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3
votes
2answers
44 views

ChIP-seq for histone modification not in agreement with RNA-seq for expression

I have ChIP-seq for H3K79me2 and H3K36me3 and RNA-seq data for treated and untreated samples. Those two histones mark active genes. Lets say, hypothetically, a peak caller finds differential sites at ...
1
vote
1answer
41 views

How does mass spectrometry detect histone methylation?

In this research paper they talk about the methylation of histone. They use mass spectrometry to identify which peptide position is methylated. Does the number yielded by the spectrometer calculate ...
0
votes
0answers
11 views

Peak calling for TF and histone modification

I was viewing different methods for peak calling and came across two quite similar concepts but still different methods: MACS and SICER. The main difference is that SICER uses nonoverlapping sliding ...
17
votes
1answer
765 views

Can siRNA induce DNA methylation in mammalian cells?

Some years ago Hiroaki Kawasaki and Kazunari Taira published an article called "Induction of DNA methylation and gene silencing by short interfering RNAs in human cells" in Nature: In plants, ...
12
votes
1answer
531 views

How are epigenetic marks transmitted during cell division?

As far as I know, this is one of the biggest questions in the epigenetic field: how are the epigenetic marks like histone modifications propagated through cell division? A lot is already known about ...
2
votes
1answer
35 views

What signals histone methyl transferases to function?

I wanted to find out if anyone knows what stimulates histone methyltransferases to function? I know that it is a process still trying to be understood, but I can't find anything that seems to direct ...
4
votes
1answer
159 views

How does “inheritance of methylation” of DNA and/or histones work?

What are the current models/ideas describing the mechanisms explaining inheritance of methylation on DNA resp. histone level? Is there evidance of this "setup" information being really ...