Using surveys of Affymetrix GeneChips to study antisense expression
نویسندگان
چکیده
منابع مشابه
Uncovering the Expression Patterns of Chimeric Transcripts Using Surveys of Affymetrix GeneChips
BACKGROUND A chimeric transcript is a single RNA sequence which results from the transcription of two adjacent genes. Recent studies estimate that at least 4% of tandem human gene pairs may form chimeric transcripts. Affymetrix GeneChip data are used to study the expression patterns of tens of thousands of genes and the probe sequences used in these microarrays can potentially map to exotic RNA...
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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 کاملSystematic order-dependent effect in expression values, variance, detection calls and differential expression in Affymetrix GeneChips®
MOTIVATION Affymetrix GeneChips are common 3' profiling platforms for quantifying gene expression. Using publicly available datasets of expression profiles from human and mouse experiments, we sought to characterize features of GeneChip data to better compare and evaluate analyses for differential expression, regulation and clustering. We uncovered an unexpected order dependence in expression d...
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...
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ژورنال
عنوان ژورنال: Journal of Integrative Bioinformatics
سال: 2010
ISSN: 1613-4516
DOI: 10.1515/jib-2010-114