Genesis: cluster analysis of microarray data | Zendy

Alexander Sturn | Zendy; John Quackenbush | Zendy; Zlatko Trajanoski | Zendy

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Genesis: cluster analysis of microarray data

Author(s) -

Alexander Sturn,

John Quackenbush,

Zlatko Trajanoski

Publication year - 2002

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/18.1.207

Subject(s) - cluster analysis , normalization (sociology) , hierarchical clustering , computer science , data mining , principal component analysis , visualization , java , microarray analysis techniques , suite , microarray databases , clustering high dimensional data , gene chip analysis , dna microarray , artificial intelligence , biology , gene , gene expression , genetics , history , archaeology , sociology , anthropology , programming language

A versatile, platform independent and easy to use Java suite for large-scale gene expression analysis was developed. Genesis integrates various tools for microarray data analysis such as filters, normalization and visualization tools, distance measures as well as common clustering algorithms including hierarchical clustering, self-organizing maps, k-means, principal component analysis, and support vector machines. The results of the clustering are transparent across all implemented methods and enable the analysis of the outcome of different algorithms and parameters. Additionally, mapping of gene expression data onto chromosomal sequences was implemented to enhance promoter analysis and investigation of transcriptional control mechanisms.

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