Workshop 14- BILIS

International Workshop on High Performance Computing Systems for Biomedical, Bioinformatics and Life Sciences

(BILIS 2011)

Call for Papers

As part of

The 2011 International Conference on High Performance Computing & Simulation

(HPCS 2011)

In Conjunction With

The International Wireless Communications and Mobile Computing Conference (IWCMC 2011)

July 4 – 8, 2011

Istanbul, Turkey

(EXTENDED Submission Deadline: February 25, 2011)


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.

In the current Information age, further progress of Medical Sciences requires successful integration with Computational and Information Sciences. This 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 at 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 computations 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 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

    • Algorithms and Tools for Biomedical Imaging and Medical Signal Processing

    • Energy Aware Scheduling Techniques for Large Scale Biomedical Applications

    • HPC for Structure Prediction

    • Next Generation Sequencing and Advanced Tools for DNA Assembly

    • 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


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. Submission should include a cover page with authors' names, affiliation addresses, fax numbers, phone numbers, and authors email addresses. Please, indicate clearly the corresponding author and include up to 6 keywords from the above list of topics and an abstract of no more than 450 words. The full manuscript should be at most 7 pages using the two-column IEEE format. Additional pages will be charged additional fee. 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 organizer at

Only PDF files will be accepted. Each paper will receive a minimum of three reviews. Papers will be selected based on their originality, contributions, relevance, technical clarity and presentation. Authors of accepted papers must guarantee that their papers will be registered and presented at the workshop. Accepted papers will be published in the conference proceedings which will be made available at the time of the meeting.

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

Important Dates:

  • Full Paper Submission Deadline: February 25, 2011

  • Notification of Acceptance: March 24, 2011

  • Extended Registration & Camera-Ready Manuscripts Due: April 29, 2011

  • Conference Date: July 4-8, 2011


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:

International Program Committee:

All submitted papers will be rigorously reviewed by the workshop technical program committee members following similar criteria used in HPCS 2011.

  • Sanjukta Bhomwick, University of Nebraska - Omaha, Nebraska, USA

  • Alexander Churbanov, New Mexico State University - Las Cruces, New Mexico, USA

  • Xutao Deng, City of Hope Medical Center - Duarte, California, USA

  • Huimin Geneg, Weill Cornell Medical College - New York, New York, USA

  • Ying Liu, Graduate University of Chinese Academy of Sciences, Beijing, China

  • Daniel Quest, Oak Ridge National laboratory - Knoxville, Tennessee, USA

  • Simon Sherman, University of Nebraska Medical Center - Omaha, Nebraska, USA

  • TBA

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 contact one of the Conference's organizers. If you have any questions about the HPCS 2011 conference paper submission, please contact Conference Program Chair: Waleed W. Smari, Voice: +1 (937) 681-0098, Email: