PDP 2018 conference



Advances in High-Performance Bioinformatics

and Biomedicine

The computational approach to biology and biomedicine is dealing with an enormous availability of high throughput data and an extreme complexity in the analysis of life systems. Both these issues make the scaling-up promise of High Performance Computing (HPC) extremely appealing. Currently, the possibility of parallelising algorithms and analysis techniques exploiting the various HPC emerging frameworks is receiving a lot of interest. Examples include the porting of legacy applications to clusters, e.g. those for genome analysis and assembly, and the use of distributed technologies, cloud computing, on-chip supercomputing, GPGPUs, and massively parallel architectures for the treatment of high-throughput data-sets. HPC frameworks is becoming particular relevant in biomedicine to speed-up the analysis of tumor molecular profiling data allowing researchers to better characterize the principles of tumor evolution across cancer types.
The aim of this special session is to present the latest efforts in HP Computational Biology and to foster the integration of researchers interested in HPC and Computational Biology.
Negotiations are ongoing for the publication of a Supplement of BMC Bioinformatics with full articles dedicated to the subjects presented at the conference. 


Paper submission: 15rd Nov 2017 
Acceptance notification: 1st Dic 2017 
Camera ready due: 22nd Dic 2017 
Conference: 21st - 23rd Mar 2018


  • Algorithms for genomics and proteomics
  • DNA assembly and mapping
  • Sequence analysis
  • SNP analysis and classification
  • Expression analysis and clustering techniques
  • Phylogeny reconstruction algorithms
  • Biological databases for big data management
  • Virtual labs and experiments
  • Parallel architectures for Computational Biology
  • System infrastructure for high throughput analysis
  • Algorithms and models for cancer evolution
  • Approaches to cancer clones identification


Parallel and distributed high-performance computing

solutions in Systems Biology

Systems Biology deals with the analysis of natural systems at various scales of complexity, requiring different modeling frameworks and computational methods. The applicability of these approaches may be hampered by excessively burdensome execution times. The scope of this special session is to bring together researchers involved in the development of computational methods specifically accelerated either by means of conventional architectures (e.g., computer clusters, GRID computing) or by unconventional technologies (e.g., Graphics Processing Units, Many Integrated Core coprocessors, cloud computing, biomimetic devices).


Paper submission: 15th Nov 2017 
Acceptance notification: 5th Dic 2017 
Camera ready due: 22nd Dic 2017 
Conference: 21st - 23rd Mar 2018


  • analysis at the single-cell level
  • analysis and visualization of genome-wide models
  • analysis of robustness of cellular networks
  • Bayesian inference of biological systems
  • biomedical model parameterization
  • cancer progression models
  • design of synthetic biological components and circuits
  • drug design
  • emergent properties in complex biological systems
  • flux balance analysis
  • biomedical image analysis
  • metabolic engineering
  • metabolic pathway analysis
  • model verification and refinement methods
  • multi-scale modeling and simulation of biological systems
  • parameter estimation methods
  • personalized models in Systems Medicine
  • reverse engineering of reaction networks
  • software tools for Systems and Synthetic Biology
  • spatio-temporal modeling and simulation of biological systems