The Infobiotics Contact Map predictor at CASP9

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Description of the Contact Map prediction method of the Infobiotics team that participated in CASP9

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The Infobiotics Contact Map Predictor at CASP9 J. Bacardit 1,2 , P.Widera 1 and N. Krasnogor 1 1 - School of Computer Science, University of Nottingham, 2 – School of Biosciences, University of Nottingham jaume.bacardit @nottingham.ac.uk

Contact Map ,[object Object],[object Object],[object Object],[object Object],Contact helices sheets

Steps ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Using BioHEL [Bacardit et al., 09]

Prediction of RCH, SA and CN ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]

How are these features predicted? ,[object Object],[object Object],R i SS i R i+1 SS i+1 R i-1 SS i-1 R i+2 SS i+2 R i-2 SS i-2 R i+3 SS i+3 R i+4 SS i+4 R i-3 SS i-3 R i-4 SS i-4 R i-5 SS i-5 R i+5 SS i+5 R i-1 R i R i+1  SS i R i R i+1 R i+2  SS i+1 R i+1 R i+2 R i+3  SS i+2

Prediction of RCH, SA and CN ,[object Object],[object Object],[object Object],[object Object]

Characterisation of the contact map problem ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],1 2 3

Contact Map dataset ,[object Object],[object Object],[object Object],[object Object]

Samples and ensembles ,[object Object],[object Object],[object Object],[object Object],[object Object],Training set x50 x25 Consensus Predictions Samples Rule sets

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