Massimo Cencini1,2, Luigi Palatella1,3 , Simone Pigolotti4,5 and Angelo Vulpiani6 INFM-CNR, SMC Dipartimento di Fisica, Università di Roma “La Sapienza”, Piazzale A. Moro 2, I-00185 Roma, Italy ISC-CNR Via dei Taurini 19, I-00185 Roma, Italy 3 Istituto di Scienze dell’Atmosfera e del Clima del CNR, Str. Provinciale Lecce-Monteroni km. 1,200, I-73100, Lecce, Italy Instituto de Fisica Interdiscip...

Microarray has become a popular biotechnology in biological and medical research. However, systematic and stochastic variabilities in microarray data are expected and unavoidable, resulting in the problem that the raw measurements have inherent "noise" within microarray experiments. Currently, logarithmic ratios are usually analyzed by various clustering methods directly, which may introduce bi...

Introduction Microarray technology provides a powerful tool for large-scale gene expression measurements. Typical application areas include genomics research, quantitative systems biology, and the more traditional screening for candidate genes. Microarray data are the end product of a fairly intricate experimental process, and adequate analysis must meet the challenge of separating true biologi...

We describe the design, construction, and operation of a hyperspectral microarray scanner for functional genomic research. The hyperspectral instrument operates with spatial resolutions ranging from 3 to 30 microm and records the emission spectrum between 490 and 900 nm with a spectral resolution of 3 nm for each pixel of the microarray. This spectral information, when coupled with multivariate...

Microarray technologies introduced the ability to monitor gene expression for tens of thousands of genes in different conditions. This relatively new tool has transformed genomic research because of the quantity of data that can be collected. However, the amount of data available from microarray data sets is huge and the development of useful tools for its analysis has become one of the major c...

The use of DNA microarrays for the analysis of complex biological samples is becoming a mainstream part of biomedical research. One of the most commonly used methods compares the relative abundance of mRNA in two different samples by probing a single DNA microarray simultaneously. The simplicity of this concept sometimes masks the complexity of capturing and processing microarray data. On the b...

DNA microarray is a high-throughput biomedical technology that monitors gene expression for thousands of genes in parallel. The abundance and complexity of the gene expression data have given rise to a requirement for their systematic management and analysis to support many laboratories performing microarray research. On these demands, we developed Xperanto for integrated data management and an...

High-throughput technologies such as DNA microarray are in the process of revolutionizing the way modern biological research is being done. Bioinformatics tools are becoming increasingly important to assist biomedical scientists in their quest in understanding complex biological processes. Gene expression analysis has attracted a large amount of attention over the last few years mostly in the f...

Microarray technology has become a widely used tool for analyzing the expression of tens of thousands of genes simultaneously on high-density microarrays in a single experiment, together with the availability of the complete nucleotide sequence of the human genome. DNA microarray technologies are powerful tools in the laboratory setting for scientific research, hypothesis generation, and the pr...

The advent of gene expression microarray technology enables the simultaneous measurement of expression levels for thousands or tens of thousands of genes in a single experiment (Schena, et al., 1995). Analysis of gene expression microarray data presents unprecedented opportunities and challenges for data mining in areas such as gene clustering (Eisen, et al., 1998; Tamayo, et al., 1999), sample...