Our Tools

Statistical Model Building for Antimicrobial Peptide Recognition:

This work has been submitted for publication: Elena Randou, Daniel Veltri and Amarda Shehu. "Systematic Analysis of Global Features and Model Building for Recognition of Antimicrobial Peptides." IEEE Intl Conf on Computational Advances in Bio and Medical Sciences (ICCABS), 2013.

A summary of the work can be found here.

The PASS web server can be found here.

Novel features for Antimicrobial Peptide Recognition:

This work appears in: Daniel Veltri and Amarda Shehu. "Physicochemical Determinants of Antimicrobial Activity." Intl Conf on Bioinformatics and Computational Biology (BICoB), 2013.

A summary of the work can be found here.

A physico-chemical profile explorer can be found on this web server.

Spatial EA Framework for Parallel Machine Learning:

This work appears in: Uday Kamath, Johan Kaers, Amarda Shehu, and Kenneth A. De Jong. "A Spatial EA Framework for Parallelizing Machine Learning Methods." Intl Conf on Parallel Problem Solving From Nature (PPSN), LNCS vol. 7491, pg. 206-215, Taormina, Italy, 2012.

A summary of the work is coming soon.

Code and implementation details will be posted soon.

An Evolutionary Algorithm For SVM Kernel Optimization:

This work appears in: Uday Kamath, Amarda Shehu, and Kenneth A. De Jong. A Two-Stage Evolutionary Approach for Effective Classification of Hypersensitive DNA Sequences, J Bioinf and Comp Biol 2011, 9(3): 399-413.

A summary of the work can be found here.

Code and implementation details can be obtained here.

An Evolutionary Algorithm For Feature Generation from Sequence Data:

This work appears in: Uday Kamath, Jack Compton, Rezarta Islamaj Dogan, Kenneth A. De Jong, and Amarda Shehu, An Evolutionary Algorithm Approach for Feature Generation from Sequence Data and its Application to DNA Splice-Site Prediction, Trans Comp Biol and Bioinf 2012, 9(5):1387-1398.

A summary of the work can be found here.

Code and implementation details can be obtained here.