Cross-hybridization modeling on Affymetrix exon arrays
نویسندگان
چکیده
منابع مشابه
Cross-hybridization modeling on Affymetrix exon arrays
MOTIVATION Microarray designs have become increasingly probe-rich, enabling targeting of specific features, such as individual exons or single nucleotide polymorphisms. These arrays have the potential to achieve quantitative high-throughput estimates of transcript abundances, but currently these estimates are affected by biases due to cross-hybridization, in which probes hybridize to off-target...
متن کاملAnalysis of Affymetrix Exon Arrays
Exon arrays enable the monitoring of expression on a more fine-grained level than conventional 3' arrays. By targeting single exons alternative splicing events can be detected. However, the increased amount of data resulting from the denser coverage of the transcribed regions gives rise to new challenges in data analysis compared to 3' arrays. One must carefully decide which probes are consider...
متن کاملComprehensive Analysis of Affymetrix Exon Arrays Using BioConductor
Why BioConductor? BioConductor [1] is a collection of open source software packages designed to support the analysis of biological data. BioConductor is written using the programming language R, which itself provides access to a wide range of tools for statistical analysis, data presentation, and visualization. BioConductor has more than 200 packages representing not only analytical tools but a...
متن کاملPublications and References for Affymetrix® GeneChip® Exon Arrays
■ Abdueva D., et al. Experimental Comparison and Evaluation of the Affymetrix Exon and U133 Plus 2.0 GeneChip Arrays. PLoS ONE 2(9):e913 (2007). Key Findings: ▪ Abdueva et al. compared the performance of GeneChip Exon Arrays and Human Genome U133 Plus 2.0 Arrays through a series of spike-in hybridization experiments and demonstrated high comparability between the two arrays. ▪ “Despite several ...
متن کاملProbe Selection and Expression Index Computation of Affymetrix Exon Arrays
BACKGROUND There is great current interest in developing microarray platforms for measuring mRNA abundance at both gene level and exon level. The Affymetrix Exon Array is a new high-density gene expression microarray platform, with over six million probes targeting all annotated and predicted exons in a genome. An important question for the analysis of exon array data is how to compute overall ...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2008
ISSN: 1460-2059,1367-4803
DOI: 10.1093/bioinformatics/btn571