Genome Biology
Volume 8
Issue 2

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Quantifying similarity between motifs

Shobhit Gupta¹ , John A Stamatoyannopoulos¹ , Timothy L Bailey² and William Stafford Noble¹^,3

¹Department of Genome Sciences, University of Washington, 1705 NE Pacific Street, Box 355065, Seattle, WA 98195, USA

²Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072, Australia

³Department of Computer Science and Engineering, University of Washington, 185 Stevens Way, Box 352350, Seattle, WA 98105, USA

author email corresponding author email

Genome Biology 2007, 8:R24doi:10.1186/gb-2007-8-2-r24


Published:	26 February 2007

Subject areas: Bioinformatics, Genetics, Genome studies

Additional data file 1:

Accuracy of motif comparison P values: QQ plots for various column comparison functions

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Additional data file 2:

Accuracy of offset P values: QQ plots for various column comparison functions

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Additional data file 3:

Mean ROC scores for various motif column comparison functions and score combination methods for various sampling rates

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Additional data file 4:

Comparison of motif P values versus other methods of combining column scores for various sampling rates

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Additional data file 5:

Motif retrieval accuracy for various column similarity functions at a sampling rate of S/8

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Additional data file 6:

E value based retrieval rate for two additional significance levels (E-value less than 0.05 or 0.001)

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