Biostar DNA methylation

Showing : DNA methylation • reset

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324

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minfi cell proportion estimateCellCounts DNA Methylation

2.2 years ago grayapply2009 • 0

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716

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normalization DNA methylation WGCNA

updated 2.9 years ago by Peter Langfelder ★ 2.6k • written 2.9 years ago by enora.fremy • 0

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472

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medips medip-seq dna methylation dmr analysis

updated 3.5 years ago by Lukas Chavez ▴ 570 • written 3.5 years ago by mtefit • 0

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859

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R gdc rna-seq dna methylation

updated 3.6 years ago by Sean Davis 21k • written 3.6 years ago by RichardJActon ▴ 40

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624

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minfi normalization outliers dna methylation densityplot

3.8 years ago peter.fransquet • 0

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426

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differential variability dna methylation iEVORA DVP

4.1 years ago poojitha.stemcell ▴ 10

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567

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rnbeads methylation methylationepic dna methylation

4.3 years ago gabrielrfries • 0

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586

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dna methylation biseq

updated 4.4 years ago by Gordon Smyth 45k • written 4.4 years ago by ahmad.moousavi • 0

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989

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tcgabiolinks dna methylation

updated 4.5 years ago by Marcel Ramos 570 • written 4.5 years ago by michaelwxf2012 • 0

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755

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dna methylation illimina 450k methylation beta M significance

updated 4.7 years ago by James W. MacDonald 59k • written 4.7 years ago by skids121 • 0

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812

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CNV minfi preprocessing dna methylation

5.2 years ago Thomas • 0

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670

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microarray HM450 dna methylation cohcap

updated 5.3 years ago by James W. MacDonald 59k • written 5.3 years ago by poojitha.stemcell ▴ 10

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742

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minfi bumphunter DNA methylation illumina450k

updated 5.9 years ago by James W. MacDonald 59k • written 5.9 years ago by fleur_p90 • 0

13 results • Page 1 of 1

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Comment: ashr vs apeglm for interaction data by Ali Barry ▴ 30

Thanks, I'll trying playing a bit there. I have done some minor filtering already (requiring at least 5 counts in 10% of my samples, across…

Comment: ashr vs apeglm for interaction data by Michael Love 37k

I see why apeglm is conservative— the dispersion is very high within group. An idea would be to use ashr but do some additional filtering …

Comment: How to figure out the FC value from Limma by ATpoint ★ 1.2k

That’s an Excel problem, not a GEO/R problem or related to limma and Bioconductor.

Comment: ashr vs apeglm for interaction data by Ali Barry ▴ 30

Hi Michael, Plots attached. Many of the large fold changes with `ashr` are driven by one sample per group, but a few are maybe a bit more …

Comment: regression analysis for epic array methylation data using limma by nabiyogesh ▴ 10

Thanks! I have tried this; I am not sure after that how to find logeGFR associated probe? and also, how to filter significant probe? …

Votes

Comment: ashr vs apeglm for interaction data

Comment: How to figure out the FC value from Limma

Answer: Warnings when using "ashr" in lfcshrinkage for DESeq2

Answer: UniprotKB AC/ID to Entrez ID Conversion

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