Tumor Map
Overview
Tumor Map is a web-based visualization and analysis tool developed at UCSC that projects multi-platform cancer genomic data onto a two-dimensional layout using dimensionality-reduction techniques (such as t-SNE or similar neighborhood-embedding methods). Samples from different tumor types or subtypes are arranged so that molecularly similar samples cluster together, enabling pan-cancer visualization and discovery of unexpected cross-cancer molecular similarities. The tool supports overlay of clinical, genomic, and expression features on the map.
Used by
- Used for co-clustering and pan-cancer visualization of 1,122 TCGA diffuse glioma samples alongside other tumor types, enabling identification of molecular neighbors and cross-subtype relationships as part of the TCGA pan-glioma integrative analysis PMID:26824661
Notes
- Originally developed at UCSC as part of the TCGA pan-cancer initiative.
- Supports overlay of genomic features (mutation, CNA, expression, methylation) on the map.
- Used to discover unexpected sample clusters that cross histologic or anatomic classification boundaries.
- Interactive web interface allows user-defined feature overlays and subtype annotation.
Sources
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