NsiteH, NSite and NSiteM
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5.1 years ago
c.chakraborty ▴ 170

Hello, I have some genomic DNA sequences of genes, those which were upregulated upon a transcription factor knockdown. I am trying to find the regulatory motifs and sequences on the upstream of TSS of these genes. I am using MEME and NSite to discover the regulatory motifs. I am confused with the statistical significance level on NSite. When I read the paper it looks like that the significance level mentioned is the confidence interval upper limit 0.095. Therefore the alpha should be 0.05. The error of finding a non-regulatory motif should be 5%. This is what I understood. Can anybody help me, by telling me what does the statistical significance level 0.095 for NSite mean?

sequence ChIP-Seq • 940 views
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