Natalio Krasnogor's WebPage

My work has been generously funded from a variety of sources including EPSRC, BBSRC, the EU, the University of Nottingham Bridging the Gap Initiative and the School of Computer Science. The work carried out with these funding resulted in a variety of state-of-the-art software.

• ProCKSI

  ProCKSI is a decision support system for protein structure comparison and protein structure alignment. It computes structural similarities using a variety of similarity comparison/alignment methods in order to produce a similarity consensus derived from multiple sources. ProCKSI is the only methods of its kind that allows the simultaneous comparison of very large protein structure datasets.

• Protein Structure Feature Prediction

  We have developed a collection of web services that predict Protein Structure Prediction (PSP) features such as coordination number, solvent accessibility or recursive convex hull. These features are related to the density of packing of different parts of a protein or how buried/exposed, far/close to the surface are the different residues within a protein. Our software uses our own state-of-art Machine Learning techniques.

• Dissipative Particle Dynamics (DPD) Software

  We are developing cutting-edge DPD software for the modelling of micelles, vesicles and giant vesicles. Our software run in the university of Nottingham High Performance Computer cluster and we are currently porting it into CUDA.

• Executable Biology for Systems and Synthetic Biology

  My team is developing an integrated desing, modeling and testing environment that could be used by systems and synthetic biologist. We employ advance simulation techniques, formal informatic methods (e.g. P systems, model checking) and optimisation strategies to enable {/it in silico} biology.