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Proteinpaint

ProteinPaint it's a public web service at https://proteinpaint.stjude.org/. It was initially designed to visualize cancer coding mutations (Nature Genetics 2016), and later expanded to support more genomic data types from cancer (Cancer Cell 2021). At the core it is a genome browser to run different tracks on, and visualize diverse types of molecular and omics data at a genomic locus. Lately we're also focusing on population science, implementing data dictionaries, sample filtering, and biostatistics analysis, in the Clinical data browser. And we also developed the ProteinPaint BAM track for read alignment visualization and variant genotyping

Customer References

Installation: installation documentation for customers

Build: how to obtain or build Proteinpaint as a Docker image

• Option A: Pull a Prebuilt Image (Recommended)
• Option B: Use NPM
• Option C: Build from Source

Embed protein paint in your website

Protein Paint URL Parameters

Tutorials

• Genome Paint
• All Tutorials
• The Lollipop Variant Viewer
• ProteinPaint BAM track tutorial

Plots

• Scatter Plot
• Summary Plot
• Matrix
• Survival Plot
• Violin Plot

Data

• Organizing data into a study
• Term Data
• Single Cell dataset JSON
• ProteinPaint JSON-BED track format
• The Profile-Gene-Value track (PGV)

Posters

• Survivorship portal poster for KIDS2023