User: Ed Schwalbe

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Ed Schwalbe10
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United Kingdom
Last seen:
4 years, 5 months ago
Joined:
6 years, 1 month ago
Email:
e**********@ncl.ac.uk

Posts by Ed Schwalbe

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Comment: C: Bias correction for enrichment analysis of 450k methylation data => feed bias ad
... Thanks Belinda for your comment, and I take your point that there is a circularity in my arguments. So is it correct to say that the output of the pwf function is the probability of significant methylation for that gene given the number of probes that map to that gene and the p values from the diffe ...
written 4.5 years ago by Ed Schwalbe10
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Bias correction for enrichment analysis of 450k methylation data => feed bias adjusted genes into IPA
... It has been reported that one of the problems of looking for enrichment of functional themes using 450k data is the bias introduced by the differing number of probes per gene. (See Geeleher et al, http://www.ncbi.nlm.nih.gov/pubmed/23732277) The paper linked above describes correcting for this bias ...
goseq enrichment 450k written 4.5 years ago by Ed Schwalbe10 • updated 4.5 years ago by belinda.phipson10
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IlluminaHumanMethylation450k.db: Missing probes in IlluminaHumanMethylation450kPROBELOCATION function?
... > James W. MacDonald writes: > You would be better off using the FDb.InfiniumMethylation.hg19 package, > which not only has all the locations for the probes, but also has them > in a more useful format. > > > library(FDb.InfiniumMethylation.hg19) > > x <- get450k() ...
written 6.1 years ago by Ed Schwalbe10 • updated 6.1 years ago by VSM120

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