{
    "bcoid": "GLY_000320",
    "title": "Human Protein Reactions (Reactome)",
    "description": "The Human Protein Reactions (Reactome) dataset contains reactions information for pathways for human ...",
    "filename": "human_protein_reactions_reactome.csv",
    "filetype": "csv",
    "categories": {
        "species": "Homo sapiens",
        "molecule": "Protein",
        "tags": "Reactions Reactome",
        "file_type": "csv",
        "status": "Reviewed",
        "scope": "internal"
    },
    "minitable": {
        "content": [
            [
                "R-HSA-903161...",
                "p-S133 CREB1..."
            ],
            [
                "R-HSA-903161...",
                "p-S133 CREB1..."
            ]
        ],
        "headers": [
            "reaction_id...",
            "reaction_nam..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "reaction_id"
                },
                {
                    "type": "string",
                    "label": "reaction_name"
                },
                {
                    "type": "string",
                    "label": "cellular_location"
                },
                {
                    "type": "string",
                    "label": "pmid"
                },
                {
                    "type": "string",
                    "label": "pathway_id"
                }
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
                "extracellular region",
                "19116276",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
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                " 19193899",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
                "extracellular region",
                " 29559111",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
                "extracellular region",
                " 15880109",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
                "extracellular region",
                " 16484497",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
                "extracellular region",
                " 21057636",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
                "extracellular region",
                " 7923378",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9031610",
                "p-S133 CREB1, MEF2D and SRF  bind the ARC gene",
                "extracellular region",
                " 9390517",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612073",
                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                "7624335",
                "R-HSA-9031628"
            ],
            [
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                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                " 21326363",
                "R-HSA-9031628"
            ],
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                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
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                "R-HSA-9612073",
                "NGF- and MAPK-dependent EGR1, EGR2 and EGR4 expression",
                "extracellular region",
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            ],
            [
                "R-HSA-9612076",
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                "extracellular region",
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                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
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                "R-HSA-9031628"
            ],
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                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
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                "R-HSA-9031628"
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                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
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                "R-HSA-9031628"
            ],
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                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
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                " 15542842",
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            ],
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                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
                "extracellular region",
                " 1833716",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
                "extracellular region",
                " 2040600",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
                "extracellular region",
                " 21326363",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
                "extracellular region",
                " 28286024",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
                "extracellular region",
                " 7823924",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612076",
                "p-4S, T366 ELK1:SRF bind EGR1 and EGR2 gene promoters",
                "extracellular region",
                " 8483478",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612509",
                "SGK phosphorylates SRF",
                "extracellular region",
                "15733869",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612509",
                "SGK phosphorylates SRF",
                "extracellular region",
                " 18088355",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612509",
                "SGK phosphorylates SRF",
                "extracellular region",
                " 22053691",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
                "15733869",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
                " 9770464",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
                " 7551568",
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            ],
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                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
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                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
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                " 15449318",
                "R-HSA-9031628"
            ],
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                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
                " 15542842",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
                " 1833716",
                "R-HSA-9031628"
            ],
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                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
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                "R-HSA-9031628"
            ],
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                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
                " 28286024",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9612514",
                "p-S133 CREB and p-S103 SRF bind the EGR1 promoter",
                "extracellular region",
                " 7823924",
                "R-HSA-9031628"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                "27791178",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 14966563",
                "R-HSA-9648002"
            ],
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                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 22195972",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 12750467",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 14660603",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 15659645",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 18502828",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 20622895",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 26706195",
                "R-HSA-9648002"
            ],
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                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 28167504",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 29311131",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647977",
                "ICMT methylates S-Farn RAS proteins",
                "extracellular region",
                " 21779505",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647978",
                "pro-RAS proteins are farnesylated",
                "extracellular region",
                "15451670",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647978",
                "pro-RAS proteins are farnesylated",
                "extracellular region",
                " 27791178",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647978",
                "pro-RAS proteins are farnesylated",
                "extracellular region",
                " 2682646",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647978",
                "pro-RAS proteins are farnesylated",
                "extracellular region",
                " 29311131",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647980",
                "mature RAS proteins translocate to plasma membrane",
                "extracellular region",
                "21779505",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647994",
                "RAS proteins are depalmitoylated",
                "extracellular region",
                "16000296",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647994",
                "RAS proteins are depalmitoylated",
                "extracellular region",
                " 2661017",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647994",
                "RAS proteins are depalmitoylated",
                "extracellular region",
                " 20418879",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647994",
                "RAS proteins are depalmitoylated",
                "extracellular region",
                " 26701913",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647994",
                "RAS proteins are depalmitoylated",
                "extracellular region",
                " 28630138",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647994",
                "RAS proteins are depalmitoylated",
                "extracellular region",
                " 29311131",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647994",
                "RAS proteins are depalmitoylated",
                "extracellular region",
                " 21779505",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                "10085068",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 11038283",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 19188362",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 10085069",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 10667208",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 11739732",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 12433685",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 15659645",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 29311131",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 29424242",
                "R-HSA-9648002"
            ],
            [
                "R-HSA-9647999",
                "RCE1 cleaves S-Farn proRAS proteins",
                "extracellular region",
                " 9851253",
                "R-HSA-9648002"
            ]
        ]
    },
    "readme": "Name\n   - Human Protein Reactions (Reactome)\n\nVersion\n   - 1.8.25\n\nCreated on\n  - 2019-11-30T15:06:36.890527\n\nModified on\n   - 2020-04-11T11:29:06.501899\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 Human Protein Reactions (Reactome) dataset contains reactions information for pathways for human [taxid:9606] UniProtKB accessions that includes reaction participants, pathway ID, reaction ID, PMID etc from Reactome database. 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\nDescription Domain\n   Keywords\n   - Reactome\n   - Pathway\n   - Reactions\n   - PMID\n\n   Pipeline Steps\n   - Step-1: The script loads the Reactome reaction data from the triplestore containing triples from nt file to retrieve the information associated with the Reactome IDs and maps it to the UniProtKB canonical accessions and extracts the dataset in the 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-homo-sapiens.nt\n      URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-homo-sapiens.nt\n      Name: human_protein_masterlist.csv\n      URI: https://data.glygen.org/ln2wwwdata/reviewed/human_protein_masterlist.csv\n   Output Subdomain\n      Name: human_protein_reactions_reactome.csv\n      URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_reactions_reactome.csv\n      Name: human_protein_reactions_reactome.stat.csv\n      URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_reactions_reactome.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/human_protein_reactions_reactome.csv"
}