{
    "bcoid": "GLY_000260",
    "title": "Rat UniProtKB Xref Reactome",
    "description": "The Rat UniProtKB Xref Reactome contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced ...",
    "filename": "rat_protein_xref_reactome.csv",
    "filetype": "csv",
    "categories": {
        "species": "Rattus norvegicus",
        "molecule": "Protein",
        "tags": "Reactome cross-references",
        "file_type": "csv",
        "status": "Reviewed",
        "scope": "internal"
    },
    "minitable": {
        "content": [
            [
                "D3ZB44-1...",
                "protein_xref..."
            ],
            [
                "Q0HA29-1...",
                "protein_xref..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "xref_key..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                },
                {
                    "type": "string",
                    "label": "xref_label"
                }
            ],
            [
                "D3ZB44-1",
                "protein_xref_reactome",
                "R-RNO-212436",
                "Generic Transcription Pathway"
            ],
            [
                "Q0HA29-1",
                "protein_xref_reactome",
                "R-RNO-196807",
                "Nicotinate metabolism"
            ],
            [
                "Q0HA29-1",
                "protein_xref_reactome",
                "R-RNO-196807",
                "Nicotinate metabolism"
            ],
            [
                "A0A0G2JVG6-1",
                "protein_xref_reactome",
                "R-RNO-212436",
                "Generic Transcription Pathway"
            ],
            [
                "P30938-1",
                "protein_xref_reactome",
                "R-RNO-375276",
                "Peptide ligand-binding receptors"
            ],
            [
                "P30938-1",
                "protein_xref_reactome",
                "R-RNO-418594",
                "G alpha (i) signalling events"
            ],
            [
                "Q07969-1",
                "protein_xref_reactome",
                "R-RNO-3000471",
                "Scavenging by Class B Receptors"
            ],
            [
                "Q07969-1",
                "protein_xref_reactome",
                "R-RNO-434313",
                "Intracellular metabolism of fatty acids regulates insulin secretion"
            ],
            [
                "Q07969-1",
                "protein_xref_reactome",
                "R-RNO-114608",
                "Platelet degranulation "
            ],
            [
                "Q07969-1",
                "protein_xref_reactome",
                "R-RNO-6798695",
                "Neutrophil degranulation"
            ],
            [
                "Q07969-1",
                "protein_xref_reactome",
                "R-RNO-5686938",
                "Regulation of TLR by endogenous ligand"
            ],
            [
                "A0A096MJY4-1",
                "protein_xref_reactome",
                "R-RNO-525793",
                "Myogenesis"
            ],
            [
                "A0A096MJY4-1",
                "protein_xref_reactome",
                "R-RNO-525793",
                "Myogenesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2024096",
                "HS-GAG degradation"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2022928",
                "HS-GAG biosynthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-2024096",
                "HS-GAG degradation"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-1971475",
                "A tetrasaccharide linker sequence is required for GAG synthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-1971475",
                "A tetrasaccharide linker sequence is required for GAG synthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-1971475",
                "A tetrasaccharide linker sequence is required for GAG synthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-1971475",
                "A tetrasaccharide linker sequence is required for GAG synthesis"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-975634",
                "Retinoid metabolism and transport"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-975634",
                "Retinoid metabolism and transport"
            ],
            [
                "A0A096MJY1-1",
                "protein_xref_reactome",
                "R-RNO-1971475",
                "A tetrasaccharide linker sequence is required for GAG synthesis"
            ],
            [
                "A0A096MJY2-1",
                "protein_xref_reactome",
                "R-RNO-2672351",
                "Stimuli-sensing channels"
            ],
            [
                "Q5RJK6-1",
                "protein_xref_reactome",
                "R-RNO-1855183",
                "Synthesis of IP2, IP, and Ins in the cytosol"
            ],
            [
                "Q5RJK6-1",
                "protein_xref_reactome",
                "R-RNO-1855183",
                "Synthesis of IP2, IP, and Ins in the cytosol"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-1247673",
                "Erythrocytes take up oxygen and release carbon dioxide"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-2168880",
                "Scavenging of heme from plasma"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-2168880",
                "Scavenging of heme from plasma"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-2168880",
                "Scavenging of heme from plasma"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-2168880",
                "Scavenging of heme from plasma"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-2168880",
                "Scavenging of heme from plasma"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-1237044",
                "Erythrocytes take up carbon dioxide and release oxygen"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-1237044",
                "Erythrocytes take up carbon dioxide and release oxygen"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-9707564",
                "Cytoprotection by HMOX1"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-9707564",
                "Cytoprotection by HMOX1"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-9707564",
                "Cytoprotection by HMOX1"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-9707616",
                "Heme signaling"
            ],
            [
                "P01946-1",
                "protein_xref_reactome",
                "R-RNO-9707616",
                "Heme signaling"
            ],
            [
                "O35152-1",
                "protein_xref_reactome",
                "R-RNO-6807878",
                "COPI-mediated anterograde transport"
            ],
            [
                "O35152-1",
                "protein_xref_reactome",
                "R-RNO-6807878",
                "COPI-mediated anterograde transport"
            ],
            [
                "O35152-1",
                "protein_xref_reactome",
                "R-RNO-6807878",
                "COPI-mediated anterograde transport"
            ],
            [
                "O35152-1",
                "protein_xref_reactome",
                "R-RNO-6811438",
                "Intra-Golgi traffic"
            ],
            [
                "O35152-1",
                "protein_xref_reactome",
                "R-RNO-6811438",
                "Intra-Golgi traffic"
            ],
            [
                "O35152-1",
                "protein_xref_reactome",
                "R-RNO-6811438",
                "Intra-Golgi traffic"
            ],
            [
                "P30936-1",
                "protein_xref_reactome",
                "R-RNO-5620922",
                "BBSome-mediated cargo-targeting to cilium"
            ],
            [
                "P30936-1",
                "protein_xref_reactome",
                "R-RNO-5620922",
                "BBSome-mediated cargo-targeting to cilium"
            ],
            [
                "P30936-1",
                "protein_xref_reactome",
                "R-RNO-375276",
                "Peptide ligand-binding receptors"
            ],
            [
                "P30936-1",
                "protein_xref_reactome",
                "R-RNO-418594",
                "G alpha (i) signalling events"
            ],
            [
                "O35158-1",
                "protein_xref_reactome",
                "R-RNO-525793",
                "Myogenesis"
            ],
            [
                "O35158-1",
                "protein_xref_reactome",
                "R-RNO-525793",
                "Myogenesis"
            ],
            [
                "O35158-1",
                "protein_xref_reactome",
                "R-RNO-525793",
                "Myogenesis"
            ],
            [
                "O35158-1",
                "protein_xref_reactome",
                "R-RNO-5632681",
                "Ligand-receptor interactions"
            ],
            [
                "O35158-1",
                "protein_xref_reactome",
                "R-RNO-5635838",
                "Activation of SMO"
            ],
            [
                "P02764-1",
                "protein_xref_reactome",
                "R-RNO-114608",
                "Platelet degranulation "
            ],
            [
                "P02764-1",
                "protein_xref_reactome",
                "R-RNO-6798695",
                "Neutrophil degranulation"
            ],
            [
                "P02764-1",
                "protein_xref_reactome",
                "R-RNO-6798695",
                "Neutrophil degranulation"
            ],
            [
                "P02764-1",
                "protein_xref_reactome",
                "R-RNO-6798695",
                "Neutrophil degranulation"
            ],
            [
                "P02767-1",
                "protein_xref_reactome",
                "R-RNO-2453902",
                "The canonical retinoid cycle in rods (twilight vision)"
            ],
            [
                "P02767-1",
                "protein_xref_reactome",
                "R-RNO-2453902",
                "The canonical retinoid cycle in rods (twilight vision)"
            ],
            [
                "P02767-1",
                "protein_xref_reactome",
                "R-RNO-3000171",
                "Non-integrin membrane-ECM interactions"
            ],
            [
                "P02767-1",
                "protein_xref_reactome",
                "R-RNO-975634",
                "Retinoid metabolism and transport"
            ],
            [
                "P02767-1",
                "protein_xref_reactome",
                "R-RNO-6798695",
                "Neutrophil degranulation"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-156827",
                "L13a-mediated translational silencing of Ceruloplasmin expression"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-1799339",
                "SRP-dependent cotranslational protein targeting to membrane"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-6791226",
                "Major pathway of rRNA processing in the nucleolus and cytosol"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-72689",
                "Formation of a pool of free 40S subunits"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-72706",
                "GTP hydrolysis and joining of the 60S ribosomal subunit"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-72706",
                "GTP hydrolysis and joining of the 60S ribosomal subunit"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-975956",
                "Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-975957",
                "Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-975957",
                "Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)"
            ],
            [
                "D4A4W9-1",
                "protein_xref_reactome",
                "R-RNO-975957",
                "Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)"
            ],
            [
                "F7EN52-1",
                "protein_xref_reactome",
                "R-RNO-193775",
                "Synthesis of bile acids and bile salts via 24-hydroxycholesterol"
            ]
        ]
    },
    "readme": "Name\n   - Rat UniProtKB Xref Reactome\n\nVersion\n   - 1.11.2\n\nCreated on\n  - 2019-09-06T14:06:38.987144\n\nModified on\n   - 2022-01-19T13:42:07.422923\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], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@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 UniProtKB Xref Reactome contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to Reactome database accessions/identifiers.  The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen. \n   - REACTOME is an open-source, open access, manually curated and peer-reviewed pathway database. \n\nDescription Domain\n   Keywords\n   - pathways\n   - reactions\n   - REACTOME\n   - cross-reference\n\n   Pipeline Steps\n   - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to REACTOME database accessions/identifiers from the triplestore containing triples from nt file and extracts the data as a csv dataset. \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: rat_protein_masterlist.csv\n      URI: https://data.glygen.org//ln2data/releases/data/v-1.11.2/reviewed/rat_protein_masterlist.csv\n      Name: uniprot-proteome-rattus-norvegicus.nt\n      URI: https://data.glygen.org//ln2downloads/ebi/2021_03/uniprot-proteome-rattus-norvegicus.nt\n   Output Subdomain\n      Name: rat_protein_xref_reactome.csv\n      URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_xref_reactome.csv\n      Name: rat_protein_xref_reactome.stat.csv\n      URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_xref_reactome.stat.csv",
    "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_xref_reactome.csv"
}