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Could someone kindly help me with the following question: when I analyze microarray data I need to fit multiple linear regression models between genes and clinical patameters followed by estimation of the p-values. What's the solution to implement Westfall and Young's algorithm + resampling into the scheme: lm -> stepAIC -> anova. Actually permcor works fine for me in the case of

You asked the same question on the Bioconductor mailing list back in August. At that time, you suggested yourself a solution for how the adjusted p-values should be interpreted. I answered your query and told you that your interpretation was correct. So I'm not sure what more can be said, except that you should read the article Wright (1992), which is cited in the help entry for p.adjust(),