{
    "bcoid": "GLY_000385",
    "title": "HCV1b Phosphorylation Sites (UniProtKB)",
    "description": "The Hepatitis C virus (genotype 1b, isolate Japanese) Phosphorylation Sites (UniProtKB) dataset contains ...",
    "filename": "hcv1b_proteoform_phosphorylation_sites_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": "Hepatitis C virus (genotype 1b, isolate Japanese)",
        "molecule": "Proteoform",
        "tags": "Phosphorylation Sites",
        "file_type": "csv",
        "status": "Reviewed",
        "scope": "internal"
    },
    "minitable": {
        "content": [
            [
                "P26662-1...",
                "..."
            ],
            [
                "P26662-1...",
                "..."
            ]
        ],
        "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": "phosphorylated_residue"
                },
                {
                    "type": "string",
                    "label": "amino_acid"
                },
                {
                    "type": "string",
                    "label": "phosphorylation_site_uniprotkb"
                },
                {
                    "type": "string",
                    "label": "phosphorylation_annotation"
                },
                {
                    "type": "string",
                    "label": "data_source"
                },
                {
                    "type": "string",
                    "label": "evidence"
                },
                {
                    "type": "string",
                    "label": "eco_id"
                }
            ],
            [
                "P26662-1",
                "",
                "Phosphoserine",
                "Ser",
                "116",
                "Phosphoserine; by host PKA",
                "",
                "",
                ""
            ],
            [
                "P26662-1",
                "",
                "Phosphoserine",
                "Ser",
                "2204",
                "Phosphoserine; by host; in p58",
                "",
                "",
                ""
            ],
            [
                "P26662-1",
                "",
                "Phosphoserine",
                "Ser",
                "2197",
                "Phosphoserine; by host; in p58",
                "",
                "",
                ""
            ],
            [
                "P26662-1",
                "",
                "Phosphoserine",
                "Ser",
                "99",
                "Phosphoserine; by host",
                "",
                "",
                ""
            ],
            [
                "P26662-1",
                "",
                "Phosphoserine",
                "Ser",
                "53",
                "Phosphoserine; by host",
                "",
                "",
                ""
            ],
            [
                "P26662-1",
                "",
                "Phosphoserine",
                "Ser",
                "2201",
                "Phosphoserine; by host; in p58",
                "",
                "",
                ""
            ],
            [
                "P26662-1",
                "",
                "Phosphoserine",
                "Ser",
                "2194",
                "Phosphoserine; by host; in p56",
                "",
                "",
                ""
            ]
        ]
    },
    "readme": "Name\n   - HCV1b Phosphorylation Sites (UniProtKB)\n\nVersion\n   - 1.5.18\n\nCreated on\n  - 2020-03-15T12:31:46.752443\n\nModified on\n   - 2020-04-09T18:15:03.519557\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@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 Hepatitis C virus (genotype 1b, isolate Japanese) Phosphorylation Sites (UniProtKB) dataset contains hcv1b [taxid:11116] UniProtKB canonical accessions with information on reported and predicted phosphoryation sites with evidence in UniProtKB 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   - phosphoryation Sites\n   - ptm processing\n   - UniProtKB\n\n   Pipeline Steps\n   - Step-1: The script loads the phosphorylation information from the triplestore conatining triples from the nt file and extracts as a csv dataset\n\nExecution Domain\n   Scripts   - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-proteoform-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-hepatitis-c-virus-1b.nt\n      URI: https://data.glygen.org/ln2data/releases/data/v-1.5.18/source/uniprot-proteome-hepatitis-c-virus-1b.nt\n      Name: hcv1b_protein_masterlist.csv\n      URI: https://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/hcv1b_protein_masterlist.csv\n   Output Subdomain\n      Name: hcv1b_proteoform_phosphorylation_sites_uniprotkb.csv\n      URI: http://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/hcv1b_proteoform_phosphorylation_sites_uniprotkb.csv\n      Name: hcv1b_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n      URI: http://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/hcv1b_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n      Unique Values: \"1\"\n      Name: \"data_source\"\n     Description: \"The source database for the data\"\n      Unique Values: \"1\"\n      Name: \"phosphorylation_site_uniprotkb\"\n     Description: \"Site on the protein sequence of the UniProtKB entry where phosphorylation is observed\"\n      Unique Values: \"7\"\n      Name: \"phosphorylation_annotation\"\n     Description: \"The phosphorylation annotation in UniProtKB that provides more context and description of a phosphorylation event on a protein.\"\n      Unique Values: \"4\"\n      Name: \"phosphorylated_residue\"\n     Description: \"The amino acid that is modified by phosphorylation\"\n      Unique Values: \"1\"\n      Name: \"amino_acid\"\n     Description: \"Three letter abbreviation code of the amino acid\"\n      Unique Values: \"1\"\n      Name: \"evidence\"\n     Description: \"NCBI PubMed Id (PMID) as evidence for the entry/annotation\"\n      Unique Values: \"1\"\n      Name: \"gene_symbol\"\n     Description: \"Official gene name/symbol assigned to the gene. Human gene names/symbols are approved by the HUGO Gene Nomenclature Committee (HGNC)\n      Unique Values: \"1\"\n      Name: \"eco_id\"\n     Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n      Unique Values: \"1\"",
    "downloadurl": "/ln2data/releases/data/v-1.5.18/reviewed/hcv1b_proteoform_phosphorylation_sites_uniprotkb.csv"
}