PhD Position in machine learning in computational structural biology at Multiscale lab of GRIB

Centre / Institution:
Pompeu Fabra University
Bioinformatics expertise:
Biomedical Informatics, Structural Bioinformatics, Systems Biology and Networks
machine learning; computational biology; structural biology; machine intelligence; simulations

Job description

Academic supervisor: Universitat Pompeu Fabra and Prof. Gianni De Fabritiis, Icrea research professor, are looking to recruit a young scientist for a PhD of the duration of approximatively 3 years on the topic between machine learning, machine intelligence, simulations and computational biology.

Aims: This project aims to develop artificial neural networks applied to structural biology, drug discovery and computational chemistry. The aim is to go substantially beyond the state-of-the-art in the use of machine learning and GPU computing, exploring supervised, unsupervised and reinforcement learning approaches.

We expect the candidate to participate in the development of new learning approaches derived from deep learning, other brain-inspired learning algorithms, GPU and distributed computing. By working in this project, the researcher will have access to state of the art computational project like and large amount of simulation data, which will be crucial for the development and validation of novel computational protocols. This project is expected to lead to discoveries that will be publishable in the highest impact scientific journals.

Location: Barcelona, Spain, Barcelona Biomedical Research park. The laboratory is part of the Barcelona Biomedical Research Park which, with a privileged location on the shoreline of the Mediterranean sea, constitutes one of the most exciting interdisciplinary research centres in Southern Europe with more than 1000 scientists in the building alone.

Relevant References:

Desired skills and expertise

The candidate will preferably have a profile in physics, computer science, mathematics, chemistry and engineering, but other fields are also considered. We seek exceptional candidates with a passion for programming and computing, the capability to think out of the box, the ambition to work in very innovative projects and very good communication skills in English. Prior knowledge in neural information processing, deep learning frameworks (pyTorch, Tensorflow) is desirable, as well previous experience with CUDA programming, C/C++ and Python. This is a strongly computational position, so we encourage application of people that love algorithms, computing, programming and likes to apply it.

​The candidate will be able to use, one of the largest volunteer computing project worldwide with thousands of GPUs. The laboratory is very well equipped with access to a local GPU and CPU cluster, hundreds of TB of storage and experimental facilities.

The molecular modelling will be using state of the art software environments in molecular modelling and simulations (http://www.htmd.org developed by the research group in collaboration with the spin-off company Acellera. 

There will be ample opportunities to present his/her work at international meetings and conferences and to collaborate with other research groups in USA and Europe.

Contract duration and other benefits

Contract duratios of 3 years. Salary depending on the experience of the candidate.

Required information and contact

Interested candidates should apply by sending a complete CV and a short letter of presentation indicating their interests together with the names and addresses of three referees. The title of this offer must be clearly stated in any communication.