Table 2 Summary of genes predicted to escape from XCI in mouse liver based on DNA methylation data.

From: Dosage compensation and DNA methylation landscape of the X chromosome in mouse liver

Gene

Analysis Set

Liver C3

Liver B6

Patski42

Spleen42

Ovary42

TSCs44

NPCs15

NPCs45

Brain42

Brain46

Brain28

Ddx3x

†,§

Escape

Escape

*

*

*

 

*

*

*

*

*

Eif2s3x

†,§

Escape

Escape

*

*

*

*

*

 

*

*

*

Firre

†,§

Escape

Escape

*

*

*

 

*

*

  

*

Kdm5c

†,§

Escape

Escape

*

*

*

*

*

*

*

*

*

Kdm6a

†,§

Escape

Escape

*

*

*

*

*

*

*

*

*

Pbdc1

†,§

Escape

Escape

*

*

*

*

*

*

  

*

5530601H04Rik

†

Escape

Escape

*

*

*

*

 

*

*

*

*

Ftx

†

Escape

Escape

 

*

*

*

 

*

*

 

*

Xist

†

Escape

Escape

*

*

*

*

*

*

*

*

*

Mid1

§

Subject

Subject

*

  

*

*

*

 

*

 

4933407K13Rik

∞

Escape

Subject

        

‡

G530011O06Rik

∞

Subject

Escape

   

*

     

Utp14a

∞

Escape

Subject

 

*

*

*

 

*

   
  1. Mouse genes reported as escaping from or subject to XCI in the C3 and B6 mouse strains, according to the data in this study. Analysis set designates genes reported by Berletch et al.42 escaping in at least 3 of 4 cell types (†), genes reported by Yang et al.43 escaping in Patski cells and depleted of H3K27me3 in adult liver (§), or genes not included in the training set (∞). Genes identified to escape XCI in other studies are indicated with an asterisk (*). Mouse cell types in the comparison studies include Patski cells, spleen, ovary, trophoblast stem cells (TSCs), neural progenitor cells (NPCs), and brain cells. Also noted is a gene previously identified to be CH-hypermethylated, located at the Dxz4 macrosatellite (‡).
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