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Activity Number:
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293
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Type:
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Contributed
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Date/Time:
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Tuesday, August 8, 2006 : 10:30 AM to 12:20 PM
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Sponsor:
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WNAR
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| Abstract - #305983 |
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Title:
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A Case Study for Finding Condition-Specific cis-Regulatory Motifs and Modules in the Mouse Genome
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Author(s):
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Dongseok Choi*+ and Yuan Fang and William Mathers
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Companies:
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Oregon Health & Science University and Oregon Health & Science University and Oregon Health & Science University
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Address:
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Div of Biostatistics, Dept. of Public Health & Preventative Medicine, Portland, OR, 97239,
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Keywords:
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co-regulation ; cis-regulatory motifs ; cis-regulatory modules ; microarray ; cluster ; transcription factor
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Abstract:
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Deciphering genetic regulatory codes remains a challenge. By combining cluster analysis, known cis-regulatory motifs search, and motifs/modules finding program, we could identify in vivo condition-specific co-regulation in the mouse genome. A resampling-based algorithm was adopted to cluster our microarray data of a stress response, which generated 35 tight clusters with unique expression patterns containing 811 genes out of 5652 genes significantly altered. Database searches identified many known motifs within the 3 kilobase regulatory regions of 40 genes from 3 clusters, and modules with 6 to 9 motifs that were commonly shared by 60-100 percent of these genes. CisModule program predictions were comparable with the results from database searches and found 4 potentially novel motifs. These motifs and modules could be responsible for gene co-regulation of the stress response.
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