Microarray BASICA: Background adjustment, segmentation, image compression and analysis of microarray images
type: Item
instance of: scholarly article
title: Microarray BASICA: Background adjustment, segmentation, image compression and analysis of microarray images
zbMATH Open document ID: 1067.92043
DOI: 10.1155/S1110865704309200
author: Jianping Hua
author: Zixiang Xiong
author: Qiang Wu
author: Kenneth R. Castleman
author: Zhong-min Liu
published in: EURASIP Journal on Applied Signal Processing
publication date: 2005-05-03T00:00:00Z
review text: Summary: This paper presents microarray BASICA: an integrated image processing tool for background adjustment, segmentation, image compression, and analysis of cDNA microarray images. BASICA uses a fast Mann-Whitney test\,-\,based algorithm to segment cDNA microarray images, and performs postprocessing to eliminate the segmentation irregularities. The segmentation results, along with the foreground and background intensities obtained with the background adjustment, are then used for independent compression of the foreground and background. We introduce a new distortion measurement for cDNA microarray image compression and devise a coding scheme by modifying the embedded block coding with the optimized truncation (EBCOT) algorithm to achieve optimal rate-distortion performance in lossy coding while still maintaining outstanding lossless compression performance. Experimental results show that the bit rate required to ensure sufficiently accurate gene expression measurements varies and depends on the quality of cDNA microarray images. For homogeneously hybridized cDNA microarray images, BASICA is able to provide from a bit rate as low as 5 bpp the gene expression data that are \(99\)\% in agreement with those of the original 32 bpp images.
Mathematics Subject Classification ID: 92C55
Mathematics Subject Classification ID: 92C40
Mathematics Subject Classification ID: 68P30
Mathematics Subject Classification ID: 68U10
zbMATH DE Number: 2163809
MaRDI profile type: Publication
full work available at URL: s1110865704309200
OpenAlex ID: W1987790274
description: scientific article; zbMATH DE number 2163809