Additional file 3 of CHIPIN: ChIP-seq inter-sample normalization based on signal invariance across transcriptionally constant genes

Additional file 3: Figure S3. Linear regression fit between gene expression in the Spi1++ condition and H3K27ac densities. Gene expression was evaluated in FPKM, and ChIP-seq H3K27ac maximal density corresponds to the maximal density in the 2 Kb window surrounding gene TSS averaged between Replicate 1 and 2. The ChIP-seq signal was normalized for the CG-content, copy number bias and background noise by HMCan [11].