Overview

TumorMap is a tool that enables grouping samples based on their omic signatures in a visually accessible way. Similar to dimensionality reduction methods, Tumor Map method takes a high-dimensional omics space and produces a two dimensional visualization. Unlike most dimensionality reduction methods, the TumorMap method is able to combine multiple types of omics data (e.g. mRNA expression and methylation data types in a single map). Furthermore, TumorMap is an interactive tool that allows navigating through a tumor landscape that represents a heterogeneous multi-dimensional and multi-platform omic space of oncogenic signatures.

In the TumorMap, each node is a sample and clusters of samples indicate groups with similar oncogenic signatures and genomic alteration events. The samples in a map may be colored by various molecular, clinical, diagnostic, prognostic, and phenotypic annotations (e.g. tumor type, molecular subtype, etc.) to visualize associations with the data type used in clustering.

Terms used throughout the application and this document are:

node : the entity represented by a hexagon on the map

feature : a property of nodes used to lay out the map

attribute : a property of nodes used to color the map

You can now Get Started with our use cases to get you familiar with the TumorMap, check out the Basic Controls , or just dive in at https://tumormap.ucsc.edu.

Browser Support

You may need to disable pop-up blockers in your web browser because some of the functions open a new tab or open windows within your current tab.

Fully supported browsers include:

• Chrome v58 and later
• Firefox v53 and later

Other browsers and versions may work at a sub-optimal level.

Chrome is the preferred browser for performance.