{ "bcoid": "GLY_000315", "title": "Rat Protein Binary Interactions (IntAct)", "description": "The Rat Protein Binary Interaction (IntAct) dataset contains rat [taxid:10116] binary interaction data ...", "filename": "rat_protein_binary_interactions.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Binary Interaction", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "D3ZB48-1...", "EBI-10899944..." ], [ "D3ZB48-1...", "EBI-10899944..." ] ], "headers": [ "uniprotkb_ca...", "intact_ac..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "intact_ac" }, { "type": "string", "label": "participant_uniprotkb_ac" }, { "type": "string", "label": "participant_intact_ac" }, { "type": "string", "label": "participant_uniprotkb_id" }, { "type": "string", "label": "participant_gene_symbol" }, { "type": "string", "label": "participant_taxid" }, { "type": "string", "label": "experiments" } ], [ "D3ZB48-1", "EBI-10899944", "B5DFJ4", "EBI-10899920", "B5DFJ4_RAT", "Vps18", "10116", "2" ], [ "D3ZB48-1", "EBI-10899944", "D3ZB48", "EBI-10899944", "D3ZB48_RAT", "Hook1", "10116", "2" ], [ "P60881-1", "EBI-1027214", "P32851", "EBI-539720", "STX1A_RAT", "Stx1a", "10116", "29" ], [ "P60881-1", "EBI-1027214", "P21707", "EBI-458098", "SYT1_RAT", "Syt1", "10116", "24" ], [ "P60881-1", "EBI-1027214", "P63045", "EBI-520880", "VAMP2_RAT", "Vamp2", "10116", "4" ], [ "P60881-1", "EBI-1027214", "P60881", "EBI-1027214", "SNP25_RAT", "Snap25", "10116", "4" ], [ "P60881-1", "EBI-1027214", "P60881", "EBI-1027214", "SNP25_RAT", "Snap25", "10116", "3" ], [ "P60881-1", "EBI-1027214", "P60881", "EBI-1027214", "SNP25_RAT", "Snap25", "10116", "24" ], [ "P60881-1", "EBI-1027214", "P60881", "EBI-1027214", "SNP25_RAT", "Snap25", "10116", "29" ], [ "P60881-1", "EBI-1027214", "P60881", "EBI-1027214", "SNP25_RAT", "Snap25", "10116", "4" ], [ "P60881-1", "EBI-1027214", "P47709", "EBI-1027524", "RP3A_RAT", "Rph3a", "10116", "4" ], [ "P60881-1", "EBI-1027214", "Q9QXY2", "EBI-1394088", "SRCN1_RAT", "Srcin1", "10116", "3" ], [ "P60881-1", "EBI-1027214", "P60881-2", "EBI-15685612", "SNP25_RAT", "Snap25", "10116", "4" ], [ "P60881-1", "EBI-1027214", "Q08849", "EBI-8311156", "STX3_RAT", "Stx3", "10116", "4" ], [ "P20272-1", "EBI-2909800", "P30543", "EBI-2902822", "AA2AR_RAT", "Adora2a", "10116", "3" ], [ "P20272-1", "EBI-2909800", "P20272", "EBI-2909800", "CNR1_RAT", "Cnr1", "10116", "3" ], [ "Q9R193-1", "EBI-15644324", "Q9R193", "EBI-15644324", "AT1B4_RAT", "Atp1b4", "10116", "2" ], [ "Q9R193-1", "EBI-15644324", "D4A8G7", "EBI-15644341", "D4A8G7_RAT", "Snw1", "10116", "2" ], [ "Q9WUD9-1", "EBI-7784541", "P22002", "EBI-1185084", "CAC1C_RAT", "Cacna1c", "10116", "4" ], [ "Q9WUD9-1", "EBI-7784541", "P28648", "EBI-7784314", "CD63_RAT", "Cd63", "10116", "2" ], [ "Q9WUD9-1", "EBI-7784541", "Q9WUD9", "EBI-7784541", "SRC_RAT", "Src", "10116", "4" ], [ "Q9WUD9-1", "EBI-7784541", "Q9WUD9", "EBI-7784541", "SRC_RAT", "Src", "10116", "2" ], [ "Q9WUD9-1", "EBI-7784541", "Q9WUD9", "EBI-7784541", "SRC_RAT", "Src", "10116", "2" ], [ "Q9WUD9-1", "EBI-7784541", "O08617", "EBI-8584374", "PTPRR_RAT", "Ptprr", "10116", "2" ], [ "P34900-1", "EBI-1173032", "P34900", "EBI-1173032", "SDC2_RAT", "Sdc2", "10116", "2" ], [ "P34900-1", "EBI-1173032", "P34900", "EBI-1173032", "SDC2_RAT", "Sdc2", "10116", "2" ], [ "P34900-1", "EBI-1173032", "P34900", "EBI-1173032", "SDC2_RAT", "Sdc2", "10116", "2" ], [ "P34900-1", "EBI-1173032", "P34900", "EBI-1173032", "SDC2_RAT", "Sdc2", "10116", "4" ], [ "P34900-1", "EBI-1173032", "P26260", "EBI-1173127", "SDC1_RAT", "Sdc1", "10116", "2" ], [ "P34900-1", "EBI-1173032", "P33671", "EBI-1173159", "SDC3_RAT", "Sdc3", "10116", "2" ], [ "P34900-1", "EBI-1173032", "P34901", "EBI-1173182", "SDC4_RAT", "Sdc4", "10116", "4" ], [ "P34901-1", "EBI-1173182", "P34900", "EBI-1173032", "SDC2_RAT", "Sdc2", "10116", "4" ], [ "P34901-1", "EBI-1173182", "P34901", "EBI-1173182", "SDC4_RAT", "Sdc4", "10116", "3" ], [ "P34901-1", "EBI-1173182", "P34901", "EBI-1173182", "SDC4_RAT", "Sdc4", "10116", "4" ], [ "P34901-1", "EBI-1173182", "P34901", "EBI-1173182", "SDC4_RAT", "Sdc4", "10116", "2" ], [ "P34901-1", "EBI-1173182", "P34901", "EBI-1173182", "SDC4_RAT", "Sdc4", "10116", "3" ], [ "P34901-1", "EBI-1173182", "P04937", "EBI-6127274", "FINC_RAT", "Fn1", "10116", "2" ], [ "P34901-1", "EBI-1173182", "P05696", "EBI-935801", "KPCA_RAT", "Prkca", "10116", "3" ], [ "O35430-1", "EBI-704760", "P32851", "EBI-539720", "STX1A_RAT", "Stx1a", "10116", "3" ], [ "O35430-1", "EBI-704760", "P61765", "EBI-1029097", "STXB1_RAT", "Stxbp1", "10116", "5" ], [ "O35430-1", "EBI-704760", "O35430", "EBI-704760", "APBA1_RAT", "Apba1", "10116", "5" ], [ "O35430-1", "EBI-704760", "O35430", "EBI-704760", "APBA1_RAT", "Apba1", "10116", "3" ], [ "O35431-1", "EBI-2028211", "P61765", "EBI-1029097", "STXB1_RAT", "Stxbp1", "10116", "3" ], [ "O35431-1", "EBI-2028211", "O35431", "EBI-2028211", "APBA2_RAT", "Apba2", "10116", "3" ], [ "O35431-1", "EBI-2028211", "O35431", "EBI-2028211", "APBA2_RAT", "Apba2", "10116", "4" ], [ "O35431-1", "EBI-2028211", "Q8R4T5", "EBI-7361884", "GRASP_RAT", "Grasp", "10116", "4" ], [ "P27321-1", "EBI-7441624", "Q07009", "EBI-1040438", "CAN2_RAT", "Capn2", "10116", "10" ], [ "P27321-1", "EBI-7441624", "P27321", "EBI-7441624", "ICAL_RAT", "Cast", "10116", "10" ], [ "Q5I0E7-1", "EBI-920903", "Q9R064", "EBI-4422912", "GORS2_RAT", "Gorasp2", "10116", "3" ], [ "Q5I0E7-1", "EBI-920903", "Q5I0E7", "EBI-920903", "TMED9_RAT", "Tmed9", "10116", "3" ], [ "Q6JP77-1", "EBI-6096191", "Q6JP77", "EBI-6096191", "AKA7G_RAT", "Akap7", "10116", "6" ], [ "Q6JP77-1", "EBI-6096191", "P61016", "EBI-7620725", "PPLA_RAT", "Pln", "10116", "6" ], [ "Q9JIR4-1", "EBI-3507436", "P54282", "EBI-3507416", "CAC1A_RAT", "Cacna1a", "10116", "4" ], [ "Q9JIR4-1", "EBI-3507436", "Q9JIR4", "EBI-3507436", "RIMS1_RAT", "Rims1", "10116", "4" ], [ "Q9JIR4-1", "EBI-3507436", "Q9JIR4", "EBI-3507436", "RIMS1_RAT", "Rims1", "10116", "8" ], [ "Q9JIR4-1", "EBI-3507436", "Q9JIR4", "EBI-3507436", "RIMS1_RAT", "Rims1", "10116", "2" ], [ "Q9JIR4-1", "EBI-3507436", "Q9JIR4", "EBI-3507436", "RIMS1_RAT", "Rims1", "10116", "2" ], [ "Q9JIR4-1", "EBI-3507436", "Q811U3", "EBI-3507502", "RB6I2_RAT", "Erc1", "10116", "8" ], [ "Q9JIR4-1", "EBI-3507436", "O70368", "EBI-3507514", "O70368_RAT", "Cacna1a", "10116", "2" ], [ "Q9JIR4-1", "EBI-3507436", "O89089", "EBI-3507539", "O89089_RAT", "Cacna1b", "10116", "2" ], [ "Q03348-1", "EBI-7784341", "P28648", "EBI-7784314", "CD63_RAT", "Cd63", "10116", "5" ], [ "Q03348-1", "EBI-7784341", "Q03348", "EBI-7784341", "PTPRA_RAT", "Ptpra", "10116", "5" ], [ "P47709-1", "EBI-1027524", "P60881", "EBI-1027214", "SNP25_RAT", "Snap25", "10116", "4" ], [ "P47709-1", "EBI-1027524", "P47709", "EBI-1027524", "RP3A_RAT", "Rph3a", "10116", "4" ], [ "P47709-1", "EBI-1027524", "P47709", "EBI-1027524", "RP3A_RAT", "Rph3a", "10116", "2" ], [ "P47709-1", "EBI-1027524", "P63012", "EBI-440126", "RAB3A_RAT", "Rab3a", "10116", "2" ], [ "Q9EQL9-1", "EBI-1394695", "Q9WV48", "EBI-80909", "SHAN1_RAT", "Shank1", "10116", "7" ], [ "Q9EQL9-1", "EBI-1394695", "Q9EQL9", "EBI-1394695", "SHRPN_RAT", "Sharpin", "10116", "2" ], [ "Q9EQL9-1", "EBI-1394695", "Q9EQL9", "EBI-1394695", "SHRPN_RAT", "Sharpin", "10116", "7" ], [ "P04775-1", "EBI-2619448", "P21707", "EBI-458098", "SYT1_RAT", "Syt1", "10116", "2" ], [ "P04775-1", "EBI-2619448", "P07463", "EBI-15916571", "CALM_PARTE", "CAM", "5888", "2" ], [ "P04775-1", "EBI-2619448", "P04775", "EBI-2619448", "SCN2A_RAT", "Scn2a", "10116", "2" ], [ "P04775-1", "EBI-2619448", "P04775", "EBI-2619448", "SCN2A_RAT", "Scn2a", "10116", "2" ], [ "P05943-1", "EBI-1800351", "Q62968", "EBI-1800320", "SCNAA_RAT", "Scn10a", "10116", "4" ], [ "P05943-1", "EBI-1800351", "P05943", "EBI-1800351", "S10AA_RAT", "S100a10", "10116", "4" ], [ "G3V7P1-1", "EBI-915654", "Q63666", "EBI-2029956", "VAMP1_RAT", "Vamp1", "10116", "3" ], [ "G3V7P1-1", "EBI-915654", "G3V7P1", "EBI-915654", "STX12_RAT", "Stx12", "10116", "3" ], [ "P97879-1", "EBI-936113", "P19491", "EBI-77718", "GRIA2_RAT", "Gria2", "10116", "15" ], [ "P97879-1", "EBI-936113", "P97879", "EBI-936113", "GRIP1_RAT", "Grip1", "10116", "4" ], [ "P97879-1", "EBI-936113", "P97879", "EBI-936113", "GRIP1_RAT", "Grip1", "10116", "3" ], [ "P97879-1", "EBI-936113", "P97879", "EBI-936113", "GRIP1_RAT", "Grip1", "10116", "4" ], [ "P97879-1", "EBI-936113", "P97879", "EBI-936113", "GRIP1_RAT", "Grip1", "10116", "3" ], [ "P97879-1", "EBI-936113", "P97879", "EBI-936113", "GRIP1_RAT", "Grip1", "10116", "15" ], [ "P97879-1", "EBI-936113", "P97879", "EBI-936113", "GRIP1_RAT", "Grip1", "10116", "3" ] ] }, "readme": "Name\n - Rat Protein Binary Interactions (IntAct)\n\nVersion\n - 1.5.23\n\nCreated on\n - 2019-11-30T13:10:44.152278\n\nModified on\n - 2020-04-10T12:13:23.100034\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Xavier Holmes [xavierh@email.gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Rat Protein Binary Interaction (IntAct) dataset contains rat [taxid:10116] binary interaction data for UniProtKB canonical accession from IntAct database. The data is quality filtered by UniProt from IntAct and contains information about the interactors, number of experiments, IntAct Ids etc. The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - Binary Interactions\n - IntAct\n - UniProtKB\n\n Pipeline Steps\n - Step-0: The script loads the binary interactions data for UniProtKB canonical interactions from the triplestore and extracts it as a dataset in csv format\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: uniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_protein_binary_interactions.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_binary_interactions.csv\n Name: rat_protein_binary_interactions.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_binary_interactions.stat.csv\n\nFields\n Name: \"intact_ac\"\n Description: \"The accession of an interacting protein in IntAct database\"\n Unique Values: \"398\"\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"398\"\n Name: \"participant_uniprotkb_id\"\n Description: \"The mnemonic identifier of the interacting protein participant in UniProtKB\"\n Unique Values: \"608\"\n Name: \"participant_intact_ac\"\n Description: \"The IntAct accession of the interacting protein participant\"\n Unique Values: \"626\"\n Name: \"experiments\"\n Description: \"Number of experiments performed to study the protein-protein binary interactions\"\n Unique Values: \"20\"\n Name: \"participant_gene_symbol\"\n Description: \"The gene symbol of the interacting protein participant in UniProtKB\"\n Unique Values: \"583\"\n Name: \"participant_uniprotkb_ac\"\n Description: \"The UniProtKB accession of the interacting protein participant\"\n Unique Values: \"624\"\n Name: \"participant_taxid\"\n Description: \"The NCBI Taxonomy identifier of the interacting protein participant in UniProtKB\"\n Unique Values: \"12\"", "downloadurl": "/ln2data/releases/data/v-1.5.23/reviewed/rat_protein_binary_interactions.csv" }