I studied Chemical Engineering at the University of Oviedo in Spain and the University of Stuttgart in Germany (1996-2001), and did my PhD at the Max-Planck-Institute for Dynamics of Complex Technical Systems in Magdeburg (2002-2007), under the supervision of E. D. Gilles. After that I was a postdoctoral fellow at Harvard Medical School and M.I.T, with Peter Sorger and Doug Lauffenburger. I am a group leader at EMBL-EBI since July 2010, with a joint appointment in the EMBL Genome Biology Unit in Heidelberg; I am also a senior fellow at Wolfson College (Cambridge).
I am generally interested in computational methods and tools to study information transfer within signalling networks, and application to disease-related questions. You can find more about me here: http://sites.google.com/site/saezrodriguez/
I studied Physics at the Université du Littoral, France (1994-1998) and Astronomy at the Université de Nice-Sophia-Antipolis, France (1998-1999). I did my PhD at the Observatoire de Nice-Côte d'Azur (1999-2003) within the VIRGO project. Then, I moved to Wales, U.K., to work at the Physics and Astronomy Department of Cardiff University as a Research Associate (2003-2008). I was involved in the Data Analysis Group of LIGO, an American project in astronomy. In 2008, I moved to Montpellier, France to work in Plant Science at the French National Institute of Computer Science, INRIA and Agricultural Research for Development, CIRAD. In particular, I worked on OpenAlea, an open source project dedicated to plant modelisation. Since August 2011, I am a Research Scientist/Bioinformatician at EMBL-EBI. I am interested in computer science as a tool to develop software and algorithms to solve scientific problems. More about me on my home page.
I received my Bachelor's degree in Biomedical Engineering in 2006 and my
Master's degree in Bioiengineering in 2008 both from the University of
Padova. I am currently a Ph.D. student at the Department of Information
Engineering (Bioengineering) of the University of Padova. My research is
aimed at modeling transcriptional and post-transcriptional regulatory
networks using quantitative and qualitative approaches focusing mainly on
recurrent regulatory motifs (transcriptional autoregulatory circuits,
microRNA mediated feed-forward loops) and protein signaling pathways
(algorithm for network inference and prediction, study of insulin resistance
in insulin signaling pathway). You can find more about me here:
http://www.dei.unipd.it/~eduati/
In 2010, I received the BSc degree in Informatics Engineering by the
University of Minho, Portugal.Then, I joined the master course in
Bioinformatics also at University of Minho, where I am now in the second
year.
From October 2010 to December 2011 I also worked as a research fellow
in Bioinformatics and Systems Biology Group at University of Minho,
under the supervision of Miguel Rocha. The research work was mostly
related to /in silico/ strain optimization based on genetic manipulation
using gene knockouts and gene under and over regulation.
The second year of my master will be spent here at EBI, developing a
framework to integrate CellNetOptimizer and Cytoscape. This will be also
the theme of my master's thesis.
Besides computer science I'm particularly interested in evolutionary
computation, cell signalling networks and the application of those
methods to biotechnology or medicine issues.
Francesco Iorio, EMBL-EBI and Sanger Institute Post-Doctoral (ESPOD) fellow
In 2006, I was awarded a Degree in Computer Science (“Laurea”, 5 years University study, equivalent to master) by the University of Salerno (Italy).
From February 2007 to October 2007 I was a research associate at the Systems, Synthetic and Computational Biology Laboratory (di Bernardo’s Lab) of the TeleThon Institute of Genetics and Medicine (TIGEM) and from November 2007 to August 2010 I have been a PhD student in Computer Science and Computational Biology in a program that was part of a joint initiative between the University of Salerno and the TIGEM.
My PhD project was mainly focused on computational methods for drug discovery, machine learning techniques supporting gene regulatory network inference, and complex network theory.
I joined the Systems Biomedicine group as visiting student in August 2011. From March 2011 I am an ESPOD fellow and I am working on an integrative analysis framework for predicting and dissecting drug susceptibility in cancer. This project combines both in-silico and "wet-lab" experimental research and is hosted at the EBI by the Systems Biomedicine group and at the Sanger Institute by the Genomic of Drug Sensitivity in Cancer project led by Ultan McDermott and Mathew Garnett.
I studied zoology as the main component of a science degree (BA) in
Trinity College, Dublin from 1998-2002. My thesis was a behavioral study
of feeding preferences in domestic chickens. My postgraduate projects in
the field of zoology included a study of cichlid speciation in the
african great lakes and a turtle conservation program in the Dutch Antilles.
I was awarded a 4-year Wellcome Trust scholarship in 2005, which
encompassed an MSc in bioinformatics at Imperial College and a PhD in
its Department of Immunology. For my PhD, I examined the host response
to the retrovirus HTLV-I. Specifically, I used a variety of
computational, modeling and statistical approaches to better understand
why certain individuals remain asymptomatic during HTLV-I infection.
My interests lie in the application of computational and mathematical
techniques to biological questions, specifically in the subject of
disease and drug discovery. I am currently researching the role of
endocytosis in signal transduction pathways as part of an EIPOD
fellowship in collaboration with the Schultz and Krijgsveld groups in
EMBL-Heidelberg.
I studied Bioinformatics at the University of Applied Sciences
Weihenstephan-Triesdorf in Germany (2006-2011). During my studies I was
involved in an undergraduate research project at the EBI (Proteomics
Service Team) in cooperation with the University of Cambridge (FlyMine
Group) for one semester. During another semester I was also employed as
Visiting Research Scientist at Harvard Medical School (Sorger Lab) in
the Department for Systems Biology. I did my diploma thesis at the
Technical University of Munich (Rost Lab).
I am interested in systems biology, molecular medicine, and biological
challenges, which could be solved with computational simulation.
I obtained my Bachelor's and Master's in Bioengineering from theUniversité Libre de Bruxelles (Belgium). My Master's thesis was
focused on studying the mechanisms of corticogenesis in mammals using
mouse embryonnic stem cells.I also did an applied research project in
computational fluid dynamics.
Following this, I did an Mphil in Computational Biology at the
University of Cambridge, in an attempt to combine my biological and
mathematical/engineering interests. This Master's included a 3 months
research project during which I developped an R/Bioconductor package for
gene set and network analysis oflarge scale RNAi data sets.I applied
these and other networks methods to investigate genetic interactions
with BRCA2 in order to have a better understanding of its functions and
involvement in breast cancer.
My PhD at the EMBL-EBI is focused on the developpement of a modelling
framework for signalling and regulatory networks that can accomodate
heterogeneous biological knowledge.This will in turn be applied to the
analysis of biochemical data related to various human diseases.
My original education is in wet-lab biology. I studied molecular sciences at Wageningen University in the Netherlands, specializing in molecular biology.
I briefly worked in a C. elegans lab on RNA-induced gene silencing. But starting from 2005, I switched completely to bioinformatics. In December
2011 I completed my PhD in Bioinformatics at Maastricht University,
entitled "Data Integration with Biological Pathways". For this thesis I
integrated proteomics and transcriptomics data, and visualized it
together on a collection of publicly curated pathways.
From July 2010 to July 2011 I worked for the Systems Biology Consortium
in the Netherlands, on interoperability between Systems Biology tools,
in particular using the Systems Biology Graphical Notation (SBGN). SBGN
is a set of standardized rules for visualizing biological processes.
My topics of interest are pathway analysis and pathway visualization, as
well as in open source software project management. I'm involved in
several big open source bioinformatics projects, namely: WikiPatways,
PathVisio, BridgeDb and LibSBGN. In the near future I want to contribute
to computational modelling of pathways. I believe that computational
modelling is the only way to make the intricate complexity of pathways
understandable.
