Method
Core promoters are predicted by their distinct physicochemical properties in the genome of Plasmodium falciparum
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* Corresponding author: Kevin Brick kevbrick@gmail.com
1 Dipartimento di Malattie Infettive, Parassitarie ed Immunomediate - Istituto Superiore di Sanità , Viale Regina Elena, 299, 00161 Rome, Italy
2 Department of Parasitology, Institute of Medical Science, The University of Tokyo 4-6-1, Shirokanedai, Minatoku, Tokyo 108-8639, Japan
Genome Biology 2008, 9:R178 doi:10.1186/gb-2008-9-12-r178
Published: 18 December 2008Additional files
Additional data file 1:
Physicochemical properties, property numbers, and data source for each.
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Additional data file 2:
Key steps in the individual SVM training/feature selection and MAPP prediction processes.
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Additional data file 3:
The averaged MAPP profiles in the region from -400 to +200 nucleotides around TSSs possibly highlight a transcription start area.
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Additional data file 4:
Explanation of the strand symmetry and shift observed in MAPP profiles.
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Additional data file 5:
The upstream regions of genes for which TSSs have been mapped experimentally and independently of the Full-Malaria database.
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Additional data file 6:
These two color-coded matrices represent the correlations between physicochemical properties. On top is the matrix for all properties, while below is that for the reduced set of non-redundant properties used for the predictor.
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