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Figure 2 | BMC Genomics

Figure 2

From: Properly defining the targets of a transcription factor significantly improves the computational identification of cooperative transcription factor pairs in yeast

Figure 2

Performance comparison of PA1, PA2, PA3 and PA4 using four existing performance indices. PAi means i-th proposed algorithm. The x-axis is the number of the predicted cooperative TF pairs (PCTFPs) being reported. For example, 50 means the top 50 PCTFPs in the ranked list of TF pairs generated by an algorithm. The y-axis is defined as follows. (a) The score of index 1 is the negative logarithm of the statistical significance (p-value) of the overlap of the PCTFPs from an algorithm with the benchmark set. The larger the -log(p-value), the better the performance of an algorithm. (b) The score of index 2 is the average of the PPI partners similarity scores of all PCTFPs from an algorithm. The larger the average, the better the performance of an algorithm. (c) The score of index 3 is the average of the reciprocals of the shortest path lengths in the physical PPI network of all PCTFPs from an algorithm. The larger the average, the better the performance of an algorithm. (d) The score of index 4 is the average of the functional similarity scores of all PCTFPs from an algorithm. The larger the average, the better the performance of an algorithm.

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BMC Genomics

ISSN: 1471-2164

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