{ "bcoid": "GLY_000081", "title": "Human Gene Locus (Ensembl)", "description": "The Human Gene Locus (Ensembl) contains human [taxid:9606] UniProtKB canonical accessions mapped to the ...", "filename": "human_protein_genelocus.csv", "filetype": "csv", "categories": { "species": [ "Homo sapiens" ], "molecule": [ "Protein" ], "tag": [ "Gene Coordinates" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q658T7-1...", "FAM90A2P..." ], [ "P30613-1...", "PKLR..." ] ], "headers": [ "uniprotkb_ca...", "gene_symbol..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "gene_symbol" }, { "type": "string", "label": "ensembl_gene_id" }, { "type": "string", "label": "chromosome_id" }, { "type": "string", "label": "start_pos" }, { "type": "string", "label": "end_pos" }, { "type": "string", "label": "strand" } ], [ "Q658T7-1", "FAM90A2P", "ENSG00000205879", "8", "12172761", "12175771", "0" ], [ "P30613-1", "PKLR", "ENSG00000143627", "1", "155289293", "155301438", "0" ], [ "Q5MIZ7-1", "PPP4R3B", "ENSG00000275052", "2", "55547292", "55618880", "0" ], [ "P51788-1", "CLCN2", "ENSG00000114859", "3", "184346185", "184361651", "0" ], [ "P23919-1", "DTYMK", "ENSG00000168393", "2", "241675742", "241686991", "0" ], [ "Q8NHX4-1", "SPATA3", "ENSG00000173699", "2", "230990324", "231025055", "1" ], [ "Q8NHX9-1", "TPCN2", "ENSG00000162341", "11", "69048897", "69162440", "1" ], [ "Q9NXR8-1", "ING3", "ENSG00000071243", "7", "120950749", "120977216", "1" ], [ "Q9C0H5-1", "ARHGAP39", "ENSG00000147799", "8", "144529179", "144605816", "0" ], [ "Q9C0H9-5", "SRCIN1", "ENSG00000277363", "17", "38530016", "38605930", "0" ], [ "Q9NXR1-2", "NDE1", "ENSG00000072864", "16", "15643267", "15726353", "1" ], [ "Q07960-1", "ARHGAP1", "ENSG00000175220", "11", "46677080", "46700615", "0" ], [ "Q9NXR5-1", "ANKRD10", "ENSG00000088448", "13", "110878540", "110915069", "0" ], [ "Q9NXR7-2", "BABAM2", "ENSG00000158019", "2", "27889941", "28338901", "1" ], [ "Q96J66-1", "ABCC11", "ENSG00000121270", "16", "48166910", "48247568", "0" ], [ "P40424-1", "PBX1", "ENSG00000185630", "1", "164555584", "164899296", "1" ], [ "P40425-1", "PBX2", "ENSG00000204304", "6", "32184741", "32190186", "0" ], [ "P40426-1", "PBX3", "ENSG00000167081", "9", "125747345", "125967377", "1" ], [ "Q9H2I8-1", "LRMDA", "ENSG00000148655", "10", "75431453", "76560167", "1" ], [ "P08842-1", "STS", "ENSG00000101846", "X", "7219456", "7354810", "1" ], [ "P03891-1", "MT-ND2", "ENSG00000198763", "MT", "4470", "5511", "1" ], [ "P03897-1", "MT-ND3", "ENSG00000198840", "MT", "10059", "10404", "1" ], [ "P02768-1", "ALB", "ENSG00000163631", "4", "73397114", "73421412", "1" ], [ "P02760-1", "AMBP", "ENSG00000106927", "9", "114060127", "114078472", "0" ], [ "P02763-1", "ORM1", "ENSG00000229314", "9", "114323056", "114326475", "1" ], [ "P02765-1", "AHSG", "ENSG00000145192", "3", "186612923", "186621318", "1" ], [ "P02766-1", "TTR", "ENSG00000118271", "18", "31557010", "31599021", "1" ], [ "Q9P2J3-1", "KLHL9", "ENSG00000198642", "9", "21329671", "21335380", "0" ], [ "P39023-1", "RPL3", "ENSG00000100316", "22", "39312882", "39320389", "0" ], [ "H0YL14-1", "TMEM250", "ENSG00000238227", "9", "136114581", "136118863", "0" ], [ "O43399-1", "TPD52L2", "ENSG00000101150", "20", "63865228", "63891545", "1" ], [ "Q9P219-1", "CCDC88C", "ENSG00000015133", "14", "91271323", "91417844", "0" ], [ "Q9P218-1", "COL20A1", "ENSG00000101203", "20", "63293186", "63334851", "1" ], [ "Q9P215-1", "POGK", "ENSG00000143157", "1", "166839447", "166856344", "1" ], [ "Q9P217-1", "ZSWIM5", "ENSG00000162415", "1", "45016399", "45306209", "0" ], [ "Q9P212-1", "PLCE1", "ENSG00000138193", "10", "94030812", "94332823", "1" ], [ "Q9H3M7-1", "TXNIP", "ENSG00000265972", "1", "145992435", "145996600", "0" ], [ "Q9H3M0-1", "KCNF1", "ENSG00000162975", "2", "10911937", "10914225", "1" ], [ "Q5VVP1-1", "SPATA31A6", "ENSG00000185775", "9", "42183659", "42189882", "1" ], [ "O60603-1", "TLR2", "ENSG00000137462", "4", "153684070", "153705702", "1" ], [ "Q9BZG2-1", "ACP4", "ENSG00000142513", "19", "50790415", "50795224", "1" ], [ "Q9BZG8-4", "DPH1", "ENSG00000108963", "17", "2030110", "2043430", "1" ], [ "P01236-1", "PRL", "ENSG00000172179", "6", "22287244", "22297501", "0" ], [ "Q92598-1", "HSPH1", "ENSG00000120694", "13", "31134974", "31162388", "0" ], [ "Q8N865-1", "C7orf31", "ENSG00000153790", "7", "25134697", "25180356", "0" ], [ "Q15573-1", "TAF1A", "ENSG00000143498", "1", "222557902", "222589933", "0" ], [ "A6NCC3-2", "GOLGA8O", "ENSG00000206127", "15", "32445106", "32455634", "0" ], [ "Q15572-1", "TAF1C", "ENSG00000103168", "16", "84177847", "84187070", "0" ], [ "Q6NX49-1", "ZNF544", "ENSG00000198131", "19", "58228594", "58277495", "1" ], [ "P09001-1", "MRPL3", "ENSG00000114686", "3", "131462212", "131502983", "0" ], [ "P04035-1", "HMGCR", "ENSG00000113161", "5", "75336329", "75362104", "1" ], [ "Q6NX45-1", "ZNF774", "ENSG00000196391", "15", "90352245", "90369146", "1" ], [ "Q9H963-1", "ZNF702P", "ENSG00000242779", "19", "52968251", "53037898", "0" ], [ "Q14568-1", "HSP90AA2P", "ENSG00000224411", "11", "27888838", "27891033", "0" ], [ "Q9H967-1", "WDR76", "ENSG00000092470", "15", "43826963", "43868419", "1" ], [ "Q14563-1", "SEMA3A", "ENSG00000075213", "7", "83955777", "84492724", "0" ], [ "Q14562-1", "DHX8", "ENSG00000067596", "17", "43483865", "43610338", "1" ], [ "Q5JX71-1", "FAM209A", "ENSG00000124103", "20", "56517187", "56526142", "1" ], [ "Q14566-1", "MCM6", "ENSG00000076003", "2", "135839626", "135876426", "0" ], [ "Q9NRH1-1", "YAE1", "ENSG00000241127", "7", "39566376", "39610320", "1" ], [ "Q9NRH2-1", "SNRK", "ENSG00000163788", "3", "43286512", "43424764", "1" ], [ "Q9NRH3-1", "TUBG2", "ENSG00000037042", "17", "42659305", "42667006", "1" ], [ "A6NIR3-1", "AGAP5", "ENSG00000172650", "10", "73674285", "73698159", "0" ], [ "Q6ZMG9-1", "CERS6", "ENSG00000172292", "2", "168455862", "168775137", "1" ], [ "Q96T91-1", "GPHA2", "ENSG00000149735", "11", "64934471", "64935888", "0" ], [ "Q92527-1", "ANKRD7", "ENSG00000106013", "7", "118214669", "118496171", "1" ], [ "Q92526-1", "CCT6B", "ENSG00000132141", "17", "34927859", "34981078", "0" ], [ "Q92521-1", "PIGB", "ENSG00000069943", "15", "55318960", "55355648", "1" ], [ "Q92520-1", "FAM3C", "ENSG00000196937", "7", "121348851", "121396364", "0" ], [ "Q92523-1", "CPT1B", "ENSG00000205560", "22", "50568861", "50578465", "0" ], [ "Q9P2U8-1", "SLC17A6", "ENSG00000091664", "11", "22338097", "22379503", "1" ], [ "Q92529-1", "SHC3", "ENSG00000148082", "9", "89005771", "89178767", "0" ], [ "Q86VY9-1", "TMEM200A", "ENSG00000164484", "6", "130365734", "130443063", "1" ], [ "Q9Y5S8-1", "NOX1", "ENSG00000007952", "X", "100843324", "100874345", "0" ], [ "Q02878-1", "RPL6", "ENSG00000089009", "12", "112405190", "112418838", "0" ], [ "Q96HA1-1", "POM121", "ENSG00000196313", "7", "72879365", "72951440", "1" ], [ "Q96HA9-1", "PEX11G", "ENSG00000104883", "19", "7476875", "7497449", "0" ], [ "Q9C0H2-1", "TTYH3", "ENSG00000136295", "7", "2631951", "2664802", "1" ], [ "Q8IXU6-1", "SLC35F2", "ENSG00000110660", "11", "107790991", "107928293", "0" ], [ "Q9C0H6-1", "KLHL4", "ENSG00000102271", "X", "87517749", "87670050", "1" ], [ "Q00535-1", "CDK5", "ENSG00000164885", "7", "151053812", "151058530", "0" ], [ "P43363-1", "MAGEA10", "ENSG00000124260", "X", "152133310", "152138578", "0" ], [ "Q9Y3X0-1", "CCDC9", "ENSG00000105321", "19", "47255980", "47273701", "1" ], [ "Q15768-1", "EFNB3", "ENSG00000108947", "17", "7705202", "7711378", "1" ] ] }, "readme": "Name\n - Human Gene Locus (Ensembl)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2019-01-23T17:21:05.950210\n\nModified on\n - 2022-09-26T08:48:18.840078\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 - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Human Gene Locus (Ensembl) contains human [taxid:9606] UniProtKB canonical accessions mapped to the corresponding ensembl Gene ID, chromosome ID along with the gene's start and end position on the chromosome. The dataset is derived from 2019-09 UniProt release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - gene coordinates\n - chromosome\n - start position\n - end position\n - Ensembl\n - strand\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are mapped to ENSEMBL Gene identifiers from the triplestore containing triples from nt file and extracts the data as a csv dataset\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/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/ln2releases/data/v-2.2.1/reviewed/human_protein_masterlist.csv\n Name: uniprot-proteome-homo-sapiens.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2023_10_30/uniprot-proteome-homo-sapiens.nt\n Output Subdomain\n Name: human_protein_genelocus.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_protein_genelocus.csv\n Name: human_protein_genelocus.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/human_protein_genelocus.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"19567\"\n Name: \"gene_symbol\"\n Description: \"\"Official gene name/symbol assigned to the gene. Human gene names/symbols are approved by the HUGO Gene Nomenclature Committee (HGNC)\"\n Unique Values: \"19555\"\n Name: \"ensembl_gene_id\"\n Description: \"Gene Identifier in Ensembl database\"\n Unique Values: \"19555\"\n Name: \"chromosome_id\"\n Description: \"Chromosome number identifier\"\n Unique Values: \"26\"\n Name: \"start_pos\"\n Description: \"Start position of the gene on the chromosome\"\n Unique Values: \"19549\"\n Name: \"end_pos\"\n Description: \"End position of the gene on the chromosome\"\n Unique Values: \"19505\"\n Name: \"strand\"\n Description: \"The strand of the gene\"\n Unique Values: \"2\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/human_protein_genelocus.csv" }