{ "bcoid": "GLY_000946", "title": "Pig Protein Information (NCBI RefSeq)", "description": "The Pig Protein Information (NCBI RefSeq) dataset contains pig [taxid:9823] protein information such ...", "filename": "pig_protein_info_refseq.csv", "filetype": "csv", "categories": { "species": [ "Sus scrofa" ], "molecule": [ "Protein" ], "tag": [ "Protein Information" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Robel...", " mapped NP_0..." ], [ "Robel...", " feat NP_001..." ] ], "headers": [ "uniprotkb_ca...", "p_refseq_ac_..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "p_refseq_ac_best_match" }, { "type": "string", "label": "refseq_protein_name" }, { "type": "string", "label": "refseq_protein_length" }, { "type": "string", "label": "refseq_protein_summary" } ], [ "Robel", " mapped NP_001116648" ], [ "Robel", " feat NP_001116648" ], [ "Q06AU5-1", "NP_001116648", "ras-related protein Rab-32", "226", "" ], [ "Robel", " mapped NP_001231090" ], [ "Robel", " feat NP_001231090" ], [ "F1SMW8-1", "NP_001231090", "serpin B10", "397", "" ], [ "Robel", " mapped NP_001231926" ], [ "Robel", " feat NP_001231926" ], [ "F1S0A4-1", "NP_001231926", "PCNA-associated factor", "110", "" ], [ "Robel", " mapped NP_001090968" ], [ "Robel", " feat NP_001090968" ], [ "A0P8Z4-1", "NP_001090968", "nuclear receptor subfamily 6 group A member 1", "479", "" ], [ "Robel", " mapped NP_998982" ], [ "Robel", " feat NP_998982" ], [ "Q9MZU4-1", "NP_998982", "S-adenosylmethionine-dependent nucleotide dehydratase RSAD2", "362", "" ], [ "Robel", " mapped NP_001231440" ], [ "Robel", " feat NP_001231440" ], [ "A0A4X1W5R6-1", "NP_001231440", "proline-rich protein 13 isoform 1", "159", "" ], [ "Robel", " mapped NP_999267" ], [ "Robel", " feat NP_999267" ], [ "Q8WN98-1", "NP_999267", "inositol oxygenase", "282", "" ], [ "Robel", " mapped NP_998918" ], [ "Robel", " feat NP_998918" ], [ "Q6UN27-1", "NP_998918", "translocator protein", "169", "" ], [ "Robel", " mapped NP_999557" ], [ "Robel", " feat NP_999557" ], [ "P12068-1", "NP_999557", "lysozyme C-1 precursor", "146", "" ], [ "Robel", " mapped NP_001116622" ], [ "Robel", " feat NP_001116622" ], [ "P32196-1", "NP_001116622", "protegrin-3 precursor", "149", "" ], [ "Robel", " mapped NP_001090947" ], [ "Robel", " feat NP_001090947" ], [ "A1XQU3-1", "NP_001090947", "large ribosomal subunit protein eL14", "213", "" ], [ "Robel", " mapped NP_999615" ], [ "Robel", " feat NP_999615" ], [ "P80054-1", "NP_999615", "antibacterial protein PR-39 precursor", "168", "" ], [ "Robel", " mapped NP_001186818" ], [ "Robel", " feat NP_001186818" ], [ "E5Q8C6-1", "NP_001186818", "CCAAT/enhancer-binding protein beta", "346", "" ], [ "Robel", " mapped NP_001116621" ], [ "Robel", " feat NP_001116621" ], [ "P32194-1", "NP_001116621", "protegrin-1 precursor", "149", "" ], [ "Robel", " mapped NP_001157168" ], [ "Robel", " feat NP_001157168" ], [ "F1SGZ7-1", "NP_001157168", "uncharacterized protein C21orf62 homolog precursor", "219", "" ], [ "Robel", " mapped NP_001165012" ], [ "Robel", " feat NP_001165012" ], [ "D2WKD8-1", "NP_001165012", "sodium/potassium-transporting ATPase subunit alpha-2", "1020", "" ], [ "Robel", " mapped NP_001230205" ], [ "Robel", " feat NP_001230205" ], [ "F1RMN2-1", "NP_001230205", "lysoplasmalogenase TMEM86B", "226", "" ], [ "Robel", " mapped NP_998914" ], [ "Robel", " feat NP_998914" ], [ "Q719N1-1", "NP_998914", "spastin", "530", "" ], [ "Robel", " mapped NP_001161127" ], [ "Robel", " feat NP_001161127" ], [ "D0PSF7-1", "NP_001161127", "ribonuclease pancreatic precursor", "151", "" ], [ "Robel", " mapped NP_999494" ], [ "Robel", " feat NP_999494" ], [ "O19004-1", "NP_999494", "serine/threonine-protein kinase A-Raf", "606", "" ], [ "Robel", " mapped NP_001004027" ], [ "Robel", " feat NP_001004027" ], [ "P32394-1", "NP_001004027", "heme oxygenase 1", "288", "" ], [ "Robel", " mapped NP_999264" ], [ "Robel", " feat NP_999264" ], [ "Q28985-1", "NP_999264", "insulin-like growth factor-binding protein 5 precursor", "271", "" ], [ "Robel", " mapped NP_999604" ], [ "Robel", " feat NP_999604" ], [ "Q6RHW2-1", "NP_999604", "hyaluronidase-3 precursor", "419", "" ], [ "Robel", " mapped NP_001161128" ], [ "Robel", " feat NP_001161128" ], [ "P81649-1", "NP_001161128", "ribonuclease K3 precursor", "153", "" ], [ "Robel", " mapped NP_001005729" ], [ "Robel", " feat NP_001005729" ], [ "Q60I29-1", "NP_001005729", "interleukin-17A precursor", "153", "" ], [ "Robel", " mapped NP_999083" ], [ "Robel", " feat NP_999083" ], [ "Q9GLP2-1", "NP_999083", "vitamin K-dependent protein C precursor", "459", "" ], [ "Robel", " mapped NP_999261" ], [ "Robel", " feat NP_999261" ], [ "Q8HZK3-1", "NP_999261", "dual oxidase 1 precursor", "1553", "" ], [ "Robel", " mapped NP_999360" ], [ "Robel", " feat NP_999360" ], [ "P00690-1", "NP_999360", "pancreatic alpha-amylase precursor", "511", "" ] ] }, "readme": "Name\n - Pig Protein Information (NCBI RefSeq)\n\nVersion\n - v-2.4.1\n\nCreated on\n - \n\nModified on\n - 2024-02-28T18:29:15\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], Luke Johnson [luke.johnson@email.gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Not Applicable []\n\nChecksum\n - \n\nUsability Domain\n - The Pig Protein Information (NCBI RefSeq) dataset contains pig [taxid:9823] protein information such as protein accession, name, length and protein function summary from NCBI RefSeq database. 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 information\n - protein length\n - NCBI RefSeq\n - protein summary\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the accession, length, protein summary and then maps the NCBI RefSeq accesion to the UniProtKB Canonical accessions\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: pig_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_xref_refseq.csv\n Name: refseq_protein_all_9823.gpff\n URI: https:/data.glygen.org/ln2downloads/ncbi/refseq/2024_02_18/refseq_protein_all_9823.gpff\n Output Subdomain\n Name: pig_protein_info_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_info_refseq.csv\n Name: pig_protein_info_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_info_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"6303\"\n Name: \"p_refseq_ac_best_match\"\n Description: \"Best match NCBI RefSeq protein accession to UniProtKB canonical accession\"\n Unique Values: \"18906\"\n Name: \"refseq_protein_name\"\n Description: \"Name of the protein in NCBI RefSeq database\"\n Unique Values: \"6187\"\n Name: \"refseq_protein_length\"\n Description: \"Length of the protein in NCBI RefSeq database\"\n Unique Values: \"1145\"\n Name: \"refseq_protein_summary\"\n Description: \"Function of the protein in NCBI RefSeq database\"\n Unique Values: \"8\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/pig_protein_info_refseq.csv" }