Aleksandar Ilic

Open Positions

The SiPS Group at INESC-ID, Lisbon (Portugal) is looking for a talented and motivated POSTDOC, to work on Secure High Performance and Energy-efficient Processing of Bioinformatic Applications on Emergent Heterogeneous Systems, mainly on multi-core CPUs, GPUs, FPGAs, etc.

Strong parallel programming, analytical and writing skills are required (background in bioinformatics is desirable, but not strongly required). The position is initially for 1+2 years, starting at the earliest in late 2018, early 2019.
The call remains open until a fitting candidate is found.

If interested, please send your CV, one-page statement of research interests, and one sample publication electronically to Leonel Sousa (las@inesc-id.p) and Aleksandar Ilic (ilic@inesc-id.pt).

The PostDoc will be integrated in a dynamic research team and the position is funded by the HiPerBio project (see below).

We are also looking for talented and enthusiastic PhD Students to develop their Thesis in the scope of HiPerBio project. A formal background in biology is not required, although applicants should demonstrate a strong interest in parallel programming and heterogenous systems (e.g., CPU+GPU). The propospective candidates are also encouraged to explore the use of machine learning and computational intelligence methods to improve the accuracy and execution time of existing bioinformatics applications.
For further information, please contact Aleksandar Ilic at aleksandar.ilic@inesc-id.pt.

HiPerBio Project

High Performance and Energy-efficient Processing of Bioinformatic Applications on Emergent Heterogeneous Systems

FEDER-LISBOA and FCT | National Project (Portugal)

LISBOA-01-0145-FEDER-031901 (PTDC/CCICOM/31901/2017)

Massive publication of biological data has led to the tremendous increase in computational complexity of modern bioinformatics applications, thus urging the development of fast and accurate methods to find solutions in exponentially-growing search spaces. To tackle this challenge, this project aims at fully exploiting parallel processing opportunities of different bioinformatics applications (high order epistasis detection and phylogenetic reconstruction) for secure high performance and energy-efficient computing in emerging heterogeneous systems. For this purpose, in this project, a set of breakthrough modeling and innovative task scheduling methods are proposed to leverage the capabilities of computation, communication and memory resources by considering an extensive range of current and future heterogeneous systems: from embedded and general-purpose multi-core CPU systems, up to platforms with massively parallel accelerators, co-processors and reconfigurable devices (i.e., GPUs and FPGAs).

Research Team

This project has a strong multi-disciplinary nature, which pushes the current knowledge by combining the expertise of team members from different scientific areas: computer architecture, software engineering, bioinformatics and security. The research team consists of:

• Aleksandar Ilic (PI)
• Leonel Sousa (co-PI)
• Sergio Santander-Jimenez (co-PI)
• Ricardo Chaves
• Paolo Romano
• José Germano