MAPPER: a search engine for the computational identification of putative transcription factor binding sites in multiple genomes

Table 2 Comparative performance of the TFBS detection methods tested.

Performance value	Method
	HMMER M model	HMMER T model	Match	Patser	LMM	ScanACE
% true positives identified	98%	100%	99%	100%	80%	52%
minimum false positive ratio	0.00%	0.00%	12.00%	3.30%	0.00%	0.00%
maximum false positive ratio	24.10%	16.70%	25.00%	43.70%	30.80%	0.00%

A summary of the results presented in Table 1. The first row displays the overall percentage of validated binding sites detected by the different methods. The next two rows display the minimum and maximum percentage of false positive hits found by each method across the six different datasets tested.

ISSN: 1471-2105