{
    "bcoid": "GLY_001078",
    "title": "Arabidopsis Protein Site Annotation",
    "description": "The Arabidopsis Protein Site Annotation (UniProtKB) dataset contains arabidopsis [taxid:3702] site annotations ...",
    "filename_list": "arabidopsis_protein_site_annotation_uniprotkb.csv",
    "filename": "arabidopsis_protein_site_annotation_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Arabidopsis thaliana"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "site annotation"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "annotation"
        ]
    },
    "minitable": {
        "content": [
            [
                "O48726-1...",
                "RPN13..."
            ],
            [
                "O48726-1...",
                "RPN13..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "gene_symbol..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "gene_symbol"
                },
                {
                    "type": "string",
                    "label": "ann_type"
                },
                {
                    "type": "string",
                    "label": "start_pos"
                },
                {
                    "type": "string",
                    "label": "end_pos"
                },
                {
                    "type": "string",
                    "label": "annotation"
                },
                {
                    "type": "string",
                    "label": "ecoid"
                },
                {
                    "type": "string",
                    "label": "ref_aa"
                },
                {
                    "type": "string",
                    "label": "alt_aa"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                }
            ],
            [
                "O48726-1",
                "RPN13",
                "Mutagenesis_Annotation",
                "88",
                "88",
                "Abolishes interaction with 'Lys-63'-linked polyubiquitin chains and interaction with DSK2A.",
                "ECO_0000269",
                "F",
                "R",
                "protein_xref_uniprotkb",
                "O48726"
            ],
            [
                "O48726-1",
                "RPN13",
                "Mutagenesis_Annotation",
                "88",
                "88",
                "Abolishes interaction with 'Lys-63'-linked polyubiquitin chains and interaction with DSK2A.",
                "ECO_0000269",
                "F",
                "R",
                "protein_xref_pubmed",
                "20059542"
            ]
        ]
    },
    "readme": "Name\n   - Arabidopsis Protein Site Annotation\n\nVersion\n   - v-2.12.1\n\nModified on\n   - 2024-07-25T19:43:01.993Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Kate Warner [k.warner1@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 Arabidopsis Protein Site Annotation (UniProtKB) dataset contains arabidopsis [taxid:3702] site annotations for UniProtKB canonical accessions. The dataset contains information about UniProtKB annotations with their amino acid range.  If you use this dataset please give proper attribution to UniProtKB and GlyGen\n\nDescription Domain\n   Keywords\n   - site annotation\n   - amino acid range\n   - UniProtKB\n\n   Pipeline Steps\n   - Step-1: The script extracts the site annotation triples from the triplestore for the UniProtKB canonical sequnces asnd extracts as a dataset in a csv format\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: all_blacklisted_pmids.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/compiled/all_blacklisted_pmids.csv\n      Name: arabidopsis_protein_masterlist.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/arabidopsis_protein_masterlist.csv\n      Name: uniprot-proteome-arabidopsis-thaliana.nt\n      URI: https:/data.glygen.org/ln2downloads/ebi/2026_06_13/uniprot-proteome-arabidopsis-thaliana.nt\n   Output Subdomain\n      Name: arabidopsis_protein_site_annotation_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/arabidopsis_protein_site_annotation_uniprotkb.csv\n      Name: arabidopsis_protein_site_annotation_uniprotkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/arabidopsis_protein_site_annotation_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"7489\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/arabidopsis_protein_site_annotation_uniprotkb.csv"
}