{
    "bcoid": "GLY_000968",
    "title": "Chicken Pathways (Reactome)",
    "description": "The Chicken Pathways (Reactome) dataset contains Gallus gallus [taxid:9031] pathway information from ...",
    "filename_list": "chicken_protein_pathways_reactome.csv",
    "filename": "chicken_protein_pathways_reactome.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Gallus gallus"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Reactome Pathway"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "pathway/enzymes"
        ]
    },
    "minitable": {
        "content": [
            [
                "R-GGA-105968...",
                "Interleukin-..."
            ],
            [
                "R-GGA-109704...",
                "PI3K Cascade..."
            ]
        ],
        "headers": [
            "pathway_id...",
            "pathway_name..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "pathway_id"
                },
                {
                    "type": "string",
                    "label": "pathway_name"
                },
                {
                    "type": "string",
                    "label": "pathway_summary"
                },
                {
                    "type": "string",
                    "label": "reaction_id_list"
                }
            ],
            [
                "R-GGA-1059683",
                "Interleukin-6 signaling",
                "This event has been computationally inferred from an event that has been demonstrated in another species.<p>The inference is based on the homology mapping from PANTHER. Briefly, reactions for which all involved PhysicalEntities (in input, output and catalyst) have a mapped orthologue/paralogue (for complexes at least 75% of components must have a mapping) are inferred to the other species. High level events are also inferred for these events to allow for easier navigation.<p><a href='/electronic_inference_compara.html' target = 'NEW'>More details and caveats of the event inference in Reactome.</a> For details on PANTHER see also: <a href='http://www.pantherdb.org/about.jsp' target='NEW'>http://www.pantherdb.org/about.jsp</a>",
                "R-GGA-1067640,R-GGA-1067651,R-GGA-1067659,R-GGA-1067667,R-GGA-1067676,R-GGA-1067688,R-GGA-1112510,R-GGA-1112514,R-GGA-1112538,R-GGA-1112565,R-GGA-1112587,R-GGA-1112602,R-GGA-1112604,R-GGA-1112690,R-GGA-1112703,R-GGA-1112708,R-GGA-1112727,R-GGA-1112755,R-GGA-9681294"
            ],
            [
                "R-GGA-109704",
                "PI3K Cascade",
                "This event has been computationally inferred from an event that has been demonstrated in another species.<p>The inference is based on the homology mapping from PANTHER. Briefly, reactions for which all involved PhysicalEntities (in input, output and catalyst) have a mapped orthologue/paralogue (for complexes at least 75% of components must have a mapping) are inferred to the other species. High level events are also inferred for these events to allow for easier navigation.<p><a href='/electronic_inference_compara.html' target = 'NEW'>More details and caveats of the event inference in Reactome.</a> For details on PANTHER see also: <a href='http://www.pantherdb.org/about.jsp' target='NEW'>http://www.pantherdb.org/about.jsp</a>",
                "R-GGA-109699"
            ]
        ]
    },
    "readme": "Name\n   - Chicken Pathways (Reactome)\n\nVersion\n   - v-2.12.1\n\nModified on\n   - 2024-05-21T15:38:19.862Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu], Luke Johnson [luke.johnson@gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n   - \n\nChecksum\n   - \n\nUsability Domain\n   - The Chicken Pathways (Reactome) dataset contains Gallus gallus [taxid:9031] pathway information from Reactome database and mapped to the UniProtKB canonical accessions. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB, Reactome 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\n   Pipeline Steps\n   - Step-1: The script loads the Reactome Pathways for UniProtKB canonical accessions  from the triplestore containing triples from nt file and extracts the data as a csv dataset\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: uniprot-proteome-gallus-gallus.nt\n      URI: https:/data.glygen.org/ln2downloads/ebi/2026_06_13/uniprot-proteome-gallus-gallus.nt\n   Output Subdomain\n      Name: chicken_protein_pathways_reactome.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/chicken_protein_pathways_reactome.csv\n      Name: chicken_protein_pathways_reactome.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/chicken_protein_pathways_reactome.stat.csv\n\nFields\n      Name: \"pathway_id\"\"\n     Description: \"\"\n      Unique Values: \"1410\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/chicken_protein_pathways_reactome.csv"
}