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Table 4 Comparison of the peaks identified by Mixer, MA2C, and TileMap with sites identified by ChIP-seq.

From: Improved ChIP-chip analysis by a mixture model approach

Total Number of peak regions Mixer MA2C TileMap
  Peaks Lfdr Peaks FDR Peaks lfdr
5,000 2974 (59.5%) 0 2421 (48.4%) 0 2090 (41.8%) ≤ 6 × 10-6
10,000 5909 (59.1%) ≤ 2.4 × 10-4 4840 (48.4%) 0 4049 (40.5%) ≤ 7 × 10-6
20,000 8931 (44.7%) ≤ 0.046 8217 (41.1%) ≤ 0.032 7270 (36.4%) ≤ 3.1 × 10-5
  1. In each cell, the number of overlapped peak regions and the percentage among the top k peak regions are shown, where k = 5,000, 10,000, or 20,000.