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Table 2 Clustering simulation analysis of co-expressed genes (50 kb window) in ES and PES internodes of alfalfa genotypes 252 and 1283.

From: Transcript profiling of two alfalfa genotypes with contrasting cell wall composition in stems using a cross-species platform: optimizing analysis by masking biased probes

Gene Category* Tissue Type Number of Genes Simulation Mean Simulation SD Experimental Data§ SD from Simulation Mean
up in 252 ES 1.0 192.8 5.3 163.0 -5.6
   2.0 7.7 2.6 16.0 3.2
   3.0 1.0 0.4 3.0 5.6
down in 252 ES 1.0 212.4 5.9 189.0 -4.0
   2.0 9.2 2.8 13.0 1.3
   3.0 1.2 0.5 3.0 3.7
up in 252 PES 1.0 309.5 8.3 262.0 -5.7
   2.0 20.3 4.0 34.0 3.4
   3.0 1.7 0.9 4.0 2.6
   4.0 1.0 0.1 3.0 20.0
down in 252 PES 1.0 354.3 9.5 307.0 -5.0
   2.0 26.9 4.5 46.0 4.3
   3.0 2.1 1.2 5.0 2.4
  1. *Genes up- or down-regulated in genotype 252 compared to genotype 1283.
  2. Number of genes identified within the 50 kb bin of the simulation.
  3. Average number of bins with the corresponding gene numbers from replicated simulation (×2000).
  4. §Number of 50 kb bins with the corresponding gene number from this study.
  5. (Experimental Data - Simulation Mean)/(Simulation SD). Value of 2 or greater indicates statistically significant clustering of genes.