Analysis of Microarray Gene Expression Data by Mei-Ling Ting Lee

By Mei-Ling Ting Lee

After genomic sequencing, microarray know-how has emerged as a normal platform for genomic reports within the lifestyles sciences. Microarray know-how offers a scientific solution to survey DNA and RNA version. With the abundance of information made out of microarray reports, in spite of the fact that, the last word effect of the stories on biology will rely seriously on info mining and statistical research. The contribution of this ebook is to supply readers with an built-in presentation of varied themes on examining microarray data.

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One drawback to this approach is that a probe with a large response might well be the most informative but may be consistently discarded. Furthermore, if one wants to compare many arrays at the same time, this method tends to exclude too many probes. Li and Wong23 (2001) show that even after making use of the control information provided by the MM intensity, the information on expression provided by the different probes for the same gene are still highly variable. They note that the between-array variation in PM–MM differences can be substantial and that the variation due to probe effects is larger than the variation due to arrays.

Sequencing-based Transcriptional Profiling Sequencing-based approaches include sequencing of complementary DNA (cDNA) libraries and serial analysis of gene expression (SAGE). Libraries of cDNA are created by reverse transcription of mRNAs ex­ pressed in a tissue or a cell type under some treatment or condition. Individual cDNA clones are created by recombinant DNA technology. Sequencing the cDNA reveals the identity of the clone either as a known sequence in a public database or as a novel unknown sequence.

Oligonucleotides may also be UV cross-linked, but also more specifically attached by a linker molecule. Adding a linker molecule to the end of the oligonucleotide in the synthesis allows the oligonucleotides to be specifically attached at one end to the surface of the support material. The support material surface must have the appropriate reactive groups to allow attachment Microarray Technology 31 of oligonucleotides via a linker molecule. Since not all surface coatings have reactive groups that can be used to couple oligonucleotides cova­ lently, the choice of coating depends on what attachment method will be used.

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