Category | Chd3/4 (α1) (%) | Chd4 (α2) (%) | Both (%) |
---|---|---|---|
Myelin genes | 100 | 80.0 | 70.0 |
Lipid synthesis/transport | 77.8 | 83.3 | 33.3 |
Transcription factors | 100 | 83.3 | 75.0 |
Egr2-activated genes | 86.7 | 83.3 | 46.7 |
Egr2-repressed genes | 80.0 | 80.0 | 60.0 |
Using NimbleScan peak finding software (FDR < 0.05), NuRD binding was determined for two independent antibodies for Chd4. Percentage of genes with Chd4 binding was found for each antibody on genes representing myelin genes, lipid synthesis, or transcription factors. Binding percentage was also determined by whether the gene is induced or repressed in the Egr2-deficient mice. Percentage of peaks found between both Chd4 ChIP-chip data sets was determined to be shared by 46.7% of Egr2-induced genes, such as myelin and lipid synthesis genes. However, binding to Egr2-repressed genes occurred at 60% of genes typically expressed in immature/promyelinating Schwann cells, such as Oct6, Sox2, or Id2. Overall, ChIP-chip analysis of NuRD binding reveals Chd4 occupancy at several genes that are either repressed or activated by Egr2 activity.