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Monday, January 30, 2012

CFP: 2012 IEEE International Conference on Bioinformatics and Biomedicine (BIBM12)

2012 IEEE International Conference on Bioinformatics and Biomedicine (BIBM12)

October 4-7, 2012, Philadelphia, PA, USA,

The IEEE International Conference on Bioinformatics and Biomedicine
(BIBM) has established itself as the premier research conference in
bioinformatics and biomedicine. IEEE BIBM 2012 provides a leading
forum for disseminating the latest research in bioinformatics and
health informatics. It brings together academic and industrial
scientists from computer science, biology, chemistry, medicine,
mathematics and statistics.

We solicit high-quality original research papers (including
significant work-in-progress) in any aspect of bioinformatics and
biomedicine. New computational techniques and methods in machine
learning; data mining; text analysis; pattern recognition; knowledge
representation; databases; data modeling; combinatorics; stochastic
modeling; string and graph algorithms; linguistic methods; robotics;
constraint satisfaction; data visualization; parallel computation;
data integration; modeling and simulation and heir application in life
science domain are especially encouraged Relevant topics include but
are not limited to:

1. Genomics and Molecular Structure, Function and Evolution
a. Next-Gen Sequencing and Metagenomics
b. Evolution, Phylogeny, Comparative  Genomics
c. SNPs and haplotype analysis, GWAS
d. Protein/RNA Structure, Function and Interactions

2. Computational Systems Biology
a. Transcriptomics - Microarray Data Analysis
b. Gene Regulation, Alternative Splicing, Network/Pathway Analysis
c. Proteomics, PTMs, Metabolomics
d. Epigenomics, non-coding RNA analysis, DNA methylation analysis

3. Medical Informatics and Translational Bioinformatics
a. Biomedical Intelligence, Clinical Data Analysis, and Electronic
Health Record
b. Biomedical Signal/Image Analysis
c. Genome-Phenome Analysis
d. Biomarker Discovery

4. Cross-Cutting Computational Methods and Bioinformatics Infrastructure
a. Biomedical Text Mining and Ontologies
b. Biological Data Mining and Visualization
c. Computational Modeling and Data Integration
d. High Performance Computing

5. Healthcare Informatics
a. Healthcare knowledge representation & reasoning
b. Health data acquisition, analysis and mining
c. Healthcare information systems
d. Clinical Decision Support and Informatics


The Industrial Track solicits papers describing implementations of
Bioinformatics and Biomedicine solutions relevant to industrial
settings. The focus of industry track is on papers that address the
practical, applied, or pragmatic or new research challenge issues
related to the use of bioinformatics and biomedicine technologies in

* Journal special issues: IEEE BIBM has a tradition to publish
selected papers as special issues in highly respected journals. So
far we have confirmed the special issues publications with 7
journals: IEEE Transactions on Information Technology in
Biomedicine, IEEE Transactions on  System, Men and Cybernetics,
International Journal of Data Mining and Bioinformatics, BMC
Bioinformatics, BMC Proteomics, BMC Genomics, BMC Proteomics
Science,  Proteomics, Journal of Network Modeling and Analysis in
Health Informatics and Bioinformatics (In the past BIBM conference,
the number of special issues is: BIBM 2011-8 special issues, BIBM
2010-7 special issues, BIBM 2009-4 special issues; BIBM 2008-4
special issues)

* Student Travel Award: BIBM 2012 will offer as many as possible
student travel awards to student authors (including post-doc) (BIBM
2011-28 student travel awards, BIBM 2010-22 student travel awards,
BIBM 2009-16 student travel awards )

* Panel on Bioinformatics and Biomedicine Research Challenges and
Opportunities led by top researchers and program managers from NSF
and NIH

Conference Co-Chairs:

Prof. Lyle Ungar, University of Pennsylvania, USA, ungar@cis.upenn.edu
Prof. Cathy Wu, University of Delaware, USA, wuc@dbi.udel.edu

Program Co-Chairs:

Prof. Reda Alhaij, University of Calgary, Canada, rsalhajj@gmail.com
Prof. Jean Gao, University of Texas at Arlington, USA, gao@uta.edu
Prof. Dubitzky Werner, University of Ulster, UK, W.Dubitzky@ulster.ac.uk

Industry Program Committee Chair:

Dr. Anastasia Christianson, AstraZeneca, USA,

BIBM Steering Committee Chair:

Prof. Xiaohua Tony Hu, Drexel University, USA, thu@cis.drexel.edu

Paper Submission:

Please submit a full-length paper, up to 8 pages in IEEE double-column
format, through the online submission system. Formatting instructions
for Latex and Word are available at the online submission
site. Electronic submissions (in PDF or Postscript format) are
required. Selected participants will be asked to submit their revised
papers in a format to be specified at the time of acceptance.

Online Submission:


Important Dates:

Electronic submission of full papers: May 10, 2012
Notification of paper acceptance: July 20, 2012
Camera-ready of accepted papers: August 15, 2012
Conference: October 4-7, 2012

URL: http://www.ischool.drexel.edu/ieeebibm/bibm12/

Contact Person: Umit V. Catalyurek (catalyurek.1@osu.edu)

Tuesday, January 24, 2012

Announcement of HSB 2012

Call for Papers --- HSB 2012
First International Workshop on Hybrid Systems and Biology
Newcasle upon Tyne, UK, September 3, 2012
Colocated with CONCUR 2012


The goal of systems biology is to provide a system-level understanding of biological systems by unveiling their structure, dynamics and control methods. The intrinsic multi-scale nature of these systems, both in space, in organization levels, and in time, makes extremely difficult to model all of them in a uniform way, e.g. by means of differential equations or discrete stochastic processes. Furthermore such models are often not easily amenable to formal analysis and simulation at the organ or even the cell level is frequently impractical. Indeed, an important open problem is finding appropriate computational models that scale well for both the simulation and formal analysis of biological processes. Hybrid modeling techniques, combining discrete and continuous processes, are gaining more and more attention in systems biology, and they have been applied to successfully capture the behavior of several biological complex systems, ranging from genetic networks, biochemical rea ctions, signaling pathways and cardiac tissues electrophysiology.
This workshop aims at collecting scientists working in the area of hybrid modeling applied to systems biology, in order to discuss about current achieved goals, current challenges and future possible developments.

Topics of interest include, but are not limited to:
* Hybrid models of biological systems (case studies of genetic, cellular
models of tissues, etc.)
* Computational and mathematical analysis techniques for hybrid systems
(i.e. reachability, model checking, abstract interpretation, bifurcation
for hybrid dynamical systems, etc.), with applications in Systems Biology.
* Hybrid system identification techniques (learning the model from the
* Efficient simulation techniques for hybrid systems.
* Hybrid modeling languages for biological systems.
* Hybrid systems coping with incomplete and uncertain information.
* Sensitivity analysis for hybrid systems.
* Behaviour-driven parameters identification for hybrid systems.
* Analysis and simulation tools.

We solicit the submission of unpublished results that address on both
theoretical and
applied aspects of hybrid modeling techniques in systems biology.
The proceedings will be published in the Electronic Proceedings in
Theoretical Computer
Science (EPTCS) series. A special issue in a journal will be considered at
the end of the workshop.

Paper submission
Full papers should be no more than 15 pages long, typesetted in the
Electronic submissions of abstracts and of full-length papers (in PDF
format), can be done through
the online submission system:

Important dates
June 15, 2012 - Abstract submission deadline
June 22, 2012 - Full paper submission deadline
July 30, 2012 - Notification of paper acceptance
August 7, 2012 - Camera-ready of accepted papers

Program co-chairs
Ezio Bartocci, University of Stony Brook, USA
Luca Bortolussi, Univerity of Trieste, Italy

Program committee
Marco Antoniotti, University of Milano Bicocca
Gregory Batt, INRIA Paris-Rocquencourt, France
Alberto Casagrande, University of Trieste, Italy
Edmund Clarke, Carnegie Mellon, USA
Thao Dang, VERIMAG Lab, Grenoble, France
Alexandre Donzé, VERIMAG Lab, Grenoble, France
James R. Faeder, University of Pittsburgh, USA
Jasmin Fisher, Microsoft Research, Cambridge, UK
Vashti Galpin, University of Edinburgh, UK
Colas Le Guernic, NYU, USA
Oded Maler, VERIMAG Lab, Grenoble, France
Emanuela Merelli, University of Camerino, Italy
Bud Mishra, NYU, USA
Carla Piazza, University of Udine, Italy
Alberto Policriti, University of Udine, Italy
Scott A. Smolka, University of Stony Brook, USA
Gouhei Tanaka, University of Tokyo, Japan
Verena Wolf, Saarland University, Germany
Paolo Zuliani, Carnegie Mellon, USA
URL: http://hsb2012.units.it/

Contact Person: Luca Bortolussi (luca@dmi.units.it)

Monday, January 23, 2012

Integrative Network Biology 2012: Network Medicine

The Technical University of Denmark (DTU) is organizing a meeting of world-leaders in systems and network biology.

This symposium will take place in Helsingør, Denmark, on the 11th and 13th of May 2012.

The theme of this conference will be the use of novel experimental and computational approaches to study signalling networks, and how network models can be applied to the study and targeting of complex diseases such as cancer, diabetes and neurological disorders.
URL: http://www.networkbio.org

Contact Person: Rune Linding (networkbio@cbs.dtu.dk)

Saturday, January 21, 2012

AREADNE 2012 Call for Abstracts

Research in Encoding and Decoding of Neural Ensembles
Nomikos Conference Centre, Santorini, Greece
21-24 June 2012

The AREADNE conferences bring scientific leaders from around the world to present their newest findings on the functioning of neuronal ensembles in an informal yet spectacular setting on Santorini. The conference emphasizes interaction with a size and pace that encourages in-depth discussion. Interested researchers are strongly encouraged to submit an abstract for poster presentation as attendance is strictly limited, and even with spots preferentially going to presenters, the conference typically sells out.
URL: http://areadne.org

Contact Person: John Pezaris (info@areadne.org)

Thursday, January 19, 2012

Call for Nominations 2012 National Medal of Science

The National Medal of Science and the National Medal of Technology and Innovation are the highest honors the Presidentbestows in science, technology, and innovation – help recognize the contributions of your colleagues by submitting a nomination for these prestigious awards before March 31.

National Medal of Science
The National Medal of Science, established in 1959, is the Nation's highest honor for American scientists and engineers. The Medal is given to individuals deserving of special recognition by reason of their outstandingcumulative contributions to knowledge in the chemical, physical, biological, mathematical, engineering, or behavioral or social sciences, in combinationwith exemplary service to the Nation. It is administered by the National Science Foundation and, to date, has been awarded to over 450 individuals.

Nominations must be submitted by March 31, 2012. A complete submission consists of a nomination form and three letters of support. These items must be received via the National Science Foundation's FastLane system at https://www.fastlane.nsf.gov/honawards. If you have any questions, please contact the program manager at nms@nsf.gov or 703-292-8040. For more information, please visit http://www.nsf.gov/od/nms/medal.jsp.

National Medal of Technology and Innovation
The National Medal of Technology and Innovation, first awarded in 1985, is the Nation's highest honor for technological achievement and innovation. The Medal is given to individuals, teams, companies, or divisions for their outstanding contributions to the Nation's economic, environmental, and social well-being through the development and commercialization of technology products, processes, and concepts; technological innovation; and development of the Nation's technological manpower.

Nominations must be submitted by March 31, 2012. A complete submission consists of a nomination form and six letters of support. These items should be submitted to the U.S. Patent and Trademark Office at nmti@uspto.gov. If you have any questions, please contact the program manager at nmti@uspto.gov or 571-272-8333. For more information, please visit http://www.uspto.gov/about/nmti/guidelines.jsp.
URL: http://www.nsf.gov/od/nms/medal.jsp

Contact Person: Program Manager (nms@nsf.gov)

Sunday, January 15, 2012

Oxford Summer School in Computational Biology 2012

From July 9th until August 17th 2012, a project-based summer school in computational biology will take place at the University of Oxford. Applications are invited from students with a strong background in mathematics, statistics, computer science, physics or chemistry, who will have completed at least two years of undergraduate study by summer 2012.

Students will work in teams of three for the six-week period on a cutting-edge research project in bioinformatics/computational biology, working with researchers from Oxford, as well as a number of collaborators visiting from overseas.

The programme will also include a series of lectures and tutorials covering key topics in bioinformatics and genome analysis, and presentations from researchers in the field.

Accepted students will be offered university accommodation for the duration of the programme, and will receive a stipend towards living expenses.

Applications will be assessed in two rounds, and students whose applications are received by the first deadline (27th January) may be eligible for additional funding.

Final application deadline: 5th March, 2012

For more information, and to apply, visit www.stats.ox.ac.uk/genome/summer_school

URL: http://www.stats.ox.ac.uk/genome/summer_school

Contact Person: Ms Madeline Mitchell (mitchell@stats.ox.ac.uk)

Thursday, January 12, 2012

VIZBI 2012 early registration closes soon!

VIZBI 2012 early registration closes soon!

A quick reminder that early registration for VIZBI 2012 closes in just under three weeks: the deadline is midnight on January 29 in any time zone. After this date, registration costs €50 more. The deadline for poster submission is 26 February 2012.

URL: http://vizbi.org/2012

Contact Person: VIZBI Organisers (contact@vizbi.org)

Saturday, January 7, 2012

Inference in complex systems - currently FREE to access

Royal Society Publishing has just published an issue of Interface Focus: Inference in complex systems, organized by David Balding which is free to access online until 29th February 2012. See – http://bit.ly/sNRY1k for further details or you can go straight to the issue contents at http://rsfs.royalsocietypublishing.org/content/1/6 which are free to access online until 29th February 2012.

The print issue is available at the special price of £49.00. You can order online via the above web page (enter special code Focus/1/6 when prompted) or, alternatively, you can contact debbie.vaughan@royalsociety.org
URL: http://bit.ly/sNRY1k

Contact Person: Felicity Davie (felicity@tou-can.co.uk)