Comparing genomic expression patterns across species identifies shared transcriptional profile in aging

McCarroll, Steven A, Murphy, Coleen T, Zou, Sige, Pletcher, Scott D, Chin, Chen-Shan, Jan, Yuh Nung, Kenyon, Cynthia, Bargmann, Cornelia I +1 more·2004·Nature Genetics
DOI 10.1038/ng1291

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  20. Evolutionary-conserved Gene Expression Response Profiles Across Mammalian Tissues
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  33. Integration of genomic data for pharmacology and toxicology using Internet resources¶
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  60. Genetic Aspects of Ageing
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  67. cDNA Microarrays
    Phillip G. Febbo · 2008 · Springer protocols handbooks/Springer protocols
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