Microarrays spot analysis

The methods described herein encompass (1) preparation of a whole cell lysate from either cell culture or tissue samples, (2) protein lysate microarray printing, (3) immunostaining, and (4) microarray spot analysis. 

It should be possible to extend the DNA microarray-binding experiment to whole-genome analysis of transcription factor binding sites. The authors suggest that a microarray spotted with 12,000 one-kilobase sequences would span the entire Saccharomyces cerevisiae genome (Bulyk et al., 2001). Such an array could be used to characterize the sequence specificity of S. cerevisiae transcription factors. These experiments would be useful for predicting functions of previously uncharacterized transcription... 

Genome-Wide Analysis of mRNA Polysomal Profiles with Spotted DNA Microarrays... 

The data obtained has been derived from different experimental designs (namely, the number of collected fractions and the hybridization scheme), different microarray platforms (spotted versus Affymetrix arrays), and different data analysis schemes. In this chapter, we discuss various experimental designs for microarray analyses, provide detailed protocols for various experimental steps when using the spotted microarray platform, and discuss aspects of data analysis. 

Direct spark emission spectroscopy, 15 348 Direct spectrometry ozone analysis, 17 812 Direct spotting, in microarray fabrication, 16 386... 

The steps involved in the image acquisition process for cDNA microarrays have been reviewed and a number of image analysis programs are available to mediate this process. The process can be described in four basic steps (1) scanning, (2) spot recognition, (3) segmentation (4) intensity measurement, and (5) ratio calculation (Leung and Cavalieri, 2003). 

In this chapter, we will survey the kinds of solid supports (substrates) and surface chemistries currently used in the creation of nucleic acid and protein microarrays. Which are the best supports and methods of attachment for nucleic acids or proteins Does it make sense to use the same attachment chemistry or substrate format for these biomolecules In order to begin to understand these kinds of questions, it is important to briefly review how such biomolecules were attached in the past to other solid supports such as affinity chromatography media, membranes, and enzyme-linked immxm-osorbent assay (ELISA) microtiter plates. However, the microarray substrate does not share certain unique properties and metrics with its predecessors. Principal among these are printing, spot morphology, and image analysis they are the subjects of subsequent chapters. 

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