{ "bcoid": "GLY_000387", "title": "Human Gene Symbols (NCBI RefSeq)", "description": "The Human Gene Symbols (NCBI RefSeq) dataset contains human [taxid:9606] gene symbols/names (primary ...", "filename": "human_protein_genenames_refseq.csv", "filetype": "csv", "categories": { "species": "Homo sapiens", "molecule": "Protein", "tags": "Protein Information", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P03886-1...", "YP_003024026..." ], [ "P03886-1...", "YP_003024026..." ] ], "headers": [ "uniprotkb_ca...", "refseq_ac..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "refseq_ac" }, { "type": "string", "label": "refseq_gene_name" } ], [ "P03886-1", "YP_003024026.1", "ND1" ], [ "P03886-1", "YP_003024026.1", "MTND1" ], [ "P03891-1", "YP_003024027.1", "ND2" ], [ "P03891-1", "YP_003024027.1", "MTND2" ], [ "P00395-1", "YP_003024028.1", "COX1" ], [ "P00395-1", "YP_003024028.1", "COI; MTCO1" ], [ "P00403-1", "YP_003024029.1", "COX2" ], [ "P00403-1", "YP_003024029.1", "COII; MTCO2" ], [ "P03928-1", "YP_003024030.1", "ATP8" ], [ "P03928-1", "YP_003024030.1", "ATPase8; MTATP8" ], [ "P00846-1", "YP_003024031.1", "ATP6" ], [ "P00846-1", "YP_003024031.1", "ATPase6; MTATP6" ], [ "P00414-1", "YP_003024032.1", "COX3" ], [ "P00414-1", "YP_003024032.1", "COIII; MTCO3" ], [ "P03897-1", "YP_003024033.1", "ND3" ], [ "P03897-1", "YP_003024033.1", "MTND3" ], [ "P03901-1", "YP_003024034.1", "ND4L" ], [ "P03901-1", "YP_003024034.1", "MTND4L" ], [ "P03905-1", "YP_003024035.1", "ND4" ], [ "P03905-1", "YP_003024035.1", "MTND4" ], [ "P03915-1", "YP_003024036.1", "ND5" ], [ "P03915-1", "YP_003024036.1", "MTND5" ], [ "P03923-1", "YP_003024037.1", "ND6" ], [ "P03923-1", "YP_003024037.1", "MTND6" ], [ "P00156-1", "YP_003024038.1", "CYTB" ], [ "P00156-1", "YP_003024038.1", "MTCYB" ], [ "Q9BTE6-1", "NP_001129514.2", "PTGES3L-AARSD1" ], [ "Q8N8H1-1", "NP_001189402.1", "ZNF816-ZNF321P" ], [ "Q8N8H1-1", "NP_001189402.1", "ZNF816-ZNF321" ], [ "B7Z3J9-1", "NP_001306966.1", "LOC730098" ], [ "Q6T311-1", "NP_996802.1", "ARL9" ], [ "Q96T66-1", "NP_001186976.1", "NMNAT3" ], [ "Q96T66-1", "NP_001186976.1", "FKSG76; PNAT-3; PNAT3" ], [ "Q8IV50-1", "NP_001137389.1", "LYSMD2" ], [ "Q9HAE3-1", "NP_001136329.1", "EFCAB1" ], [ "Q9UN30-3", "NP_001032624.1", "SCML1" ], [ "Q562E7-1", "NP_001157145.1", "WDR81" ], [ "Q562E7-1", "NP_001157145.1", "CAMRQ2; HYC3; PPP1R166; SORF-2" ], [ "Q96K17-1", "NP_001129969.1", "BTF3L4" ], [ "Q9Y608-1", "NP_001127841.1", "LRRFIP2" ], [ "Q9Y608-1", "NP_001127841.1", "HUFI-2" ], [ "Q6R2W3-1", "NP_001316545.1", "ZBED9" ], [ "Q6R2W3-1", "NP_001316545.1", "Buster4; dJ1186N24.3; SCAND3; ZFP38-L; ZNF305P2; ZNF452" ], [ "Q9NWW7-1", "NP_001335687.1", "C2orf42" ], [ "Q8NDP4-1", "NP_001335653.1", "ZNF439" ], [ "Q14094-1", "NP_001335061.1", "CCNI" ], [ "Q14094-1", "NP_001335061.1", "CCNI1; CYC1; CYI" ], [ "Q8TAB5-1", "NP_001335620.1", "C1orf216" ], [ "Q7Z5U6-1", "NP_001332835.1", "WDR53" ], [ "Q5T197-1", "NP_001137159.1", "DCST1" ], [ "P0C7X2-1", "NP_001019854.1", "ZNF688" ], [ "Q96B23-1", "NP_001008240.1", "C18orf25" ], [ "Q96B23-1", "NP_001008240.1", "Ark2N; ARKL1; RNF111L1" ], [ "Q8TD35-1", "NP_001007126.1", "LKAAEAR1" ], [ "Q8TD35-1", "NP_001007126.1", "C20orf201" ], [ "Q6PIL6-1", "NP_001030175.1", "KCNIP4" ], [ "Q6PIL6-1", "NP_001030175.1", "CALP; KCHIP4" ], [ "Q9NYT6-1", "NP_001027544.1", "ZNF226" ], [ "Q6P3X8-1", "NP_001017434.1", "PGBD2" ], [ "Q8TCJ0-1", "NP_036305.2", "FBXO25" ], [ "Q8TCJ0-1", "NP_036305.2", "FBX25" ], [ "Q8WXA3-2", "NP_001035882.1", "RUFY2" ], [ "Q8WXA3-2", "NP_001035882.1", "RABIP4R; ZFYVE13" ], [ "Q9Y5V0-1", "NP_001035975.1", "ZNF706" ], [ "Q9Y5V0-1", "NP_001035975.1", "HSPC038; PNAS-106; PNAS-113" ], [ "Q9NRR8-1", "NP_001033796.1", "CDC42SE1" ], [ "Q9NRR8-1", "NP_001033796.1", "SCIP1; SPEC1" ], [ "Q8IYN2-1", "NP_001006685.1", "TCEAL8" ], [ "Q8IYN2-1", "NP_001006685.1", "WEX3" ], [ "Q9BYJ4-1", "NP_001003827.1", "TRIM34" ], [ "Q9BYJ4-1", "NP_001003827.1", "IFP1; RNF21" ], [ "Q8IVS2-1", "NP_055322.1", "MCAT" ], [ "Q8IVS2-1", "NP_055322.1", "fabD; FASN2C; MCT; MCT1; MT; NET62" ], [ "Q8N720-1", "NP_001009958.1", "ZNF655" ], [ "Q8N720-1", "NP_001009958.1", "VIK; VIK-1" ], [ "Q9BXW7-1", "NP_060299.4", "HDHD5" ], [ "Q9BXW7-1", "NP_060299.4", "CECR5" ], [ "Q7L4S7-1", "NP_001009584.1", "ARMCX6" ], [ "Q7L4S7-1", "NP_001009584.1", "GASP10" ], [ "Q8TBZ5-1", "NP_001127912.1", "ZNF502" ], [ "Q9UJ78-4", "NP_001034738.1", "ZMYM5" ], [ "Q9UJ78-4", "NP_001034738.1", "HSPC050; MYM; ZNF198L1; ZNF237" ], [ "Q6P387-1", "NP_001094343.1", "C16orf46" ], [ "Q9BVG8-3", "NP_001123571.1", "KIFC3" ] ] }, "readme": "Name\n - Human Gene Symbols (NCBI RefSeq)\n\nVersion\n - 1.5.30\n\nCreated on\n - 2020-03-15T12:45:15.358749\n\nModified on\n - 2020-04-10T11:48:37.249118\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Human Gene Symbols (NCBI RefSeq) dataset contains human [taxid:9606] gene symbols/names (primary gene name and gene synonyms) from NCBI RefSeq database. The dataset is derived from NCBI RefSeq Release 96, September 9, 2019. The dataset is derived from NCBI RefSeq Release 96, September 9, 2019. If you use this dataset please provide proper attribution to NCBI RefSeq and GlyGen\n\nDescription Domain\n Keywords\n - protein gene symbols\n - protein gene names\n - NCBI RefSeq\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the gene symbols/names and then maps the NCBI RefSeq accesion to the UniProtKB Canonical accessions\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: refseq_protein_all_9606.gpff\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.30/source/refseq_protein_all_9606.gpff\n Name: human_protein_xref_refseq.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.30/reviewed/human_protein_xref_refseq.csv\n Output Subdomain\n Name: human_protein_genenames_refseq.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.30/reviewed/human_protein_genenames_refseq.csv\n Name: human_pprotein_genenames_refseq.csv.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.30/reviewed/human_protein_genenames_refseq.csv.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.5.30/reviewed/human_protein_genenames_refseq.csv" }