Gene expression and chromatin state

Question

[whb]

I want to compare the expression of a list of genes (mouse) in a specific organ e.g. lung. Also, the chromatin state e.g. which regions are repressed or transcriptionally active.

I think MGI gene expression database for gene expression and ENCODE for chromatin?

But I cannot figure out how to get chromatin information from ENCODE database...

I had a try at MGI expression database. does cM here means expression? how do I search for tissue specific expression?

    MGI Gene ID Gene Symbol Gene Name   Type    Chr Genome Location-GRCm38  cM  Strand  
MGI:97363   Notch1  notch 1 protein coding gene 2   26457902-26503822   18.91   -   
MGI:98834   Trp53   transformation related protein 53   protein coding gene 11  69580359-69591873   42.83   +

Thanks

[i.sudbery]

I don't know for certain, but my guess would be that cM stands for CentiMorgan, which is an old fashioned genetic measure of distance. In this case distance from the centromere I think?.

[ATpoint]

Hi, most of your questions so far went unanswered/uncommented, and I think the reason is that they have been a bit unspecific and open-ended. Biostars is usually good to answer precise technical questions, but people are usually reluctant to guide you through an analysis. The lung is an organ, that is true, but there are plenty of celltypes involved, so I think you oversimplify the task you are up to by assuming that a single value will give you a meaningful information. What is exactly the question you are after, and which chromatin features do you need? There is open chromatin, histone modifications, TF binding, all types of stuff. Try to be more precise, that might help getting you valuable answers.