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Activity Number:
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242
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Type:
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Contributed
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Date/Time:
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Tuesday, August 5, 2008 : 8:30 AM to 10:20 AM
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Sponsor:
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Biometrics Section
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| Abstract - #301613 |
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Title:
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Identifying Allele-Specific Gene Expression in Human Brains Using the Illumina Sentrix Array Matrix and the Goldengate Assay
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Author(s):
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Xin V. Wang*+ and Terence P. Speed and Charles E. Glatt
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Companies:
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University of California, Berkeley and University of California, Berkeley and Cornell Medical School
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Address:
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367 Evans Hall, Berkeley, CA, 94720-3860,
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Keywords:
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Illumina ; allele-specific gene expression ; empirical Bayes
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Abstract:
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Allele-specific gene expression (ASE) occurs when expression levels of the two alleles differ. This phenomenon has been shown to be relatively common and may be important in gene regulation. The Illumina platform is used to identify such allelic imbalance in three brain regions from 85 human brains, 11 of which are duplicated. Approximately 1000 genes represented by 1510 SNPs are queried. We will present the methods and results used in the analysis of this data set. In particular, background correction and normalization steps that are specific to this platform are taken before downstream analysis. An empirical Bayes approach is then used to identify genes that exhibit ASE in a subset of the human brains. This approach is shown to be more reliable than a method previously used for analyzing this type of data when assessed by the concordance of SNP pairs from the same coding regions.
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