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Tuesday, March 30, 2010

Of guerillas and cafés

Here are a few citations from an EMBO report discussing how scientists are experimenting with new initiatives to talk to the people.

"We want people to engage with other real people who just happen to be scientists"

"The café idea is spreading from its grassroots origins to science festivals and even scientific meetings"

"We're trying to make science part of culture"


Thursday, March 18, 2010

Call for Chapters: Depth Map and 3 D Imaging Applications:Algorithms and Technologies


Proposal Submission Deadline: April 15, 2010

Depth Map and 3 D Imaging Applications: Algorithms and Technologies

A book edited by Aamir Saeed Malik, Tae‐Sun Choi and Humaira Nisar

Universiti Teknologi Petronas (Malaysia), and Gwangju Institute of Science & Technology (Korea)
To be published by IGI Global: http://www.igi-global.com/requests/details.asp?ID=846


With the advent of few 3D consumer electronics products in 2009, the importance of three dimensional(3D) imaging technology has increased significantly. 3D imaging systems offer a richer experience for the consumers and they are expected to replace the traditional systems. In 2010, the leading consumer electronics manufacturers are introducing 3D TVs, 3D cameras, 3D printers and 3D computers. Some of them are Panasonic, Samsung, LG, Sony, Olympus, Canon, JVC, Sharp, Hitachi,HP and Acer. Their technology is currently based on stereoscopic vision and displays. However, as the 3D technology matures over time, autoseteroscopic vision and displays will replace the
stereoscopic technology. It can rightly be said that the next decade is the decade for 3D imaging technology.

Objectives of the Book

This book will aim to provide the relevant theoretical frameworks and the latest esearch findings in 3D imaging. It will cover algorithms and technologies for 3D Imaging as well as discuss their various applications. It will provide the current status of the technologies and will discuss the future trends too.

Target Audience

This book will be an important resource and reference for professionals, scientists, researchers,academics and software engineers in image/video processing and computer vision. It is a multidisciplinary field, so in addition to electrical and electronics engineering, it will also be of interest to those involved in material science, robotics, astronomy, terrain mapping, mechanical engineering and medical sciences. It will be a potential resource for post graduate and senior undergraduate students too.

Recommended topics include, but are not limited to, the following:

• 3D Capture: 3D ‐visual scene capture, multi‐view and multi‐sensor image capture, calibration and synchronization of multiple cameras, stereoscopic capture, and holographic capture.
• 3D Processing: 3D ‐visual scene reconstruction techniques for static and dynamic scenes, 3D data processing, 3D tracking, depth estimation and view synthesis from multi‐view images/videos, and compact representation and compression of multi‐view images/ videos.
• 3D Visualization & Displays: Stereoscopic, auto‐stereoscopic, and holographic display & projectors, 3D projectors, volumetric displays & projectors, head‐mounted 3D displays, 2D‐3D conversion of Images, and 3D representation tools: meshes, points, and voxels.
• 3D Transmission: Source coding, channel coding, transmission, decoding and broadcasting of 3D/ multi‐view images/videos/data, 3D teleimmersion and remote collaboration.
• 3D Applications: 3D television, free viewpoint TV systems, 3D cinema, 3D printing,
educational 3D systems, guidance and advertizing systems, 3D imaging in virtual heritage and virtual archaeology, 3D games, 3D entertainment, 3D virtual studios, augmented reality and virtual environments, medical and biomedical applications, 3D content‐based retrieval and recognition, 3D watermarking, 3D computers and other applications.

Submission Procedure

Researchers and practitioners are invited to submit on or before April 15, 2010, a 2‐3 page chapter proposal clearly explaining the mission and concerns of his or her proposed chapter. Authors of accepted proposals will be notified before May 15, 2010 about the status of their proposals and sent chapter guidelines. Full chapters are expected to be submitted by September 1, 2010. All submitted chapters will be reviewed on a double‐blind review basis.


This book is scheduled to be published by IGI Global (formerly Idea Group Inc.), publisher of the "Information Science Reference" (formerly Idea Group Reference), "Medical Information Science
Reference," "Business Science Reference," and "Engineering Science Reference" imprints. For additional information regarding the publisher, please visit www.igi‐global.com. This publication is anticipated to be released in 2011.

Important Dates

April 15, 2010: Proposal Submission Deadline
May 15, 2010: Notification of Acceptance
September 1, 2010: Full Chapter Submission
October 31, 2010: Review Results Returned
November 30, 2010 Revised Chapter Submission
December 15, 2010 Final Acceptance Notification
January 15, 2011 Final Chapter Submission

Editorial Advisory Board Members:

Fabrice Meriaudeau, University of Bourgogne, France
Naeem Azeemi, COMSATS Institute Information Technology, Pakistan
Kishore Pochiraju, Stevens Institute of Technology, USA
Martin Reczko, Biomedical Sciences Research Center \"Alexander Fleming\", Varkiza, Greece
Iftikhar Ahmad, Nokia, Finland
Nidal kamel, Universiti Teknologi Petronas, Malaysia
Umer Zeeshan Ijaz, University of Cambridge, UK
Asifullah Khan, Pakistan Institute of Engineering and Applied Sciences, Pakistan

Inquiries and submissions can be forwarded electronically or by mail to:

Aamir Saeed Malik, Ph.D.
Department of Electrical and Electronics Engineering
Universiti Teknologi Petronas
Tel.: +605‐368‐7853 • Fax: +605‐365‐7443 • GSM: +60‐16‐553‐7853
E‐mail: aamir_saeed@petronas.com.my
URL: http://www.igi-global.com/requests/details.asp?ID=846

Contact Person: Aamir Saeed Malik (aamir_saeed@petronas.com.my)

Tuesday, March 16, 2010


The Alfred P. Sloan Foundation is pleased to announce the selection of 118 outstanding early career scientists, mathematicians, and economists as Alfred P. Sloan Research Fellows. The winners are faculty members at 56 colleges and universities in the United States and Canada who are conducting research at the frontiers of physics, chemistry, computational and evolutionary molecular biology, computer science, economics, mathematics and neuroscience.

"The Sloan Research Fellowships support the work of exceptional young researchers early in their academic careers, and often at pivotal stages in their work," says Paul L. Joskow, President of the Alfred P. Sloan Foundation. "I am proud of the Foundation's rich history in providing the resources and flexibility necessary for young researchers to enhance their scholarship, and I look forward to the future achievements of the 2010 Sloan Research Fellows."

The Sloan Research Fellowships have been awarded since 1955, initially in only three scientific fields: physics, chemistry, and mathematics. Since then, 38 Sloan Research Fellows have gone on to win the Nobel Prize in their fields; 57 have received the National Medal of Science; and 14 have been awarded the Fields Medal, the top honor in mathematics. Although Sloan Research Fellowships in economics began only in 1983, Sloan Fellows have subsequently accounted for 9 of the 14 winners of the John Bates Clark Medal, generally considered the most prestigious honor for young economists.

Grants of $50,000 for a two-year period are administered by each Fellow's institution. Once chosen, Sloan Research Fellows are free to pursue whatever lines of inquiry are of most interest to them, and they are permitted to employ Fellowship funds in a wide variety of ways to further their research aims. For a complete list of winners, visit:


The Alfred P. Sloan Foundation is a philanthropic, not-for-profit grantmaking institution that supports original research and broad-based education in science, technology, engineering, mathematics and economic performance. For more information visit www.sloan.org.

URL: http://www.sloan.org

Contact Person: Erica Stella (Stella@sloan.org)

Monday, March 15, 2010

The John von Neumann Days and The Genome and the Computational Sciences: The Next Paradigms Symposium at Brown University May 3-7, 2010

Brown University, the Center for Computational Molecular Biology (CCMB), and the Department of Computer Science present the first in the John von Neumann Distinguished Lecture Series and the second in the symposium series "The Genome and the Computational Sciences: The Next Paradigms". This event will bring together influential entrepreneurs, leaders, and visionaries from academia and industry who will build the next paradigms in genomics and biotechnology. Each lecturer will present provocative, critical, and visionary talks on the state of the art in their academic and technological domains, and discuss the emerging paradigm changes made possible by their research and development work. All sessions will feature lively scientific dialogue and rigorous questioning by participants and audience members, including a post-lecture 'sweatbox' question-and-answer session. NSF and RECOMB travel awards are available for graduate students and postdoctoral fellows. Details about the events, which will be held from May 3-7, 2010, can be found at the Symposium webpage or email Lisa Manekofsky at ljm@cs.brown.edu

We look forward to your participation in our Symposium.

Sorin Istrail, Chair of the Symposium

Brown University CCMB Symposium, May 3-7, 2010
Co-organized with the Office of the President
Co-organized with the Department of Computer Science
Supported in part by the National Science Foundation


John von Neumann Distinguished Lecture Series
organized by Leon Cooper (Physics), Stuart Geman (Applied Mathematics), Sorin Istrail (Computer Science), Roberto Serrano (Economics)

Marina von Neumann Whitman, Professor of Business Administration and Public Policy, University of Michigan

Freeman Dyson, Professor Emeritus of Physics, Institute for Advanced Study, Princeton, NJ

John Conway, John von Neumann Professor of Mathematics, Princeton University

Kenneth Arrow, Nobel Laureate, Joan Kenney Professor of Economics and Professor of Operations Research Emeritus, Stanford University

Richard Karp, University Professor, University of California, Berkeley

David Mumford, University Professor, Department of Applied Mathematics, Brown University

Leon Cooper, Nobel Laureate, Thomas J. Watson Professor of Science and Director, Institute for Brain and Neural Systems, Brown University

George Dyson, historian of science, University of Washington, Seattle

Symposium: The Genome and the Computational Sciences: The Next Paradigms

Eric H. Davidson, Norman Chandler Professor of Cell Biology, California Institute of Technology

Andrew G. Clark, Jacob Gould Schurmn Professor of Population Genetics, Department of Molecular Biology and Genetics, Cornell University

J. Craig Venter, Founder, Chairman and President, J. Craig Venter Institute (not confirmed)

Ellen V. Rothenberg, Albert Billings Ruddock Professor of Biology, California Institute of Technology

Richard Lewontin, Alexander Agassiz Research Professor, Museum of Comparative Zoology, Harvard University

David Botstein, Anthony B. Evnin Professor of Genomics and Director, Lewis-Sigler Institute, Princeton University

Martin Meier-Schellersheim, Team Leader, Computational Biology Group, National Institute of Allergy and Infectious Diseases, NIH

Sean Eddy, Group Leader, Janelia Farm, Howard Hughes Medical Institute

Martha Bulyk, Associate Professor of Medicine and Pathology (and Health Sciences and Technology), Harvard Medical School

Jonathan W. Yewdell, Chief, Biology Section, Laboratory of Viral Diseases, National Institute of Allergy and Infectious Diseases, NIH

David Shaw, Ph.D., Chief Scientist and Founder, D.E. Shaw Research

Marcus Feldman, Ph.D., Professor of Biology, Stanford University

Sam Broder, Chief Medical Officer, Celera, Former Director of the National Cancer Institute
URL: http://www.brown.edu/Research/CCMB/Conferences/SYMPOSIUMMAY2010/info.htm

Contact Person: Lisa Manekofsky (ljm@cs.brown.edu)

Sunday, March 14, 2010

InCoB2010 - EasyChair Submission site now open

International Conference in Bioinformatics (InCoB) 2010,
Tokyo 26-28 September 2010

The Ninth International Conference on Bioinformatics, InCoB2010
(incob.apbionet.org or incob10.hgc.jp) will be held at International Conference
Center, Waseda Campus, Waseda University, Tokyo on 26-28 September 2010.

This year, InCoB is organized in collaboration with the International Immunomics
Society (IIMMS) and Chem-Bio Informatics Society (CBI). Day 3 is held in
conjunction with special CBI sessions and the 3rd Conference of Basic and
Clinical Immunogenomics and Immunomics (BCII).

InCoB, the annual conference of the Asia-Pacific Bioinformatics Network
(http://www.apbionet.org) brings together scientists working in bioinformatics
and computational biology, spanning a wide range of underpinning disciplines
including computer science, biology, biotechnology, genomics, proteomics,
transcriptomics, immunomics, mathematics and statistics.

Clyde Hutchison (J. Craig Venter Institute), Hiroaki Kitano (SONY CSL), and
Japan Academy Prize 2008 winner Yoshiyuki Nagai (RIKEN CNRID), have accepted to
present Keynotes at InCoB2010. Please see the website for the latest list of
other distinguished speakers.

We invite you to participate in the following sessions:
1. Full papers for oral presentation and publication in BMC Genomics or BMC
Bioinformatics, Immunome Research, ISPJ Transactions on Bioinformatics or
2. Abstracts for (A) Poster Sessions and (B) Technology, Tools, Methodology,
Resource, Database, Software Demonstrations or Posters.
3. Late-breaking abstracts for short oral presentations
4. Tutorial videos for virtual e-learning sessions
5. APBioNet Annual General Meeting
Submissions to InCoB2010 may cover any aspect of bioinformatics, computational
biology, chem-bioinformatics, bioinformatic-related cloud computing,
biocomputing, personalized medicine, environmental genomics (white bio),
synthetic genomes and organisms, metagenomics, pharmacogenomics, and immunomics
conveying a scientific result.

InCoB2009 will feature oral presentations shortlisted from full paper
submissions, for selection in: - BMC Genomics (IF 3.93)
http://www.biomedcentral.com/bmcgenomics/ - BMC Bioinformatics (IF 3.78)
http://www.biomedcentral.com/bioinformatics/ - Immunome Research (unofficial IF
5.33) http://www.immunome-research.com/ - ISPJ Transactions on Bioinformatics
http://www.jstage.jst.go.jp/browse/ipsjtbio or - Bioinformation

ABBioNet was the first Asia-Pacific bioinformatics society to publish full
papers in BMC Bioinformatics and in 2009, also in BMC Genomics. Supplements from
previous conferences are below:
2009: http://www.biomedcentral.com/1471-2164/10?issue=S3 2009:
http://www.biomedcentral.com/1471-2105/10?issue=S15 2008:
http://www.biomedcentral.com/1471-2105/9?issue=S12 2007:
http://www.biomedcentral.com/1471-2105/9?issue=S1 2006:

After rigorous review by the Program Committee, authors will be asked to revise
their manuscripts, prior to acceptance for publication and oral presentation at
InCoB2010, for which at least one author must register.

We solicit high-quality research abstracts for (A) Poster Sessions and (B)
Technology, Tool, Methodology, Resource, Database, Software Demonstrations or

At least one author of each selected poster/demonstration must register for
InCoB2010. Furthermore, a single registration can cover only oral presentation
and one poster presentation or two poster presentations. Posters are intended to
convey a scientific result and are not meant to be used as advertisements for
commercial software.


We invite abstracts on peer-reviewed journal papers that have accepted for
publication or have been will be published on or after July 20, 2010 (please
provide us email acceptance or online version). A small number of short oral or
poster presentations is available and will be allocated at the discretion of
scientific Program Committee. Decision criteria are the impact of the work on
the field, the likelihood that the study would be of interest to the InCoB
audience and the relevance of the research to bioinformatics and application to
molecular and medical sciences.


InCoB2010 will feature shortly before and after the conference virtual
e-learning sessions on new and emerging, cutting-edge topics. Authors for
accepted tutorials agree to be available for feedback and potential questions
fielded by e-mail in the period from Sep 20-Oct 19, 2010. For details see
Submissions/Guidelines at conference website. Tutorial providers who wish to
attend InCoB2010 are required to register.

All submissions will be via EasyChair at:
Please contact Kenta Nakai (knakai -at- ims.u-tokyo.ac.jp) or Christian
Schoenbach (schoen -at- bio.kyutech.ac.jp) for any queries (replace -at- with @).

5. APBioNet Annual General Meeting The AGM of APBioNet will traditionally be
held in InCoB2010 during the lunch break on Sep 27, 2010.

We look forward to your active participation! Please feel free to pass on this
email to colleagues who might be interested in this meeting.

With best wishes,
Shoba Ranganathan President, APBioNet
Kenta Nakai University of Tokyo, PC Co-Chair
Christian Schoenbach, PC Co-Chair Kyushu Institute of Technology

URL: http://incob.apbiobionet.org

Contact Person: Shoba Ranganathan (shoba.ranganathan1@gmail.com)

Saturday, March 6, 2010

Bioinformatics Summer School in Erice (Italy)

High-throughput technologies in the life-sciences, from sequencing to microarrays, continue to produce exponentially increasing amounts of data and drive the needs and inspiration for new methods in the computational sciences to efficiently manage and mine these data and provide a better understanding of life from the molecular to the population level.

Bioinformatics, computational and systems biology, and the new -omics sciences, from genomics to metabolomics, all attempt to address these needs and better understand carbon-based computing systems, using silicon-based computing systems, with slightly different perspectives and emphases. Their success is intimately related to progress in mathematics and computer science, in particular in the areas of artificial intelligence, statistical machine learning, and optimization, in order to deal with very complex, high-dimensional, and noisy data.

The aim of the School is to introduce and expose the students to some of the contemporary problems and state-of-the-art solutions at the intersection of the life- and computational- sciences. For this purpose, the School is organized into four themes, at approximately four increasing spatial scales: Chemoinformatics, Proteomics, Genomics, and Systems Biology. Each theme will comprise lectures and invited talks, as well ample time for discussion, over a period of one and a half day. Additional minicourses to cover computational methods in machine learning and optimization will be given in the afternoons.

• Registrations Opens: September 15, 2009
• Registrations Closes: April 30, 2010
• Notification of acceptance: May 31, 2010

Erice is among the oldest cities of Sicily. The town sits on top of the homonymous mount Eryx, 750 m above sea level. It was the religious center of the ancient Elimi tribes, and is famous for its temple where the Phoenicians worshipped Astarte, the equivalent of Aphrodite or Venus for the ancient Greeks or Romans. Throughout its long contentious history, Erice has fallen to the hands of different tribes and empires, each leaving its own palpable mark on the city. Today, Erice is an enchanting wonderfully-preserved medieval town with the most breathtaking views of Sicily.

Pierre Baldi (USA)
Søren Brunak (Denmark)
Raffaele Cerulli (Italy)
Roberto Tagliaferri (Italy)

Pierre Baldi (USA)
Søren Brunak (Denmark)
Paolo Frasconi (Italy)
Panos Pardalos (USA)
Gianluca Pollastri (Ireland)
Gunnar Raetsch (Germany)
Burkhard Rost (Germany)
Michal Rozen Zvi (Israel)
Jean-Philippe Vert (France)

Additional Invited Speakers
Elia Biganzoli (Italy)
Piero Fariselli (Italy)
Alfredo Ferro (Italy)
Salvatore Gaglio (Italy)
Irene Kouskoumvekaki (Denmark)

Local Organizing Committee
Monica Gentili (Italy)

URL: http://www.graphalgorithms.it/Erice2010

Contact Person: Pierre Baldi (pfbaldi@ics.uci.edu)

Monday, March 1, 2010

Call for DREAM5 Computational Systems Biology Modeling Challenges and Datasets

The Dialogue for Reverse Engineering Assessments and Methods (DREAM) Project is soliciting proposals for the DREAM5 Challenges. We invite your input on the design of new challenges and the contribution pre-publication data sets to assess the efficacy of the systems biology modeling community. Contact the DREAM organizers through the DREAM Project website (http://wiki.c2b2.columbia.edu/dream/).
URL: http://wiki.c2b2.columbia.edu/dream/

Contact Person: Robert Prill (rjprill@us.ibm.com)