In the last 20 years, computational methods have become an important part of developing emerging technologies for the field of bioinformatics and biomedicine. Research areas such as biomodelling, molecular dynamics, genomics, neuroscience, cancer models, evolutionary biology, medical biology, biochemistry, biophysics, biotechnology, cell biology, nanobiotechnology, biological engineering, pharmacology, genetics therapy, or automatic diagnosis, rely heavily on large scale computational resources as they 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.
As applications require more and more computational resources every day in order to increase the knowledge of biological and health processes, bio disciplines create new challenges of scale for computation, storage, and interpretation of petascale data that are difficult to solve with single clusters. Cloud computing has the potential to help solve these problems by offering a utility model based on highly flexible computing and storage capabilities and abstraction layers that allows overcoming many of the constraints present in dedicated systems. It may also increase research productivity by allowing sharing applications, tools, and algorithms in an easy way.
The aim of the workshop is to promote the synergies of the cloud computing and bio communities by exploring applications developed in clouds, cloud systems enhancements for bio, and new trends and needs shared between both communities.Thus, this workshop will feature articles that discuss the application of cloud computing to bioinformatics and biomedicine, including solutions to area problems and architectural adaptation of cloud systems to fit those problems.
TopicsAreas of interest of the workshop include, but are not limited to:
Paper submission guidelines
Authors are invited to submit papers electronically in PDF format. Submitted manuscripts should be structured as technical papers and may not exceed 10 letter-size (8.5 x 11) pages including figures, tables and references using the IEEE format for conference proceedings. Submissions not conforming to these guidelines may be returned without review. Authors should make sure that their file will print on a printer that uses letter-size (8.5 x 11) paper. The official language of the conference is English. All manuscripts will be reviewed and will be judged on correctness, originality, technical strength, significance, quality of presentation, and interest and relevance to the conference attendees.
Paper submissions are limited to 10 pages in 2-column IEEE format including all figures and references. Submitted manuscripts exceeding this limit will be returned without review. For the final camera-ready version, authors with accepted papers may purchase additional pages at the following rates: 100 USD for each of the first two additional pages; 200 USD for each of the third and fourth additional pages.
The paper submission online system is open: https://www.easychair.org/conferences/?conf=c4bio2014.
Extended versions of distinguished selected papers accepted and presented in C4Bio 2014, after further revisions, will be published in a special issues of the Scalable Computing: Practice and Experience journal (SCPE) that is indexed in SCOPUS.
Program May 26, 8:30h-17:30h at Hyatt Regency Chicago, 151 East Wacker Drive
The workhop is jointly held as a full-day event together with Workshop on Clusters, Clouds and Grids for Health CCGrid Health. The workshop fees are included into the CCGrid 2014 conference fees. One day registration is possible via the main conference registration.
|Introduction and Keynotes|
|8:45 - 9:00||
Welcome and Introduction
|9:00 - 10:00||
Keynote CCGrid-Health: Robert Grossman
Biomedical Clouds and Biomedical Data Commons And Why They Are Changing Health Care Research
|10:00 - 10:30||
Keynote C4Bio: Jesus Carretero
Sustainable Ultrascale Computing Systems: Applications in Biomedicine and Bioengineering
|11:00 - 12:30||
Global Initiative for Sentinel e-Health Network on Grid (GINSENG), Medical data integration and semantic developments for epidemiology
Sébastien Cipière, Guillaume Ereteo, Alban Gaignard, Nouha Boujelben, Sébastien Gaspard, Vincent Breton, Frédéric Cervenansky, David Hill, Tristan Glatard, David Manset, Johan Montagnat, Jérôme Revillard and Lydia Maie.
Extending XNAT towards a Cloud-based Quality Assessment Platform for Retinal Optical Coherence Tomographies
Jie Wu, Christoph Jansen, Maximilian Beier, Michael Witt and Dagmar Krefting
Distributed Detection of Cancer Cells in Cellular Spike Streams
Abdul Hafeez, M. Mustafa Rafique and Ali R. Butt
C4Bio Session 1
|13:30 - 15:00||
Accelerating Comparative Genomics Workflows in a Distributed Environment with Optimized Data Partitioning
Olivia Choudhury, Nicholas Hazekamp, Douglas Thain and Scott Emrich
Integration of Clustering and Multidimensional Scaling to Determine Phylogenetic Trees as Spherical Phylograms Visualized in 3 Dimensions Yang Ruan, Geoffrey L. House, Saliya Ekanayake, Ursel Schütte, James D. Bever, Haixu Tang and Geoffrey C. Fo
A Survey of Approches and Frameworks to Carry out Genomic Data Analysis on the Cloud Philip Church and Andrzej Goscinski
A storage policy for a hybrid federated cloud platform executing bioinformatics applications Deric Lima, Breno Moura, Gabriel Oliveira, Edward Ribeiro, Aleteia Araujo, Maristela Holanda, Roberto Togawa and Maria Emilia Walter
C4Bio Session 2
|15:30 - 16:30||
A Performance Evaluation of Sequence Alignment Software in Virtualized Environments
Zachary J. Estrada, Zachary Stephens, Cuong Pham, Zbigniew Kalbarczyk and Ravishankar K. Iyer
From scripted HPC-based NGS pipelines to workflows on the cloud Jacek Cala, Yaobo Xu, Eldarina Azfar Wijaya and Paolo Missier
Evaluation of the feasibility of making large-scale X-ray tomography reconstructions on clouds Estefania Serrano, Guzman Bermejo, Javier Garcia Blas and Jesus Carretero
|16:30 - 17:30||Conclusion and Closing|