{
    "bcoid": "GLY_000251",
    "title": "Rat Proteoform Citations (UniCarbKB)",
    "description": "The Rat Proteoform Citations (UniCarbKB) contains rat [taxid:10116] publication information of glycoproteins ...",
    "filename": "rat_proteoform_citations_glycosylation_unicarbkb.csv",
    "filetype": "csv",
    "categories": {
        "species": "Rattus norvegicus",
        "molecule": "Proteoform",
        "tags": "Protein Citations",
        "file_type": "csv",
        "status": "Reviewed",
        "scope": "internal"
    },
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        "content": [
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                "B2GV54-1...",
                "G09775CH..."
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                "G37135JQ..."
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                "Journal of proteome research",
                "2013 Dec 6",
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                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
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                "Journal of proteome research",
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                "",
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                "Biochemistry",
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                "Hoffman RC, Jennings LL, Tsigelny I, Comoletti D, Flynn RE, Sudhof TC, Taylor P",
                "protein_xref_pubmed",
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                "Journal of proteome research",
                "2013 Dec 6",
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                "Biochemistry",
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                "Itoh S, Hachisuka A, Kawasaki N, Hashii N, Teshima R, Hayakawa T, Kawanishi T, Yamaguchi T",
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                "Journal of proteome research",
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                "P97546-2",
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                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P97546"
            ],
            [
                "P01830-1",
                "G55220VL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P01830"
            ],
            [
                "P15127-1",
                "G37135JQ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P15127"
            ],
            [
                "P23576-1",
                "G80966KZ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
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                "P23576"
            ],
            [
                "P47820-1",
                "G09775CH",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P47820"
            ],
            [
                "P01830-1",
                "G62765YT",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P01830"
            ],
            [
                "F1MAN8-1",
                "G49018RC",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "F1MAN8"
            ],
            [
                "Q80Z70-1",
                "G62765YT",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q80Z70"
            ],
            [
                "D3ZE55-1",
                "G55220VL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "D3ZE55"
            ],
            [
                "P70627-1",
                "G30159WR",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P70627"
            ],
            [
                "Q62867-1",
                "G55220VL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q62867"
            ],
            [
                "Q63198-1",
                "G55220VL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q63198"
            ],
            [
                "Q5EB76-1",
                "G14548ZL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q5EB76"
            ],
            [
                "P15087-1",
                "G41247ZX",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P15087"
            ],
            [
                "Q63345-1",
                "G08293MJ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q63345"
            ],
            [
                "P15800-1",
                "G78059CC",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P15800"
            ],
            [
                "F1MAA7-1",
                "G31852PQ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "F1MAA7"
            ],
            [
                "P97829-1",
                "G50073PQ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P97829"
            ],
            [
                "P15800-1",
                "G11041DA",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P15800"
            ],
            [
                "Q1WIM2-1",
                "G88725PI",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q1WIM2"
            ],
            [
                "Q00959-1",
                "G88725PI",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q00959"
            ],
            [
                "P19492-1",
                "G37135JQ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P19492"
            ],
            [
                "P35439-1",
                "G14548ZL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P35439"
            ],
            [
                "D4A435-1",
                "G48975GN",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "D4A435"
            ],
            [
                "D3ZES7-1",
                "G55220VL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "D3ZES7"
            ],
            [
                "D4A416-1",
                "G80966KZ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "D4A416"
            ],
            [
                "Q62813-1",
                "G42081JA",
                "Glycosylation analysis of IgLON family proteins in rat brain by liquid chromatography and multiple-stage mass spectrometry.",
                "Biochemistry",
                "2008 Sep 23",
                "Itoh S, Hachisuka A, Kawasaki N, Hashii N, Teshima R, Hayakawa T, Kawanishi T, Yamaguchi T",
                "protein_xref_pubmed",
                "18729387",
                "protein_xref_unicarbkb",
                "Q62813"
            ],
            [
                "Q63617-1",
                "G41247ZX",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q63617"
            ],
            [
                "G3V928-1",
                "G55220VL",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "G3V928"
            ],
            [
                "Q9JK00-1",
                "G37135JQ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q9JK00"
            ],
            [
                "P07340-1",
                "G60230HH",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P07340"
            ],
            [
                "P97710-1",
                "G62765YT",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P97710"
            ],
            [
                "Q68FQ2-1",
                "G82942ZJ",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q68FQ2"
            ],
            [
                "Q05695-1",
                "G19379ID",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "Q05695"
            ],
            [
                "P15800-1",
                "G02815KT",
                "Site-specific glycan-peptide analysis for determination of N-glycoproteome heterogeneity.",
                "Journal of proteome research",
                "2013 Dec 6",
                "Parker BL, Thaysen-Andersen M, Solis N, Scott NE, Larsen MR, Graham ME, Packer NH, Cordwell SJ",
                "protein_xref_pubmed",
                "24090084",
                "protein_xref_unicarbkb",
                "P15800"
            ]
        ]
    },
    "readme": "Name\n   - Rat Proteoform Citations (UniCarbKB)\n\nVersion\n   - 1.11.2\n\nCreated on\n  - 2019-09-06T14:06:38.978102\n\nModified on\n   - 2022-01-19T13:18:49.172280\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   - Not Applicable []\n\nChecksum\n   - \n\nUsability Domain\n   - The Rat Proteoform Citations (UniCarbKB) contains rat [taxid:10116] publication information of glycoproteins from UniCarbKB. The script accesses the NCBI ENTREZ infrastructure to retrieve the publication information of the given PMID from UniCarbKB. The dataset is contributed by UniCarbKB and processed by GlyGen. If you use this dataset please provide proper attribution to UniCarbKB and GlyGen [UniCarbKB - https://academic.oup.com/nar/article/42/D1/D215/1052197 ,https://doi.org/10.1093/nar/gkt1128]. \n\nDescription Domain\n   Keywords\n   - PMID\n   - journal\n   - citations\n   - authors\n   - UniCarbKB\n   - PubMed\n\n   Pipeline Steps\n   - Step-1: The script parses the input file for PMIDs and accesses the NCBI Entrez infrastructure to download the publication information of the corresponding PMIDs. \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: rat_proteoform_glycosylation_sites_unicarbkb.csv\n      URI: https://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/rat_proteoform_glycosylation_sites_unicarbkb.csv\n   Output Subdomain\n      Name: rat_proteoform_citations_glycosylation_unicarbkb.csv\n      URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/rat_proteoform_citations_unicarbkb.csv\n      Name: rat_proteoform_citations_unicarbkb.stat.csv\n      URI: http://data.glygen.org/ln2data/releases/data/v-1.11.2/reviewed/rat_proteoform_citations_unicarbkb.stat.csv\n\nFields\n      Name: \"reaction_id\"\n     Description: \"The identifier assigned to a reaction in Reactome database\"\n      Unique Values: \"4632\"\n      Name: \"reaction_name\"\n     Description: \"The name assigned to a reaction in Reactome database\"\n      Unique Values: \"1\"\n      Name: \"equation\"\n     Description: \"\"\n      Unique Values: \"4632\"\n      Name: \"reaction_summary\"\n     Description: \"\"\n      Unique Values: \"1\"\n      Name: \"pathway_id\"\n     Description: \"Pathway Identifier\"\n      Unique Values: \"1\"\n      Name: \"cellular_location\"\n     Description: \"The loaction in the cell where reaction occurs\"\n      Unique Values: \"1\"\n      Name: \"pmid\"\n     Description: \"NCBI PubMed database Identifier\"\n      Unique Values: \"1\"",
    "downloadurl": "/ln2data/releases/data/v-1.11.2/reviewed/rat_proteoform_citations_glycosylation_unicarbkb.csv"
}