Experimental designs using Affymetrix GeneChips
نویسندگان
چکیده
منابع مشابه
Gene filtering by PCA for Affymetrix GeneChips
Due to the nature of the array experiments which examine the expression of tens of thousands of genes (or probesets) simultaneously, the number of null hypotheses to be tested is large. Hence multiple testing correction is often necessary to control the number of false positives. However, multiple testing correction can lead to low statistical power in detecting genes that are truly differentia...
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DNA microarrays are devices that are able, in principle, to detect and quantify the presence of specific nucleic acid sequences in complex biological mixtures. The measurement consists in detecting fluorescence signals from several spots on the microarray surface onto which different probe sequences are grafted. One of the problems of the data analysis is that the signal contains a noisy backgr...
متن کاملPreferred analysis methods for Affymetrix GeneChips revealed by a wholly
Background: As more methods are developed to analyze RNA-profiling data, assessing their performance using control datasets becomes increasingly important. Results: We present a 'spike-in' experiment for Affymetrix GeneChips that provides a defined dataset of 3,860 RNA species, which we use to evaluate analysis options for identifying differentially expressed genes. The experimental design inco...
متن کاملComparison of target labeling methods for use with Affymetrix GeneChips
BACKGROUND Several different commercial one-cycle labeling kits are available for preparation of the target for use with the Affymetrix GeneChip platform. However, there have been no evaluations of these different kits to determine if comparable results were generated. We report on the cRNA target synthesis, labeling efficiency and hybridization results using the One-Cycle Target Labeling Assay...
متن کاملAn overview of image-processing methods for Affymetrix GeneChips
We present an overview of image-processing methods for Affymetrix GeneChips. All GeneChips are affected to some extent by spatially coherent defects and image processing has a number of potential impacts on the downstream analysis of GeneChip data. Fortunately, there are now a number of robust and accurate algorithms, which identify the most disabling defects. One group of algorithms concentrat...
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ژورنال
عنوان ژورنال: Nature Genetics
سال: 1999
ISSN: 1061-4036,1546-1718
DOI: 10.1038/14415