Systematic identification of yeast cell cycle transcription factors using multiple data sources

BMC Bioinformatics

Table 2 Performance comparison of five cell cycle TF identification methods to retrieve the known cell cycle TFs annotated in the MIPS database.

	TP	FP	FN	Jaccard similarity score
Our method	12	5	24	0.293
Tsai et al.'s method	13	17	23	0.245
Anderson et al.'s method	10	5	26	0.244
Cokus et al.'s method	9	3	27	0.231
Cheng et al.'s method	13	29	23	0.200

Performance comparison was based on the Jaccard similarity score [39, 40], which scores the overlaps between a method's output and the list of known cell cycle TFs. Specifically, the Jaccard similarity score is defined as TP/(TP+FP+FN), where TP stands for true positives, FP for false positives, and FN for false negatives. Note that the higher the Jaccard similarity score, the better the ability of a method to retrieve the known cell cycle TFs.

ISSN: 1471-2105