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GenomePaint Splice Junction of a Cohort Example

Zhou Lab

Jan 4, 2022

< 1k

RNA Sequencing

This splice junction cohort shows the results of splicing reads for over 1740 samples for the TP53 gene. Canonical, alternative splicing are shown as well as unannotated cases. These splice types are also color coded. Each splice is denoted by a circle in proportion to the splice frequency and a number givving that frequency.

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runproteinpaint({
    host: "https://proteinpaint.stjude.org",
    holder: visualizationContainer[0],
    parseurl: true,
    nobox: 1,
    noheader: 1,
    block: 1,
    genome: "hg19",
    nativetracks: "Refgene",
    tracks: [
        {
            type: "mdsjunction",
            name: "Cohort splice junction Demo",
            file: "proteinpaint_demo/hg19/junction/json.gz"
        }
    ]
})

Visualization Code

runproteinpaint({
    host: "https://proteinpaint.stjude.org",
    holder: visualizationContainer[0],
    parseurl: true,
    nobox: 1,
    noheader: 1,
    block: 1,
    genome: "hg19",
    nativetracks: "Refgene",
    tracks: [
        {
            type: "mdsjunction",
            name: "Cohort splice junction Demo",
            file: "proteinpaint_demo/hg19/junction/json.gz"
        }
    ]
})

GenomePaint Splice Junction of a Cohort Example

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Visualization Code