Cellular neural networks for real-time DNA microarray analysis.

Abstract

A new methodology for real-time processing of DNA chip images is proposed. The idea developed here is to use the cellular neural network (CNN) array to analyze the DNA microarray. A CNN is an analog dynamic processor array that reflects this property: the processing elements interact directly within a finite local neighborhood. Due to its architecture, a two-dimensional CNN array is widely used to solve image processing and pattern recognition problems; moreover, the parallelism characteristic of this structure allows one to perform the most computationally expensive image analysis tasks three orders of magnitude faster than a classical CPU-based computer. This approach, thanks to the supercomputing capabilities of the CNN architecture, makes the whole DNA chip methodology fully parallel and also makes the processing phase, until now very time consuming, a real-time step. We discuss the results of testing an algorithm based on the CNN universal machine (CNN-UM) that has been designed to classify the image data. The algorithm is implemented in an analogic (analog and logic) microprocessor.