{ "bcoid": "GLY_000845", "title": "Dicty Protein Information (NCBI RefSeq)", "description": "The Dicty Protein Information (NCBI RefSeq) dataset contains dicty [taxid:44689] protein information ...", "filename": "dicty_protein_info_refseq.csv", "filetype": "csv", "categories": { "species": [ "Dictyostelium discoideum" ], "molecule": [ "Protein" ], "tag": [ "Protein Information" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Robel...", " mapped XP_6..." ], [ "Robel...", " feat XP_628..." ] ], "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 XP_628697" ], [ "Robel", " feat XP_628697" ], [ "Q54AK5-1", "XP_628697", "hypothetical protein", "35", "" ], [ "Robel", " mapped XP_628698" ], [ "Robel", " feat XP_628698" ], [ "Q54AK4-1", "XP_628698", "hypothetical protein", "341", "" ], [ "Robel", " mapped XP_628699" ], [ "Robel", " feat XP_628699" ], [ "Q54AK3-1", "XP_628699", "hypothetical protein", "92", "" ], [ "Robel", " mapped XP_628700" ], [ "Robel", " feat XP_628700" ], [ "Q54AK2-1", "XP_628700", "hypothetical protein", "1004", "" ], [ "Robel", " mapped XP_628703" ], [ "Robel", " feat XP_628703" ], [ "Q54AJ9-1", "XP_628703", "hypothetical protein", "51", "" ], [ "Robel", " mapped XP_628704" ], [ "Robel", " feat XP_628704" ], [ "Q54AJ8-1", "XP_628704", "hypothetical protein", "43", "" ], [ "Robel", " mapped XP_628706" ], [ "Robel", " feat XP_628706" ], [ "Q54AJ6-1", "XP_628706", "hypothetical protein", "76", "" ], [ "Robel", " mapped XP_628707" ], [ "Robel", " feat XP_628707" ], [ "Q54AK6-1", "XP_628707", "hypothetical protein", "170", "" ], [ "Robel", " mapped XP_628708" ], [ "Robel", " feat XP_628708" ], [ "Q9XYL0-1", "XP_628708", "hypothetical protein", "306", "" ], [ "Robel", " mapped XP_628710" ], [ "Robel", " feat XP_628710" ], [ "Q54AL1-1", "XP_628710", "hypothetical protein", "391", "" ], [ "Robel", " mapped XP_628711" ], [ "Robel", " feat XP_628711" ], [ "Q54AL0-1", "XP_628711", "hypothetical protein", "272", "" ], [ "Robel", " mapped XP_628712" ], [ "Robel", " feat XP_628712" ], [ "Q54AK9-1", "XP_628712", "hypothetical protein", "142", "" ], [ "Robel", " mapped XP_628713" ], [ "Robel", " feat XP_628713" ], [ "Q54AL3-1", "XP_628713", "hypothetical protein", "111", "" ], [ "Robel", " mapped XP_628714" ], [ "Robel", " feat XP_628714" ], [ "Q54AL2-1", "XP_628714", "hypothetical protein", "134", "" ], [ "Robel", " mapped XP_628715" ], [ "Robel", " feat XP_628715" ], [ "Q54AL5-1", "XP_628715", "hypothetical protein", "236", "" ], [ "Robel", " mapped XP_628716" ], [ "Robel", " feat XP_628716" ], [ "Q54AL4-1", "XP_628716", "hypothetical protein", "246", "" ], [ "Robel", " mapped XP_628717" ], [ "Robel", " feat XP_628717" ], [ "Q54AM0-1", "XP_628717", "hypothetical protein", "323", "" ], [ "Robel", " mapped XP_628719" ], [ "Robel", " feat XP_628719" ], [ "Q54AL8-1", "XP_628719", "hypothetical protein", "15", "" ], [ "Robel", " mapped XP_628720" ], [ "Robel", " feat XP_628720" ], [ "Q54AL7-1", "XP_628720", "hypothetical protein", "402", "" ], [ "Robel", " mapped XP_628721" ], [ "Robel", " feat XP_628721" ], [ "Q54AL6-1", "XP_628721", "hypothetical protein", "105", "" ], [ "Robel", " mapped XP_628722" ], [ "Robel", " feat XP_628722" ], [ "Q54AM3-1", "XP_628722", "hypothetical protein", "541", "" ], [ "Robel", " mapped XP_628723" ], [ "Robel", " feat XP_628723" ], [ "Q54AM2-1", "XP_628723", "hypothetical protein", "162", "" ], [ "Robel", " mapped XP_628725" ], [ "Robel", " feat XP_628725" ], [ "Q54AM5-1", "XP_628725", "hypothetical protein", "65", "" ], [ "Robel", " mapped XP_628726" ], [ "Robel", " feat XP_628726" ], [ "Q54AM4-1", "XP_628726", "hypothetical protein", "465", "" ], [ "Robel", " mapped XP_628727" ], [ "Robel", " feat XP_628727" ], [ "Q54AM9-1", "XP_628727", "hypothetical protein", "37", "" ], [ "Robel", " mapped XP_628728" ], [ "Robel", " feat XP_628728" ], [ "Q54AM8-1", "XP_628728", "hypothetical protein", "421", "" ], [ "Robel", " mapped XP_628729" ], [ "Robel", " feat XP_628729" ], [ "Q54AM7-1", "XP_628729", "hypothetical protein", "693", "" ], [ "Robel", " mapped XP_628730" ], [ "Robel", " feat XP_628730" ], [ "Q54AM6-1", "XP_628730", "hypothetical protein", "145", "" ] ] }, "readme": "Name\n - Dicty Protein Information (NCBI RefSeq)\n\nVersion\n - v-2.4.1\n\nCreated on\n - \n\nModified on\n - 2024-01-09T04:47:31\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 Information (NCBI RefSeq) dataset contains dicty [taxid:44689] 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: dicty_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_xref_refseq.csv\n Name: refseq_protein_all_44689.gpff\n URI: https:/data.glygen.org/ln2downloads/ncbi/refseq/2024_02_18/refseq_protein_all_44689.gpff\n Output Subdomain\n Name: dicty_protein_info_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_info_refseq.csv\n Name: dicty_protein_info_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_info_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"12703\"\n Name: \"p_refseq_ac_best_match\"\n Description: \"Best match NCBI RefSeq protein accession to UniProtKB canonical accession\"\n Unique Values: \"38106\"\n Name: \"refseq_protein_name\"\n Description: \"Name of the protein in NCBI RefSeq database\"\n Unique Values: \"2289\"\n Name: \"refseq_protein_length\"\n Description: \"Length of the protein in NCBI RefSeq database\"\n Unique Values: \"1836\"\n Name: \"refseq_protein_summary\"\n Description: \"Function of the protein in NCBI RefSeq database\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/dicty_protein_info_refseq.csv" }