GEPAS: a web-based resource for microarray gene expression data analysis
- 1 July 2003
- journal article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 31 (13) , 3461-3467
- https://doi.org/10.1093/nar/gkg591
Abstract
We present a web-based pipeline for microarray gene expression profile analysis, GEPAS, which stands for Gene Expression Profile Analysis Suite (http://gepas.bioinfo.cnio.es). GEPAS is composed of different interconnected modules which include tools for data pre-processing, two-conditions comparison, unsupervised and supervised clustering (which include some of the most popular methods as well as home made algorithms) and several tests for differential gene expression among different classes, continuous variables or survival analysis. A multiple purpose tool for data mining, based on Gene Ontology, is also linked to the tools, which constitutes a very convenient way of analysing clustering results. On-line tutorials are available from our main web server (http://bioinfo.cnio.es).Keywords
This publication has 18 references indexed in Scilit:
- Gene expression data preprocessingBioinformatics, 2003
- Microarray databases: standards and ontologiesNature Genetics, 2002
- Identification of Genes Involved in Resistance to Interferon-α in Cutaneous T-Cell LymphomaThe American Journal of Pathology, 2002
- Combining Hierarchical Clustering and Self-Organizing Maps for Exploratory Analysis of Gene Expression PatternsJournal of Proteome Research, 2002
- Gene expression data analysisFEBS Letters, 2000
- Gene Ontology: tool for the unification of biologyNature Genetics, 2000
- Distinctive gene expression patterns in human mammary epithelial cells and breast cancersProceedings of the National Academy of Sciences, 1999
- Phylogenetic Reconstruction Using an Unsupervised Growing Neural Network That Adopts the Topology of a Phylogenetic TreeJournal of Molecular Evolution, 1997
- Expression monitoring by hybridization to high-density oligonucleotide arraysNature Biotechnology, 1996
- Parallel human genome analysis: microarray-based expression monitoring of 1000 genes.Proceedings of the National Academy of Sciences, 1996