Data Analysis
Processed data are made available on some of the most well-known applications. This brings data to a bigger stage for collaboration, analysis, and more impactful data sharing. The data can be distributed on multiple apps specialized for the data type, and the Gray Foundation Portal will be the entrypoint for all of these.
MSKCC can also work on development or customizations of apps/tools for a particular data type if needed. However, not all data may be available for analysis -- whether data is "elevated" to an analysis appp depends prioritization and suitability.
Below, we provide more details on analysis apps and which data types are targeted for them.
| Data Type | Analysis App |
|---|---|
| Copy Number Variation (CNV) | cbioportal |
| Summarized Gene Expression (RNA-seq) | cbioportal |
| Mutations | cbioportal |
| Single Cell RNA Sequencing Data | CellXGene |
| CyCIF Imaging Data | Minerva Viewer |
External Viewers
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cBioPortal for Cancer Genomics was originally developed at Memorial Sloan Kettering Cancer Center (MSK) for sharing genomic data. We provide a custom instance for the Gray Foundation. Sage and MSK teams will assist in the transfer of data to cBioportal. Refer to the workflow here.
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CELLxGENE ("cell-by-gene") is an interactive data explorer specifically designed for analyzing single-cell datasets. (TO DO: Link to workflow.)