", "O00541-1", "9606", "protein_xref_mgi_homologset", "5984" ], [ "5984", "Q3B8N8-1", "10116", "protein_xref_mgi_homologset", "5984" ], [ "19390", "Q5GH64-1", "10090", "protein_xref_mgi_homologset", "19390" ], [ "19390", "Q5GH72-1", "9606", "protein_xref_mgi_homologset", "19390" ], [ "19390", "Q5GH56-1", "10116", "protein_xref_mgi_homologset", "19390" ], [ "134867", "P58252-1", "10090", "protein_xref_mgi_homologset", "134867" ], [ "134867", "P13639-1", "9606", "protein_xref_mgi_homologset", "134867" ], [ "134867", "P05197-1", "10116", "protein_xref_mgi_homologset", "134867" ], [ "55616", "P18242-1", "10090", "protein_xref_mgi_homologset", "55616" ], [ "55616", "P07339-1", "9606", "protein_xref_mgi_homologset", "55616" ], [ "55616", "P24268-1", "10116", "protein_xref_mgi_homologset", "55616" ], [ "123852", "Q9CZA5-1", "10090", "protein_xref_mgi_homologset", "123852" ], [ "123852", "Q6PEW1-1", "9606", "protein_xref_mgi_homologset", "123852" ], [ "123852", "Q5HZA3-1", "10116", "protein_xref_mgi_homologset", "123852" ], [ "32484", "Q8VHR5-1", "10090", "protein_xref_mgi_homologset", "32484" ], [ "32484", "Q8WXI9-1", "9606", "protein_xref_mgi_homologset", "32484" ], [ "32484", "Q4V8E1-1", "10116", "protein_xref_mgi_homologset", "32484" ], [ "32507", "Q99MZ3-1", "10090", "protein_xref_mgi_homologset", "32507" ], [ "32507", "Q9NP71-1", "9606", "protein_xref_mgi_homologset", "32507" ], [ "32507", "Q8VIP2-1", "10116", "protein_xref_mgi_homologset", "32507" ], [ "82192", "Q8BVK9-1", "10090", "protein_xref_mgi_homologset", "82192" ], [ "82192", "Q9HB58-1", "9606", "protein_xref_mgi_homologset", "82192" ] ] }, "readme": "Name\n - Homolog Clusters\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-09-06T14:06:38.985197\n\nModified on\n - 2022-01-19T13:37:05.369499\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@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 - Not Applicable []\n\nChecksum\n - \n\nUsability Domain\n - The Homolog Clusters dataset contains homologs of human [taxid: 9606], mouse [taxid:10090] and rat [taxid:10116] species mapped to UniProtKB canonical accessions. The homologs data is downloaded from OMA browser and MGI. If you use this dataset please provide proper attribution to MGI, OMA Browser and GlyGen. \n\nDescription Domain\n Keywords\n - homologs\n - orthologs\n - MGI\n - OMA\n\n Pipeline Steps\n - Step-1: The script extracts the human, mouse and rat homologs from the input files and using xref files, maps the identifiers to UniProtKB canonical accessions. \n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/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: mouse_human_orthologs_oma_release-24_061319_03-45pm.csv\n URI: https://data.glygen.org//ln2downloads/oma/2019_06/mouse_human_orthologs_oma_release-24_061319_03-45pm.csv\n Name: human_protein_xref_hgnc.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/human_protein_xref_hgnc.csv\n Name: mgi_homologs.csv\n URI: https://data.glygen.org//ln2downloads/mgi/2020_12/mgi_homologs.csv\n Name: mouse_protein_xref_geneid.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/mouse_protein_xref_geneid.csv\n Name: human_protein_xref_geneid.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/human_protein_xref_geneid.csv\n Name: rat_protein_xref_geneid.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/rat_protein_xref_geneid.csv\n Name: human_protein_xref_oma.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/human_protein_xref_oma.csv\n Name: mouse_protein_xref_oma.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/mouse_protein_xref_oma.csv\n Name: mgi_orthologs_hom_allorganism_release6.14_060419_12-33pm.csv\n URI: https://data.glygen.org//ln2downloads/mgi/2019_06/mgi_orthologs_hom_allorganism_release6.14_060419_12-33pm.csv\n Name: rat_human_orthologs_oma_release-24_061319_12-24pm.csv\n URI: https://data.glygen.org//ln2downloads/oma/2019_06/rat_human_orthologs_oma_release-24_061319_12-24pm.csv\n Name: rat_protein_xref_oma.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/rat_protein_xref_oma.csv\n Name: mouse_protein_xref_mgi.csv\n URI: https://data.glygen.org//ln2releases/data/v-1.11.2/reviewed/mouse_protein_xref_mgi.csv\n Output Subdomain\n Name: protein_homolog_clusters.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/protein_homolog_clusters.csv\n Name: protein_homolog_clusters.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/protein_homolog_clusters.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/protein_homolog_clusters.csv" }