Caleydo: Connecting Pathways with Gene Expression



Summary: Understanding the relationships between pathways and the altered expression of their components in disease conditions can be addressed in a visual data analysis process. Caleydo uses novel visualization techniques to support life science experts in their analysis of gene expression data in the context of pathways and functions of individual genes. Pathways and gene expression visualizations are placed in a 3D scene where selected entities (i.e. genes) are visually connected. This allows Caleydo to seamlessly integrate interactive gene expression visualization with cross-database pathway exploration.

Availability: The Caleydo visualization framework is freely available on for non-commercial use. It runs on Windows and Linux and requires a 3D capable graphics card.


Marc Streit, Alexander Lex, Michael Kalkusch, Kurt Zatloukal, Dieter Schmalstieg
Caleydo: Connecting Pathways with Gene Expression
Bioinformatics, 25(20): 2760--2761, doi:10.1093/bioinformatics/btp432, 2009.


    title = {Caleydo: Connecting Pathways with Gene Expression },
    author = {Marc Streit and Alexander Lex and Michael Kalkusch and Kurt Zatloukal and Dieter Schmalstieg},
    journal = {Bioinformatics},
    doi = {10.1093/bioinformatics/btp432},
    volume = {25},
    number = {20},
    pages = {2760--2761},
    year = {2009}