germlines.data 3.64 KB
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germline_data = {
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    "TRA": {
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        "shortcut": "A",
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        "color" : "#268bd2",
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        "description": "Human T-cell receptor, alpha locus (14q11.2)",
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        "recombinations": [ {
            "5": ["TRAV.fa"],
            "3": ["TRAJ.fa"]
        } ],
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        "parameters": {
            "seed": "13s"
        }
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    },
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    "TRB": {
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        "shortcut": "B",
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        "color" : "#cb4b16",
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        "description": "Human T-cell receptor, beta locus (7q34)",
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        "recombinations": [ {
            "5": ["TRBV.fa"],
            "4": ["TRBD.fa"],
            "3": ["TRBJ.fa"]
        } ],
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        "parameters": {
            "seed": "12s"
        }
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    },
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    "TRG": {
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        "shortcut": "G",
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        "color" : "#dc322f",
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        "description": "Human T-cell receptor, gamma locus (7p14)",
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        "recombinations": [ {
            "5": ["TRGV.fa"],
            "3": ["TRGJ.fa"]
        } ],
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        "parameters": {
            "seed": "10s"
        }
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    },
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    "TRD": {
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        "shortcut": "D",
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        "color" : "#b58900",
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        "description": "Human T-cell receptor, delta locus (14q11.2)",
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        "recombinations": [ {
            "5": ["TRDV.fa"],
            "4": ["TRDD.fa"],
            "3": ["TRDJ.fa"]
        } ],
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        "parameters": {
            "seed": "10s"
        }
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    },
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    "TRA+D": {
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        "shortcut": "a",
        "color" : "#46abf2",
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        "description": "Human T-cell receptor, alpha/delta locus (14q11.2)",
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        "recombinations": [ {
            "5": ["TRDV.fa", "TRDD_upstream.fa"],
            "4": ["TRDD.fa"],
            "3": ["TRAJ.fa"]
        } ],
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        "parameters": {
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            "seed": "13s"
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        }
    },

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    "TRD+": {
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        "shortcut": "d",
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        "color" : "#d5a920",
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        "description": "Human T-cell receptor, delta locus (14q11.2), incomplete Dd2-Dd3 rearrangements",
        "follows": "TRD",
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        "recombinations": [ {
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            "5": ["TRDD2_upstream.fa"],
            "3": ["TRDJ.fa", "TRDD3_downstream.fa"]
        }, {
            "5": ["TRDD2_upstream.fa"],
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            "3": ["TRDJ.fa", "TRDD3_downstream.fa"]
        } ]
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    },
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    "IGH": {
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        "shortcut": "H",
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        "color" : "#6c71c4",
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        "description": "Human immunoglobulin, heavy locus (14q32.33)",
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        "recombinations": [ {
            "5": ["IGHV.fa"],
            "4": ["IGHD.fa"],
            "3": ["IGHJ.fa"]
        } ],
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        "parameters": {
            "seed": "12s"
        }
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    },
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    "IGH+": {
        "shortcut": "h",
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        "color" : "#8c91e4",
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        "description": "Human immunoglobulin, heavy locus (14q32.33), incomplete DH-JH rearrangements",
        "follows": "IGH",
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        "recombinations": [ {
            "5": ["IGHD_upstream.fa"],
            "3": ["IGHJ.fa"]
        } ],
        }
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    },
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    "IGK": {
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        "shortcut": "K",
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        "color" : "#2aa198",
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        "description": "Human immunoglobulin, kappa locus (2p11.2)",
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        "recombinations": [ {
            "5": ["IGKV.fa"],
            "3": ["IGKJ.fa"]
        } ],
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        "parameters": {
            "seed": "11s"
        }
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    },
    "IGK+": {
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        "shortcut": "k",
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        "color" : "#4ac1a8",
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        "description": "Human immunoglobulin, kappa locus (2p11.2), Vk-KDE and Intron-KDE rearrangements",
        "follows": "IGK",
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        "recombinations": [ {
            "5": ["IGKV.fa", "IGK-INTRON.fa"],
            "3": ["IGK-KDE.fa"]
        } ],
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    },
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    "IGL": {
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        "shortcut": "L",
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        "color" : "#d33682",
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        "description": "Human immunoglobulin, lambda locus (22q11.2)",
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        "recombinations": [ {
            "5": ["IGLV.fa"],
            "3": ["IGLJ.fa"]
        } ],
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        "parameters": {
            "seed": "11s"
        }
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    }
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}