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Open Access Methodology article

The top-scoring ‘N’ algorithm: a generalized relative expression classification method from small numbers of biomolecules

Andrew T Magis12 and Nathan D Price12*

Author Affiliations

1 Institute for Systems Biology, 401 Terry Ave N, Seattle, WA, 98109, USA

2 Center for Biophysics and Computational Biology, University of Illinois, Urbana, IL, 61801, USA

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BMC Bioinformatics 2012, 13:227  doi:10.1186/1471-2105-13-227

Published: 11 September 2012

Additional files

Additional file 1:

Figure S1. Counting systems. Figure S2: Three complete conversions from permutation to decimal. Figure S3: Pseudocode for the core operation of the TSN algorithm on the GPU. Figure S4: Cancer dataset statistical tests for differences between values of N. Figure S5: MAQC-II Statistical tests for differences between values of N. Figure S6: ΔMCC box plots for different input sizes on the MAQC-II dataset.

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Additional file 2:

Raw data for statistical significance testing of cancer results referenced in Figure 4.

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Additional file 3:

Raw data for cross validation and test set MCC scores and ΔMCC scores for all MAQC-II participants and TSN, referenced in Figures 5 and 6.

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Additional file 4:

Raw data for statistical significance testing of MAQC-II results referenced in Figure S5.

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Additional file 5:

Raw data for ΔMCC values over a range of input feature sizes referenced in Figure S6.

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