{ "bcoid": "GLY_000852", "title": "Dicty Protein Names (NCBI RefSeq)", "description": "The Dicty Protein Names (NCBI RefSeq) dataset contains dicty [taxid:44689] protein names (primary and ...", "filename": "dicty_protein_proteinnames_refseq.csv", "filetype": "csv", "categories": { "species": [ "Dictyostelium discoideum" ], "molecule": [ "Protein" ], "tag": [ "Protein Names" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q54PT0-1...", "XP_638574..." ], [ "Q54PT1-1...", "XP_638573..." ] ], "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_protein_name" } ], [ "Q54PT0-1", "XP_638574", "hypothetical protein" ], [ "Q54PT1-1", "XP_638573", "ganglioside induced differentiation associated protein 2" ], [ "Q54PT2-1", "XP_638572", "AAA ATPase domain-containing protein" ], [ "Q54PT2-1", "XP_638572", "MIT domain-containing protein" ], [ "Q54PT3-1", "XP_638571", "cytochrome P450 family protein" ], [ "Q54PT4-1", "XP_638570", "hypothetical protein" ], [ "Q54PT5-1", "XP_638569", "hypothetical protein" ], [ "Q54PT6-1", "XP_638568", "hypothetical protein" ], [ "Q54PT7-1", "XP_638567", "saposin B domain-containing protein" ], [ "Q54PT8-1", "XP_638566", "hypothetical protein" ], [ "Q54PT9-1", "XP_638706", "NDT80/PhoG-like protein" ], [ "Q54N46-1", "XP_638097", "hypothetical protein" ], [ "Q54N47-1", "XP_638096", "branched-chain amino acid aminotransferase" ], [ "Q54N47-1", "XP_638096", "branched-chain-amino-acid transaminase" ], [ "Q54N44-1", "XP_638099", "brix domain-containing protein" ], [ "Q54N45-1", "XP_638098", "anti-silencing protein 1" ], [ "Q54N42-1", "XP_638101", "hypothetical protein" ], [ "Q54N43-1", "XP_638100", "hypothetical protein" ], [ "Q54N40-1", "XP_638103", "RING zinc finger-containing protein" ], [ "Q54N40-1", "XP_638103", "peroxin 12; peroxisomal biogenesis factor 12" ], [ "Q54N41-1", "XP_638102", "ISY1-like protein" ], [ "Q54N48-1", "XP_638095", "pre-mRNA cleavage complex subunit" ], [ "Q54N49-1", "XP_638094", "inositol-3-phosphate synthase" ], [ "Q54N49-1", "XP_638094", "myo-inositol-1-phosphate synthase" ], [ "Q54EB1-1", "XP_635329", "hypothetical protein" ], [ "Q54QV8-1", "XP_639026", "hypothetical protein" ], [ "Q54EB6-1", "XP_635324", "WD40 repeat-containing protein" ], [ "Q54QV1-1", "XP_638922", "armadillo-like helical domain-containing protein" ], [ "Q54QV1-1", "XP_638922", "transportin 3-like protein" ], [ "O96070-1", "XP_635781", "cell surface glycoprotein gp138" ], [ "Q54QV0-1", "XP_638923", "Mob1-like protein" ], [ "Q54QV4-1", "XP_639030", "U3 small nucleolar ribonucleoprotein" ], [ "Q54QV4-1", "XP_639030", "U3 snoRNP protein; WD40 repeat-containing protein" ], [ "Q86AV4-1", "XP_642827", "expansin-like protein" ], [ "Q86AV5-1", "XP_642825", "mitochondrial substrate carrier family protein" ], [ "Q86AV6-1", "XP_642824", "citrate synthase" ], [ "Q86HC9-1", "XP_643476", "esterase/lipase/thioesterase domain-containing protein" ], [ "Q86HC2-1", "XP_643489", "hypothetical protein" ], [ "Q86HC3-1", "XP_643488", "hypothetical protein" ], [ "Q86HC7-1", "XP_643479", "hypothetical protein" ], [ "Q86HC4-1", "XP_643486", "hypothetical protein" ], [ "Q86HC5-1", "XP_643482", "hypothetical protein" ], [ "Q7Z1I0-1", "XP_636023", "calcium up-regulated protein" ], [ "Q7Z1I0-1", "XP_636023", "ricin B lectin domain-containing protein" ], [ "Q55BJ9-1", "XP_645815", "superoxide dismutase" ], [ "Q55BJ8-1", "XP_645816", "hypothetical protein" ], [ "Q55BJ3-1", "XP_645821", "hypothetical protein" ], [ "Q55BJ2-1", "XP_645822", "hypothetical protein" ], [ "Q55BJ1-1", "XP_645823", "hypothetical protein" ], [ "Q55BJ0-1", "XP_645824", "hypothetical protein" ], [ "Q55BJ7-1", "XP_645817", "hypothetical protein" ], [ "Q55BJ6-1", "XP_645818", "phospholipase B-like protein" ], [ "Q55BJ5-1", "XP_645819", "hypothetical protein" ], [ "Q55BJ4-1", "XP_645820", "hypothetical protein" ], [ "Q54GS1-1", "XP_635998", "armadillo-like helical domain-containing protein" ], [ "Q54JJ0-1", "XP_636941", "hypothetical protein" ], [ "Q54JJ1-1", "XP_636940", "CMP/dCMP deaminase, zinc-binding domain-containing protein" ], [ "Q54JJ3-1", "XP_636938", "ADP-ribosylation factor-related" ], [ "Q54JJ4-1", "XP_636937", "hypothetical protein" ], [ "Q54JJ5-1", "XP_636936", "methyltransferase type 11 domain-containing protein" ], [ "Q54JJ6-1", "XP_636935", "UPF0663 family protein" ], [ "Q54JJ7-1", "XP_636934", "hypothetical protein" ], [ "Q54JJ8-1", "XP_636933", "patatin family protein" ], [ "Q54JJ9-1", "XP_636932", "EGF-like domain-containing protein" ], [ "Q54GS8-1", "XP_635991", "transcription factor IIIC-epsilon subunit" ], [ "Q54GS9-1", "XP_635990", "hypothetical protein" ], [ "Q86K98-1", "XP_642551", "hypothetical protein" ], [ "Q86K96-1", "XP_642806", "hypothetical protein" ], [ "Q86K95-1", "XP_642805", "IQ calmodulin-binding domain-containing protein" ], [ "Q86K95-1", "XP_642805", "RhoGEF domain-containing protein" ], [ "Q86K94-1", "XP_642804", "trafficking protein particle complex subunit 3" ], [ "Q86K93-1", "XP_642803", "SNF7 family protein" ], [ "Q86K92-1", "XP_642682", "hypothetical protein" ], [ "Q86K91-1", "XP_642685", "hypothetical protein" ], [ "Q86K90-1", "XP_642686", "DEAD/DEAH box helicase" ], [ "Q86K90-1", "XP_642686", "superkiller viralicidic activity 2-like protein" ], [ "Q9U3X4-1", "XP_641069", "complex II, flavoprotein subunit" ], [ "Q9U3X4-1", "XP_641069", "succinate dehydrogenase; succinic dehydrogenase" ], [ "Q54KL3-1", "XP_637304", "hypothetical protein" ], [ "Q54KL2-1", "XP_637305", "NAD-dependent epimerase/dehydratase family protein" ], [ "Q54WP9-1", "XP_641668", "WD40 repeat-containing protein" ], [ "Q54KL0-1", "XP_637307", "citrate synthase" ], [ "Q54KL7-1", "XP_637340", "hypothetical protein" ], [ "Q558Y9-1", "XP_644927", "hypothetical protein" ] ] }, "readme": "Name\n - Dicty Protein Names (NCBI RefSeq)\n\nVersion\n - v-2.4.1\n\nCreated on\n - \n\nModified on\n - 2024-01-09T05:00:11\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Dicty Protein Names (NCBI RefSeq) dataset contains dicty [taxid:44689] protein names (primary and other alternative/synonym protein names) 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 names\n - NCBI RefSeq\n\n Pipeline Steps\n - Step-1: The script parses the NCBI RefSeq gpff files to extract the protein names 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: dicty_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_xref_refseq.csv\n Output Subdomain\n Name: dicty_protein_proteinnames_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_proteinnames_refseq.csv\n Name: dicty_protein_proteinnames_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_proteinnames_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"12706\"\n Name: \"refseq_ac\"\n Description: \"Accession in the NCBI RefSeq database\"\n Unique Values: \"12702\"\n Name: \"refseq_protein_name\"\n Description: \"Name of the protein in NCBI RefSeq database\"\n Unique Values: \"3224\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/dicty_protein_proteinnames_refseq.csv" }