I am an Associate Professor in the School of Computer Science at University College Dublin. Since the beginning of 2007 I am based at the
Institute for Discovery. I have worked as a PI in Dublin since September 2003. Before then I
was a working in Pierre Baldi's group at University
of California, Irvine, where it was a little bit drier than in
Dublin, but Guinness tasted remarkably foul.
There are two main related focuses to my research: one
is the development of Machine Learning models for complex structured
data; the other is the fields of Bioinformatics and Chemoinformatics.
The two things are inextricably tied, since
virtually all the applicative domains I tested my models on are
in molecular biology.
Past ProjectsThe SCRATCH servers
Servers for the prediction of various structural features of proteins based on bidirectional recurrent neural networks (BRNNs), and 2D-Recursive Neural Networks. I developed BRNNs at the University of Florence and 2D-RNN at UC Irvine, and designed and built most of the SCRATCH servers while I was at University of California, Irvine. Although I have not worked on the servers since 2003, and strangely enough have not contributed to the paper describing the bundle of them, you can find a list of past SCRATCH literature here (papers 17 to 3).