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Mario Cannataro <[log in to unmask]>
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Thu, 13 Mar 2014 21:02:56 +0100
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                          I apologize for any cross-posting of this

                                                   Workshop 16-BILIS
   Int. Workshop on High Performance Computing Systems for Bioinformatics
and Life Sciences
                                                         (BILIS 2014)

As part of The International Conference on High Performance Computing &
Simulation (HPCS 2014)  or

                                                  July 21 – July 25, 2014
                                               The Savoia Hotel Regency
                                                         Bologna, Italy

                      * * * CALL FOR PAPERS - DEADLINE EXTENDED MARCH 25,
2014 * * *
                Submissions could be for full papers, short papers, poster
papers, or posters

Incorporating new advancements of Information Technology (IT) in general
and High Performance Computing (HPC) in particular in the domain of Life
Sciences and Biomedical Research continues to receive tremendous attention
of researchers, biomedical institutions and the rest of the biomedical
community. Although medical instruments have benefited a great deal from
the technological advances of the couple of decades, the impact of
integrating IT advancements in addressing critical problems in biomedical
research remains limited and the process of penetrating IT tools in the
medical profession continues to be a very challenging problem.  For
example, the use of electronic medical records and Hospital Information
Systems in improving health care remains fragmented. Similarly, the use of
advanced computational tools seamlessly in the biomedical research cycle
continues to be minimal.

Due to the computational intensive problems in life sciences, the marriage
between the Bioinformatics domain and high performance computing is
critical to the advancement of Biosciences. In addition, the problems in
this domain tend to be highly parallelizable and deal with large datasets,
hence using HPC is a natural fit. The Bioinformatics domain is rich in
applications that require extracting useful information from very large
and continuously growing sequence of databases. Most methods used for
analyzing DNA/Protein sequences are known to be computationally intensive,
providing motivation for the use of powerful computational systems with
high throughput characteristics.

Moreover, high-throughput wet lab platforms such as next generation
sequencing, microarray and mass spectrometry, are producing a huge amount
of experimental "omics" data.  The increasing availability of omics data
poses new challenges to bioinformatics applications that need to face in a
semi-automatic way an overwhelming availability of raw data. Main
challenges regard: 1) the efficient storage, retrieval and integration of
experimental data; 2) their efficient and high-throughput preprocessing
and analysis; 3) the building of reproducible "in silico" experiments; 4)
the integration of analysis results with pre-existing knowledge usually
stored into ontologies.

As the storage, preprocessing and analysis of raw experimental data is
becoming the main bottleneck of the analysis pipeline, parallel computing
is playing an important role in all steps of the life sciences research
pipeline, from raw data management and processing, to data integration and
analysis, and to data exploration and visualization. Moreover, Cloud
Computing is becoming the key technology to hide the complexity of
computing infrastructures, to reduce the cost of the data analysis task,
and especially to change the overall business model of biomedical research
and health provision.

Considering the complex analysis pipeline of the biomedical research, the
bottleneck is more and more moving toward the storage, integration, and
analysis of experimental data, as well as their correlation and
integration with publicly available data banks In such a scenario,
large-scale distributed databases and parallel bioinformatics tools are
key tools for organizing and exploring biological and biomedical data with
the aim to discover new knowledge in biology and medicine.

In the current Information age, further progress of Medical Sciences
requires successful integration with Computational and Information
Sciences. The workshop attempts to attract innovative ways of how such
integration can be achieved via Bioinformatics and Biomedical Informatics
research, particularly in taking advantage of the new advancements in HPC
systems. The focus of data analysis and data mining tools in biomedical
research highlights the current state of research in the key biomedical
research areas such as bioinformatics, medical informatics and biomedical
imaging. Addressing performance concerns in managing and accessing medical
data, while facilitating the ability to integrate and correlate different
biomedical databases remains an outstanding problem in biomedical
research. The amount of available biomedical data continues to grow in an
exponential rate; however, the impact of utilizing such resources remains
minimal. The development of innovative tools in HPC environments to
integrate, analyze and mine such data sources is a key step towards
achieving large impact levels.

The workshop focuses on topics related to the utilization of HPC systems
and new models of parallel computing and cloud computing in problems
related to Biomedical Informatics, along with the use of data integration
and data mining tools to support biomedical research and Health Care.

The BILIS Workshop topics include (but are not limited to) the following:
HPC for the Analysis of Biological Data
Bioinformatics Tools for Health Care
Parallel Algorithms for Bioinformatics Applications
Ontologies in Biology and Medicine
Integration and Analysis of Molecular and Clinical Data
Parallel Bioinformatics Algorithms
Algorithms and Tools for Biomedical Imaging and Medical Signal Processing
Energy Aware Scheduling Techniques for Large Scale Biomedical Applications
HPC for analyzing Biological Networks
Next Generation Sequencing and Advanced Tools for DNA Assembly
HPC for Gene, Protein/RNA Analysis and Structure Prediction
Identification of Biomarkers
Biomedical Visualization Tools
Efficient Clustering and Classification Algorithms
Correlation Networks in Biomedical Research
Data Mining Techniques in Biomedical Applications
Heterogeneous Data Integration
HPC systems for Ontology and Database Integration
Pattern Recognition and Search Tools in Biological and Clinical Databases
Ubiquitous Medical Knowledge Discovery and Exchange
HPC for Monitoring and Treatment Facilities
Drug Design and Modeling
Computer Assisted Surgery and Medical Procedures
Remote Patient Monitoring, Homecare Applications
Mobile and Wireless Healthcare and Biomedical Applications
Cloud Computing for Bioinformatics, Medicine, and Health Systems

You are invited to submit original and unpublished research works on above
and other topics related to HPC for Bioinformatics, Healthcare and Life
Sciences.  Submitted papers must not have been published or simultaneously
submitted elsewhere.  For Regular papers, please  submit  a PDF copy  of
your full manuscript,  not to exceed  8 double-column  IEEE formatted
pages, and include up to 6 keywords and an abstract of no more than 400
words.  Additional pages will be charged  additional  fee.   Submission 
should  include  a cover  page  with  authors'  names,  affiliation 
addresses,  fax numbers, phone numbers, and all authors email addresses.  
Please, indicate clearly the corresponding  author(s).   Short papers (up
to 4 pages), poster papers and poster (please refer to   for posters submission details)
 will also be accepted.   Please specify the type of submission you have. 
Please include page numbers on all preliminary submissions to make it
easier for reviewers to provide helpful comments.

Submit a PDF copy of your full manuscript via email to the Workshop
organizers at <[log in to unmask]> and <[log in to unmask]>.  Submissions
will be acknowledged within 48 hours.

Only PDF files will be accepted, sent by email to the workshop organizers.
 Each paper will receive a minimum of three reviews.  Papers will be
selected based on their originality, relevance, significance, technical
clarity and presentation.  Submission implies the willingness of at least
one of the authors to register and present the paper, if accepted.  At
least one of the authors of each accepted paper will have to register and
attend the HPCS 2014 conference to present the paper at the workshop.

Accepted papers will be published in the Conference proceedings. 
Instructions for final manuscript format and requirements will be posted
on the HPCS 2014 Conference web site.  It is our intent to have the
proceedings formally published in hard and soft copies and be available at
the time of the conference.  The proceedings is projected to be included
in the IEEE Digital Library and indexed in all major indexing services

If you have any questions about paper submission or the workshop, please
contact the organizers.

Extended Paper Submissions: -----------------March 25, 2014
Acceptance Notification: ---------------------April 15, 2014
Camera Ready Papers and Registration Due by: --May 06, 2014
Conference Dates:  --------------------------July 21 – 25, 2014

Prof. Hesham H. Ali
   Department of Computer Science
   College of Information Science and Technology
   University of Nebraska at Omaha
   Omaha, NE 68182  USA
   Phone:  +1 (402) 554-3623
   Fax:      +1 (402) 554-3284
   Email:   [log in to unmask]

Prof. Mario Cannataro
   Informatics and Biomedical Engineering
   University "Magna Gręcia" of Catanzaro
   Viale Europa (Localitą Germaneto)
   88100 Catanzaro, Italy
   Phone:  +39 0961-369 4100
   Fax:      +39
   Email:   [log in to unmask]

International Program Committee*:
All submitted papers will be rigorously reviewed by the workshop technical
program committee members following similar criteria used in HPCS 2014.
Dhundy Bastola, UNO Bioinformatics Core Facility, University of Nebraska -
Omaha, Nebraska, USA
Sanjukta Bhomwick, University of Nebraska - Omaha, Nebraska, USA
Marian Bubak, AGH University of Science and Technology, Kraków, Poland
Young-Rae Cho, Dept of Computer Science, Baylor University, Texas, USA
Alexander Churbanov, Nebraska Center of Virology, University of
Nebraska-Lincoln, Nebraska, USA
Kathryn Dempsey, University of Nebraska Medical Center (UNMC), Omaha,
Nebraska, USA
Xutao Deng, Beckman Research Institute, City of Hope Medical Center,
Duarte, California, USA
Giuseppe Di Fatta, University of Reading, U.K.
Huimin Geng, Institute of Computational Biomedicine, Weill Cornell Medical
College, NYC, New York, USA
Pietro Hiram Guzzi, University of Catanzaro, Italy
Mahantesh Halappanavar, Pacific Northwest National Lab, Richland,
Washington, USA
David Hill, Computer Science & Modeling Laboratory, Blaise Pascal
University, Cedex, France
Ying Liu, Graduate University of Chinese Academy of Sciences, Beijing, China
Jason Rafe Miller, J. Craig Venter Institute (JCVI), Rockville, Maryland, USA
Maria Mirto, Centro Euro-Mediterraneo sui Cambiamenti Climatici (CMCC), Italy
Daniel Quest, Mayo Clinic - Rochester, Minnesota, USA
Richard Sinnott, University of Melbourne, Australia
Roberto Tagliaferri, University of Salerno, Italy

   (*The TPC is pending and will be confirmed shortly.)

For information or questions about Conference's paper submission,
tutorials, posters, workshops, special sessions, exhibits, demos, panels
and forums organization, doctoral colloquium, and any other information
about the conference location, registration, paper formatting, etc.,
please consult the Conference’s web site at URL: or  or contact one
of the Conference's organizers.

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