Load Data from the cBioPortal to GenomeSpace
1. Launch the cBioPortal from GenomeSpace.
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Click the cBioPortal icon in the toolbar to launch the cBioPortal.
2. Download data from cBioPortal and send it to GenomeSpace.
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Locate downloadable data by clicking on the "Download Data" tab in cBioPortal. To download data, change the following parameters:
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Select Cancer Study: select from the drop-down menu the study of your choice, e.g. glioblastoma tumor samples.
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Select Genomic Profiles: select the datasets that you are interested in, e.g. gene expression data (mRNA expression).
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Select Patient/Case Set: select the set of samples you are interested in, e.g. only samples with mRNA expression data.
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Enter Gene Set: enter a gene set of interest one of the following ways:
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Choose a pre-compiled gene list of interest from the drop-down menu.
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Enter a custom gene list of interest in the text box.
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Click the Send to GenomeSpace icon.
3. Save the data to GenomeSpace.
A pop-up window will appear, allowing you to save the compiled dataset to GenomeSpace.
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Optional: Choose a specific directory to save the data to, by navigating through the directory tree.
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Choose a name for the file, or use the filename automatically generated by the cBioPortal.
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Click the
Submit button to upload the data to GenomeSpace.
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