Gene expression data preprocessing

J Herrero; R Díaz-Uriarte; J Dopazo

doi:10.1093/bioinformatics/btg040

Gene expression data preprocessing

Bioinformatics. 2003 Mar 22;19(5):655-6. doi: 10.1093/bioinformatics/btg040.

Authors

J Herrero¹, R Díaz-Uriarte, J Dopazo

Affiliation

¹ Unidad de Bioinformática, Centro Nacional de Investigaciones Oncológicas (CNIO), Melchor Fernández Almagro, 3 28029 Madrid, Spain.

PMID: 12651726
DOI: 10.1093/bioinformatics/btg040

Abstract

We present an interactive web tool for preprocessing microarray gene expression data. It analyses the data, suggests the most appropriate transformations and proceeds with them after user agreement. The normal preprocessing steps include scale transformations, management of missing values, replicate handling, flat pattern filtering and pattern standardization and they are required before performing any pattern analysis. The processed data set can be sent to other pattern analysis tools.

MeSH terms

Database Management Systems*
Gene Expression Profiling / methods*
Information Storage and Retrieval / methods
Internet
Oligonucleotide Array Sequence Analysis / methods*
Sequence Alignment / methods*
Sequence Analysis, DNA / methods*
Software*
User-Computer Interface*