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- Design and Analysis of DNA Microarray Investigations
- Analysis of DNA microarray expression data.
- Impacts of DNA Microarray Technology in Gene Therapy
ISBN: ; pp.
Design and Analysis of DNA Microarray Investigations
DNA microarrays represent a technological intersection between biology and computers that enables gene expression analysis in human tissues on a genome -wide scale. This application can be expected to prove extremely valuable for the study of the genetic basis of complex diseases. Despite the enormous promise of this revolutionary technology, there are several issues and possible pitfalls that may undermine the authority of the microarray platform. We discuss some of the conceptual, practical, statistical, and logistical issues surrounding the use of microarrays for gene expression profiling. These issues include the imprecise definition of normal in expression comparisons; the cellular and subcellular heterogeneity of the tissues being studied; the difficulty in establishing the statistically valid comparability of arrays; the logistical logjam in analysis, presentation, and archiving of the vast quantities of data generated; and the need for confirmational studies that address the functional relevance of findings.
The use of DNA microarrays is becoming the method of choice for assaying gene expression, particularly as costs and complexity are being reduced as the technology becomes more widespread and better standardized. A DNA array is nothing but a collection of probes fixed on a solid support. The probes can be PCR products of ORFs or short intragenic oligonucleotides deposited or synthesized in situ by photolithographic methods. To date, sequencing projects for fungal genomes have yielded 10 complete genomes and 21 whole shotgun sequences, including Candida albicans strain SC Sequencing of the C. The use of microarray or DNA chip techniques for Candida research has started recently but the number of studies using this technology is increasing rapidly, in order to address important remaining questions about pathogenesis, cell biology, antifungal susceptibility, and diagnosis. Candida species, in particular Candida albicans , are members of the human microbial community, where they are in equilibrium with host defense mechanisms.
Analysis of DNA microarray expression data.
The probe percent bound value, calculated using multi-state equilibrium models of solution hybridization, is shown to be useful in understanding the hybridization behavior of microarray probes having 50 nucleotides, with and without mismatches. These longer oligonucleotides are in widespread use on microarrays, but there are few controlled studies of their interactions with mismatched targets compared to mer based platforms. Over a range of target concentrations it was possible to discriminate binding to perfect matches and mismatches, and the type of mismatch could be predicted accurately in the concentration midrange pM to pM using solution hybridization modeling methods. These results have implications for microarray design, optimization and analysis methods. Our results highlight the importance of incorporating biophysical factors in both the design and the analysis of microarrays. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Design and Analysis of DNA Microarray Investigations Digitally watermarked, DRM-free; Included format: PDF; ebooks can be used on all reading devices.
Impacts of DNA Microarray Technology in Gene Therapy
It seems that you're in Germany. We have a dedicated site for Germany. Authors: Simon , R. This book is targeted to biologists with limited statistical background and to statisticians and computer scientists interested in being effective collaborators on multi-disciplinary DNA microarray projects. State-of-the-art analysis methods are presented with minimal mathematical notation and a focus on concepts.
Gene Therapy - Developments and Future Perspectives. Invention of microarray technology in the early s revolutionized the genomic research, where it was exploited for global gene expression profiling through screening the expression of thousands of genes simultaneously Watson et al.