Figure 1

Chromosome distribution and clusters of enriched regulated genes. We used the GeneSpring GX program to obtain the chromosome and genomic position of the 1216 differentially expressed genes. Of these, 983 had chromosome annotations. Data were analyzed with the REEF program, with a window width of 1 M, a shift of 200 k, a Q-value of 0.05 and a minimum number of transcripts in clusters of 2. We used the REEF Reference file as reference features. (A) The number of regulated genes is plotted against each annotated chromosome. (B) The image shows the list of chromosomes in the analyzed samples and a representation of the position of clusters of enriched features as red squares. The last line that corresponds to the Y chromosome is not listed. (C) Selected genes in the cluster on chromosome 7 position 149600000 - 151000000 (p-value ≤ 2.117e-004). The first column lists the ID for Entrez Gene, the second column the gene name, the third column the gene description, the fourth column the fold change (FC) with a negative symbol for downregulated genes and a positive symbol for upregulated genes, and the fifth column indicates whether these genes are expressed in SM according to IPA (positive symbol). The cluster on chromosome 1, position 114200000 - 115800000 (p-value ≤ 1.612e-004) was composed of OLFML3, DENND2C, AMPD1, NRAS and CSDE1. The cluster on chromosome 20, position 29400000 - 30600000 (p-value ≤ 9.859e-005) included HM13, COX4I2, MYLK2, C20orf160 and POFUT1.