HAMSTER: visualizing microarray experiments as a set of minimum spanning trees.

ABSTRACT:

Background

Visualization tools allow researchers to obtain a global view of the interrelationships between the probes or experiments of a gene expression (e.g. microarray) data set. Some existing methods include hierarchical clustering and k-means. In recent years, others have proposed applying minimum spanning trees (MST) for microarray clustering. Although MST-based clustering is formally equivalent to the dendrograms produced by hierarchical clustering under certain conditions; visually they can be quite different.

Methods

HAMSTER (Helpful Abstraction using Minimum Spanning Trees for Expression Relations) is an open source system for generating a set of MSTs from the experiments of a microarray data set. While previous works have generated a single MST from a data set for

SUBMITTER: Wan R 

PROVIDER: S-EPMC2784758 | biostudies-literature | 2009 Nov

REPOSITORIES: biostudies-literature