{ "bcoid": "GLY_000334", "title": "Rat Interaction data (MatrixDB)", "description": "The Rat Interaction data (MatrixDB) dataset contains interaction data between Rat [taxid:10090] proteins ...", "filename": "rat_protein_matrixdb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "MatrixDB", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P15127-1...", "GAG_1..." ], [ "P15127-1...", "GAG_1..." ] ], "headers": [ "uniprotkb_ca...", "matrix_db_id..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "matrix_db_id" }, { "type": "string", "label": "matrix_db_label" }, { "type": "string", "label": "chebi_id" }, { "type": "string", "label": "gag_interactor_biological_role" }, { "type": "string", "label": "protein_interactor_biological_role" }, { "type": "string", "label": "evidence" }, { "type": "string", "label": "saccharide" }, { "type": "string", "label": "interaction_type" }, { "type": "string", "label": "source" }, { "type": "string", "label": "source_id" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" } ], [ "P15127-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P15127-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P15127-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P15127-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P16310-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P16310-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P16310-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P16310-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P14740-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P14740-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P14740-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P14740-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P05371-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P05371-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P05371-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P05371-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P14668-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P14668-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P14668-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P14668-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P04157-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P04157-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P04157-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P04157-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P04785-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P04785-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P04785-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P04785-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "Q5EBA8-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q5EBA8-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "Q5EBA8-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q5EBA8-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6AXS5-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6AXS5-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6AXS5-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6AXS5-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6P6T5-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6P6T5-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6P6T5-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q6P6T5-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P26435-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P26435-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P26435-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P26435-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8CGU6-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8CGU6-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8CGU6-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8CGU6-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "O88269-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "O88269-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "O88269-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "O88269-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8K1P8-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8K1P8-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8K1P8-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q8K1P8-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P53987-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P53987-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P53987-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P53987-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "Q10739-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q10739-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "Q10739-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q10739-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P30904-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P30904-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P30904-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P30904-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P97523-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P97523-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P97523-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P97523-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "Q08201-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q08201-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "Q08201-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "Q08201-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P43245-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P43245-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P43245-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P43245-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ], [ "P08661-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P08661-1", "GAG_1", "matrixdb:Heparin(short label)", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "pubmed:21454685", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "21454685", "glycan_xref_matrixdb", "GAG_1" ], [ "P08661-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "glycan_xref_matrixdb", "GAG_1", "glycan_xref_matrixdb", "GAG_1" ], [ "P08661-1", "GAG_1", "", "CHEBI:28304", "psi-mi:MI:0499(unspecified role)", "psi-mi:MI:0499(unspecified role)", "imex:IM-25784", "", "Glycosaminoglycan", "MatrixDB", "matrixdb:GAG_1", "protein_xref_pubmed", "IM-25784", "glycan_xref_matrixdb", "GAG_1" ] ] }, "readme": "Name\n - Rat Interaction data (MatrixDB)\n\nVersion\n - 1.8.25\n\nCreated on\n - 2020-02-10T14:05:00.767732\n\nModified on\n - 2020-05-01T15:23:47.281162\n\nCreated by\n - Rahi Navelkar [rsn13@gwu.edu], Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu]\n\nAuthors\n - Sylvie Ricard-Blum [sylvie.ricard-blum@univ-lyon1.fr]\n\nChecksum\n - \n\nUsability Domain\n - The Rat Interaction data (MatrixDB) dataset contains interaction data between Rat [taxid:10090] proteins and Glycosaminoglycans (GAGs) from MatrixDB database (http://matrixdb.univ-lyon1.fr/ ;PMID:19147664). If you use this dataset please provide proper attribution to MatrixDB and GlyGen.\n\nDescription Domain\n Keywords\n - protein-GAGs interaction\n - MatrixDB\n\n Pipeline Steps\n - Step-1: The tab file (matrixdb_CORE.tab (labeled as \u201cCore MatrixDB dataset as PSI-MI TAB 2.7 file\u201d) was downloaded directly from the MatrixDB database. Following rules were applied to extract specific data from the file. The rules were also verified by the author. 1)Rule 1: where column \"Alt. ID(s) interactor A\" has \"GAG\" AND column \"ID(s) interactor B\" has \"uniprotkb\" as prefixs. 2)Rule 2: where column \"Alt. ID(s) interactor B\" has \"GAG\" AND column \"#ID(s) interactor A\" has \"uniprotkb\" as prefixes. 3)for Rule 1: 3a) Add values from column \"Biological role(s) interactor A\" to new column \"gag_interactor_biological_role\". 3b)Add from column \"Biological role(s) interactor B\" to new column \"protein_interactor_biological_role\".3c)Add from column \"Publication Identifier(s)\" to new column \"evidence\". 4)for Rule 2: 4a)Add values from\"Biological role(s) interactor A\" to column \"protein_interactor_biological_role\". 4b)Add from \"Biological role(s) interactor B\" to column gag_interactor_biological_role\". 4c)Add from \"Publication Identifier(s)\" to column \"evidence\". 5) finally the UniProtKB accessions were mapped to UniProtKB canonical accessions based on the GlyGen protein master list (https://data.glygen.org/GLYDS000001).\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: matrixdb_CORE.csv\n URI: https://data.glygen.org/ln2wwwdata/source/matrixdb_CORE.csv\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_matrixdb.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_matrixdb.csv\n Name: rat_protein_matrixdb.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_matrixdb.stat.csv\n\nFields\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"119\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"119\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"120\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"49\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"118\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"117\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"115\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.8.25/reviewed/rat_protein_matrixdb.csv" }