Workshop on Clusters, Clouds and Grids for Life Sciences

In conjunction with CCGrid 2019 - 19th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing, May 14–17, 2019, Larnaca, Cyprus

Program May 14, 9:00h-12:30h at Golden Beach Bay Hotel Hotel

We are happy to announce, that 6 submissions have been accepted for the workshop, encompassing diverse topics of distributed computing in life sciences. See the list below. Furthermore we could The workshop fee is included in the full CCGrid conference fees. Registration is possible on the main conference's registration site.

Session 1
9:00 - 9:15 Welcome and Introduction by the Workshop Chairs
9:15 - 10:00 Keynote: Towards data intensive aware programming models for Exascale systems
Javier Garcia-Blas, UC3M, Madrid
10:00 - 10:30 On distributed collaboration for biomedical analyses
Fatima-Zahra Boujdad, Alban Gaignard, Mario Südholt, Wilmer Garzón Alfonso, Luis Daniel Benavides Navarro and Richard Redon
Coffee Break 10:30 - 11:00
Session 2
11:00 - 11:30 Reproducibility and Performance of Deep Learning Applications for Cancer Detection in Pathological Images
Christoph Jansen, Bruno Schilling, Klaus Strohmenger, Michael Witt, Jonas Annuscheit and Dagmar Krefting.
11:30 - 12:00 Exploiting stream parallelism of MRI reconstruction using GrPPI over multiple back-ends
Javier Garcia Blas, David Del Río Astorga, Jose Daniel Garcia and Jesus Carretero.
12:00 - 12:30 Towards a Science Gateway for Bioinformatics: Experiences in the Brazilian System of High Performance Computing
Kary Ocaña, Marcelo Galheigo, Carla Osthoff, Luiz Gadelha, Antônio Tadeu A. Gomes, Daniel de Oliveira, Fabio Porto and Ana Tereza Vasconelos
12:30 - 13:00 Big Data Analytics Exploration of Green Space and Mental Health in Melbourne
Richard Sinnott and Ying Hu.
Lunch 13:00 - 14:00
Session 3


Computational methods are nowadays ubiquitous in the field of bioinformatics and biomedicine. Besides established fields like molecular dynamics, genomics or neuroimaging, new emerging methods like deep learning models rely heavily on large scale computational resources. These new methods need to manage Tbytes or Pbytes of data with large-scale structural and functional relationships, TFlops or PFlops of computing power for simulating highly complex models, or many-task processes and workflows for processing and analyzing data. Today, many areas in Life Sciences are facing these challenges, such as biomodelling, predictive models of disease and treatment, evolutionary biology, medical biology, cell biology, biomedical image processing, biosignal sensoring or computer-supported diagnosis. This new situation demands appropriate IT-infrastructures, where biological and medical data can be processed within an acceptable timespan - reaching from minutes in health-care applications to days in large-scale research projects. Distributed IT-systems such as Grids, Clouds, Fogs and Big Data Environments are promising to address research, clinical and medical research community requirements. They allow for significant reduction of computational time for running large experiments and for speeding-up development time for new algorithms. Furthermore, they can increase the availability of new methods for the research community and reduce barriers for large-scale multi-centric collaborations. However, specific challenges in the employment of such systems for biomedical applications - such as security, reliability and user-friendliness - often impede straightforward adoption of existing solutions from other application domains. This workshop aims at bringing together developers of bioinformatics and medical applications and researchers in the field of distributed IT systems. It addresses researchers who are already employing distributed infrastructure techniques in biomedical applications as well as computer scientists working in the field of distributed systems interested in bringing new developments into the biomedical area. The goals of the workshop are to exchange and discuss existing solutions and latest developments in both fields, and to identify the remaining challenges. The workshop further intends to identify common requirements to lead future developments in collaboration between Life Sciences and Computing Sciences. It aims to explore new ideas and approaches to successfully apply distributed IT-systems in translational research, clinical intervention, and decision-making.

This workshop aims at bringing together developers of bioinformatics and biomedical applications and researchers in the field of distributed IT systems. The goals of the workshop are to exchange and discuss existing solutions and latest developments in both fields, in particular for identified gaps and roadblocks. The workshop further intends to collaboratively explore new approaches to successfully apply distributed IT-systems in translational research, clinical intervention, and decision-making.

A special issue in Future Generation Computer Systems (Impact Factor 4.6) is confirmed.

Topics of Interest

Contributions are expected but not restricted to the following topics:

  • Detailed application use-cases highlighting achievements and roadblocks
  • Exploitation of distributed IT resources for Life Sciences, HealthCare and research applications, for example medical imaging, disease modeling, bioinformatics, Public health informatics, drug discovery, clinical trials
  • Service and/or algorithm design and implementation applicable to medical and bioinformatic applications
  • Improved energy consumption of bioinformatic applications using clouds
  • Modeling and simulation of complex biological processes
  • Genomics and Molecular Structure evolution
  • Molecular Dynamics
  • Clouds for big data manipulation in bioinformatics and medicine
  • Ontologies and biomedical text mining
  • Biological data mining and visualization
  • Machine Learning in biomedical data analytics
  • Deep learning experiences in Life Sciences
  • Error handling and fault tolerance
  • Distributed and heterogeneous bioinformatic and medical data management
  • Big Medical and Bioinformatic Data applications and solutions
  • Data privacy, security and access control
  • Development environments for distributed bioinformatic applications
  • Programming paradigms and tools for bioinformatic applications
  • Scientific gateways and user environments targeting distributed medical and bioinformatic applications
  • Interoperability for exchanging data, algorithms and analysis pipelines

Special Issue

Extended versions of selected papers accepted and presented at CCGrid-Life 2019, after further revisions, will be published in a special issue of the journal Future Generation Computer Systems (FGCS), impact factor: 4.639.


Submission Guidelines

Manuscript submission

Authors are asked to prepare their manuscripts according to the IEEE format for conference proceedings.

IEEE Manuscript Templates

Submitted manuscripts should be structured as technical papers and may not exceed 10 pages (letter-size 8.5'' x 11'') including figures, tables and references.The initial submission needs to be in pdf format. Submitted papers must represent original unpublished research that is not currently under review for any other conference or journal. We strongly encourage authors to consider open source code and open data wherever possible. Manuscripts must be submitted to the submission online system EasyChair no later than the indicated submission deadline.


Please register for an account as author if you do not already have one. Select the track "Workshop on Clusters, Clouds and Grids for Life Sciences". If you cannot access the submission website or have difficulties completing your submission, please contact the workshop chairs for assistance. --> All papers will be reviewed by at least 3 independent reviewers from the international program committee. Papers will be selected based on their originality, their interest for the research community, the quality of the use-case description, the description of the technical solution, the impact of the application and/or technical description and the status of the work. All papers presented at the main conference and workshops of IEEE/ACM CCGrid will be submitted to IEEE Xplore for publication and EI indexing.