{ "bcoid": "GLY_000645", "title": "Fruitfly Protein Information (NCBI RefSeq)", "description": "The Fruitfly Protein Information (NCBI RefSeq) dataset contains fruitfly [taxid:7227] protein information ...", "filename": "fruitfly_protein_info_refseq.csv", "filetype": "csv", "categories": { "species": [ "Drosophila melanogaster" ], "molecule": [ "Protein" ], "tag": [ "Protein Information" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Robel...", " mapped YP_0..." ], [ "Robel...", " feat YP_009..." ] ], "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 YP_009047266" ], [ "Robel", " feat YP_009047266" ], [ "P03896-1", "YP_009047266", "NADH dehydrogenase subunit 2", "341", "" ], [ "Robel", " mapped YP_009047267" ], [ "Robel", " feat YP_009047267" ], [ "P00399-1", "YP_009047267", "cytochrome c oxidase subunit I", "511", "" ], [ "Robel", " mapped YP_009047268" ], [ "Robel", " feat YP_009047268" ], [ "P00408-1", "YP_009047268", "cytochrome c oxidase subunit II", "228", "" ], [ "Robel", " mapped YP_009047269" ], [ "Robel", " feat YP_009047269" ], [ "P84345-1", "YP_009047269", "ATP synthase F0 subunit 8", "53", "" ], [ "Robel", " mapped YP_009047270" ], [ "Robel", " feat YP_009047270" ], [ "P00850-1", "YP_009047270", "ATP synthase F0 subunit 6", "224", "" ], [ "Robel", " mapped YP_009047271" ], [ "Robel", " feat YP_009047271" ], [ "P00417-1", "YP_009047271", "cytochrome c oxidase subunit III", "262", "" ], [ "Robel", " mapped YP_009047272" ], [ "Robel", " feat YP_009047272" ], [ "P18930-1", "YP_009047272", "NADH dehydrogenase subunit 3", "117", "" ], [ "Robel", " mapped YP_009047273" ], [ "Robel", " feat YP_009047273" ], [ "P18932-1", "YP_009047273", "NADH dehydrogenase subunit 5", "572", "" ], [ "Robel", " mapped YP_009047274" ], [ "Robel", " feat YP_009047274" ], [ "P18931-1", "YP_009047274", "NADH dehydrogenase subunit 4", "446", "" ], [ "Robel", " mapped YP_009047275" ], [ "Robel", " feat YP_009047275" ], [ "P18934-1", "YP_009047275", "NADH dehydrogenase subunit 4L", "96", "" ], [ "Robel", " mapped YP_009047276" ], [ "Robel", " feat YP_009047276" ], [ "P18933-1", "YP_009047276", "NADH dehydrogenase subunit 6", "174", "" ], [ "Robel", " mapped YP_009047277" ], [ "Robel", " feat YP_009047277" ], [ "P18935-1", "YP_009047277", "cytochrome b", "378", "" ], [ "Robel", " mapped YP_009047278" ], [ "Robel", " feat YP_009047278" ], [ "P18929-1", "YP_009047278", "NADH dehydrogenase subunit 1", "312", "" ], [ "Robel", " mapped NP_001104092" ], [ "Robel", " feat NP_001104092" ], [ "A8QI34-1", "NP_001104092", "JYalpha", "1009", "" ], [ "Robel", " mapped NP_001245400" ], [ "Robel", " feat NP_001245400" ], [ "Q9V4A7-1", "NP_001245400", "plexin B, isoform B", "2051", "" ], [ "Robel", " mapped NP_524617" ], [ "Robel", " feat NP_524617" ], [ "P19538-1", "NP_524617", "cubitus interruptus, isoform A", "1397", "" ], [ "Robel", " mapped NP_001245404" ], [ "Robel", " feat NP_001245404" ], [ "P55830-1", "NP_001245404", "ribosomal protein S3A, isoform F", "268", "" ], [ "Robel", " mapped NP_726528" ], [ "Robel", " feat NP_726528" ], [ "Q8IMA8-1", "NP_726528", "pangolin, isoform J", "1192", "" ], [ "Robel", " mapped NP_001162819" ], [ "Robel", " feat NP_001162819" ], [ "Q0KIE7-1", "NP_001162819", "ankyrin, isoform E", "1549", "" ], [ "Robel", " mapped NP_001096849" ], [ "Robel", " feat NP_001096849" ], [ "A8DZ26-1", "NP_001096849", "anne boleyn, isoform H", "1451", "" ], [ "Robel", " mapped NP_726538" ], [ "Robel", " feat NP_726538" ], [ "Q8IMA2-1", "NP_726538", "uncharacterized protein", "443", "" ], [ "Robel", " mapped NP_001284709" ], [ "Robel", " feat NP_001284709" ], [ "Q8SYQ4-1", "NP_001284709", "uncharacterized protein, isoform B", "148", "" ], [ "Robel", " mapped NP_001033801" ], [ "Robel", " feat NP_001033801" ], [ "Q2PDM3-1", "NP_001033801", "uncharacterized protein, isoform E", "2289", "" ], [ "Robel", " mapped NP_001245408" ], [ "Robel", " feat NP_001245408" ], [ "H9XVM3-1", "NP_001245408", "ADP ribosylation factor-like 4, isoform B", "313", "" ], [ "Robel", " mapped NP_001245409" ], [ "Robel", " feat NP_001245409" ], [ "Q7JUN3-1", "NP_001245409", "ATP binding cassette subfamily D member 1, isoform H", "730", "" ], [ "Robel", " mapped NP_726548" ], [ "Robel", " feat NP_726548" ], [ "Q9V4B6-1", "NP_726548", "uncharacterized protein, isoform A", "1459", "" ], [ "Robel", " mapped NP_651908" ], [ "Robel", " feat NP_651908" ], [ "Q9XYM0-1", "NP_651908", "Crk oncogene, isoform A", "271", "" ], [ "Robel", " mapped NP_001284712" ], [ "Robel", " feat NP_001284712" ], [ "Q9V4B8-1", "NP_001284712", "uncharacterized protein, isoform C", "917", "" ] ] }, "readme": "Name\n - Fruitfly Protein Information (NCBI RefSeq)\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2022-08-30T16:17:01.573604\n\nModified on\n - 2022-09-26T09:08:12.614356\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@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 Fruitfly Protein Information (NCBI RefSeq) dataset contains fruitfly [taxid:7227] 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: fruitfly_protein_xref_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/fruitfly_protein_xref_refseq.csv\n Name: refseq_protein_all_7227.gpff\n URI: https:/data.glygen.org/ln2downloads/ncbi/refseq/2024_02_18/refseq_protein_all_7227.gpff\n Output Subdomain\n Name: fruitfly_protein_info_refseq.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/fruitfly_protein_info_refseq.csv\n Name: fruitfly_protein_info_refseq.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/fruitfly_protein_info_refseq.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"13652\"\n Name: \"p_refseq_ac_best_match\"\n Description: \"Best match NCBI RefSeq protein accession to UniProtKB canonical accession\"\n Unique Values: \"40953\"\n Name: \"refseq_protein_name\"\n Description: \"Name of the protein in NCBI RefSeq database\"\n Unique Values: \"7692\"\n Name: \"refseq_protein_length\"\n Description: \"Length of the protein in NCBI RefSeq database\"\n Unique Values: \"1877\"\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/fruitfly_protein_info_refseq.csv" }