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<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>***********************************************************************************************************************************</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Call for Papers:</span></font></p>
<p class=MsoNormal><i><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial;font-style:italic'>Special Issue on Computing Architectures
and Acceleration for Bioinformatics Algorithms</span></font></i></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>The Journal of VLSI Signal Processing Systems for Signal,
Image, and Video Technology (Elsevier)</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>***********************************************************************************************************************************</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><b><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial;font-weight:bold'>Important Dates</span></font></b></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Deadline for submission of full paper: <b><span
style='font-weight:bold'>1 December 2006</span></b></span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Completion of review/notification of acceptance: 1 January
2007</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Revised paper due: 1 February 2007</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Notification of final decision: 15 February 2007</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Publication of electronic version: February 2007</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Publication of printed version: June 2007</span></font></p>
<p class=MsoNormal><b><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial;font-weight:bold'> </span></font></b></p>
<p class=MsoNormal><b><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial;font-weight:bold'>Description</span></font></b></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>The goal of this special issue is to present the current
research and critical review on computing architectures, hardware-accelerated
algorithms, and software systems for bioinformatics data processing tasks.
During the last decades, research in the fields of molecular biology and
biomedicine has provided the scientific community with huge amount of data
through sequencing, genome-wide annotation, gene expression profiling and
proteomics projects. The genetic databases have been growing exponentially and
sophisticated computer algorithms have been developed to cater for needs of
data mining, analysis and simulation. It is clear that development of high
performance computing technologies has become crucial for deployment of the
software systems to tackle various bioinformatics problems.</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Papers published in this issue will address the
compute-intensive bioinformatics algorithms and system development, and the
applications ranging from fundamental computational biology to biomedical
applications. Along with the data processing in genomics and proteomics, we are
especially interested in the following computational solutions:</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• DNA sequence alignment and assembly</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Heuristic sequence database searching</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Identification of structural and genetic features on
a genome</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Genetic function mapping</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• RNA secondary structure modeling</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• SAGE and microarray data mining</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Clustering algorithms and gene profiling</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Protein folding and structural modeling</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Protein-ligand docking and inter-protein interaction</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Comparative genomics and molecular phylogeny</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Machine learning algorithms such as neural network,
HMM and SVM for bioinformatics</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Authors should emphasize exploratory work on the use of
modern computing architectures, and different metric change rates such as
compute versus communicate, and latency versus bandwidth. Computing
architectures of interest include reconfigurable architectures such as
Field-Programmable Gate Arrays, systolic architectures, multi-core
architectures and chip level multiprocessing, SIMD and MIMD architectures,
cluster and compute farm, grid computing, multi-thread and stream computing
architectures, and multimedia architectures. Original research, significant
improvement of previous methods and in-depth survey on the above topics are
invited to the special issue. And as a general guideline to submission to The
Journal of VLSI Signal Processing Systems, papers can be categorized into</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Architectural design and analysis</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Computation methodology</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• System performance analysis (including measurement,
modeling, and simulation)</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>• Review and prospect analysis</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><b><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial;font-weight:bold'>Online Manuscript Submission</span></font></b></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Manuscripts for this special issue should be submitted
online at the following URL: <a href="http://www.editorialmanager.com/vlsi"
title="http://www.editorialmanager.com/vlsi">http://www.editorialmanager.com/vlsi</a>.
The instructions for the authors can be found there. Especially, when you are
prompted to Select Article Type, choose “<i><span style='font-style:italic'>Special
Issue – CompuArch & Bioinfo</span></i>”. All the papers will be
reviewed by the Guest Editors and invited reviewers, and recommended to the
Editorial Board for publication.</span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><b><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial;font-weight:bold'>Guest Editors</span></font></b></p>
<p class=MsoNormal><font size=3 face=Arial><span style='font-size:12.0pt;
font-family:Arial'>Dr Feng Lin: <a href="mailto:asflin@ntu.edu.sg"
title="mailto:asflin@ntu.edu.sg">asflin@ntu.edu.sg</a><span lang=DE> </span></span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span lang=DE style='font-size:12.0pt;
font-family:Arial'>Dr Heiko Schröder: <a href="mailto:heiko@cs.rmit.edu.au"
title="mailto:heiko@cs.rmit.edu.au">heiko@cs.rmit.edu.au</a> </span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span lang=DE style='font-size:12.0pt;
font-family:Arial'>Dr Bertil Schmidt: <a href="mailto:asbschmidt@ntu.edu.sg"
title="mailto:asbschmidt@ntu.edu.sg">asbschmidt@ntu.edu.sg</a></span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span lang=DE style='font-size:12.0pt;
font-family:Arial'> </span></font></p>
<p class=MsoNormal><font size=3 face=Arial><span lang=DE style='font-size:12.0pt;
font-family:Arial'> </span></font></p>
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