[Socbin] NETTAB 2010 on Biological Wikis: Call for Contributions
Paolo Romano
paolo.romano at istge.it
Mon Jul 5 16:48:58 CEST 2010
I apologize for possible duplications.
==========================
NETTAB 2010 on "Biological Wikis"
November 29 - December 1, 2010, Naples, Italy
http://www.nettab.org/2010/
CALL FOR PAPERS
See below for Topics, Contributions sought,
Deadlines, Instructions and Committees.
RATIONALE
It is now clear that wiki systems offer a variety
of advantages for the management of biological data and information.
Some of the specific aims of wikis for biology (bio-wikis) include:
* Collaborative development and sharing of knowledge
* Collaborative annotation of database contents
* Collaborative creation of database contents
The collaborative development and sharing of
documentation and knowledge allows communities to
promote, exploit, discuss and reach consensus on
procedures, data, experiences, news, and other
varied information. Indeed valuable expertise and
interests in special topics are usually
distributed, and are rarely concentrated in a unique site or research group.
The collaborative annotation of biological
databases is increasingly under consideration
because extended and accurate curation of an ever
increasing volume of data is extremely costly and
time consuming. Such distributed networks can
help to improve and extend databases curation
beyond that which is possible with, typically,
limited numbers of curation staff. It allows
users to contribute their expertise and
observations independently of database central
organizations. Although the contents of the
database are collaboratively annotated, the
underlying databases themselves are left unchanged.
Furthermore, collaborative creation of community
databases can capture emerging structure in
rapidly developing fields. These database-wikis
are indexes of biologically relevant data that
emerge from focused and rapidly developing
communities. They form a stopgap between
unstructured discussion in fora and on mailing
lists and the 'mature' databases that emerge
subsequently. Hence they can be useful for
discerning trends and promoting best practices,
as well as collect unique and timely information.
In the future, collaborative 'wiki' updates of
almost all database contents can be envisaged.
However several important issues need to be addressed:
* How reliable are user contributions?
* What format should annotations take?
* How is this information feed back into 'authoritative' databases?
Procedures should be implemented to support
assessment of users' contributions, extraction of
structured data from annotations, uptake of
original data into reference databases. The
authoritativeness of contributions is essential:
how can quality be assessed? How do we deal with
contributions from casual end users, since these
are usually not considered adequate when compared
with professional annotation at service centers.
Can the open edition model of many wiki systems,
e.g. Wikipedia, be as successful in life
sciences? Alternatively, should the usual
criteria for assessing quality of research be
applied, including peer-evaluation of
contributions and identification of users?
Crediting users for their contributions (e.g.
authorship assignment) may be necessary to
stimulate the broadest possible
participation. Which further benefits may be
imagined to acknowledge user investment
(subscriptions to services, journals, ...)?
Special features may be required to cater for the
specificity of biological data: textual
information is only a small part of biological
data, how can the numerous and heterogeneous
biological data types be catered for,
e.g. images, plots, diagrams? An adaptation of
current wiki systems is needed. A survey of
existing systems as well as current development
efforts will be useful, so that possible
synergies can be identified and supported, as
well as ensure a coherent set of interoperable biological wikis.
TOPICS
The following list is not meant to be exclusive
of any further topics as stated above.
Submitted contributions should address one or more of the following topics:
* Wiki development tools
o Wikimedia
o Wikimedia extensions
o Semantic Wikis
o Wiki-coupled CMSs
o Other wikis
* Arising issues for the biomedical domain:
o Authoritativeness of contributions and sites
o Quality assessment
o Users acknowledgement
o Stimulatation of quality contributions
o Authorships management and reward
o 'Scientific production' value for contributions
o Management of bioinformatics data types
* Wikis and collaborative systems for:
o Genomics, proteomics, metabolomics, any -omics
o Proteins analysis and visualization
o gene and proteins interactions
o metabolic pathways
o oncology research
* Issues to be tackled by wiki and collaborative research for:
o Genomics, proteomics, metabolomics, any -omics
o Proteins analysis and visualization
o gene and proteins interactions
o metabolic pathways
o oncology research
TYPE OF CONTRIBUTIONS
The following possible contributions are sought:
* Oral communications
* Posters
* Software demos
All accepted contributions will be published in
the proceedings of the workshop.
DEADLINES
* September 24, 2010: Oral communications submission
o Decisions announced: October 24, 2010
* October 17, 2010: Posters submission
o Decisions announced: October 24, 2010
* October 29, 2010: Early registration ends
* November 29 - December 1, 2010: Workshop and Tutorials
INSTRUCTIONS
Kindly follow the instructions carefully when
preparing your contribution and submit your
contribution through the EasyChair system at
http://www.easychair.org/conferences/?conf=nettab2010.
All contributions should follow the same format, as specified here:
font type: Times New Roman, font size: 12 pti,
page size: A4, left and right margins: 2.0 cm,
upper margin: 2.5 cm, lower margin: 2.0 cm.
The lenght of contributions for oral
communications should be between 3 and 5 pages, including tables and figures.
They should include: Abstract, Introduction,
Methods, Results and Discussion, References.
All contributions for oral communications will be
evaluated by at least three referees.
The length of contributions for posters should be
no more then 3 pages, including tables and figures.
They should include: Introduction, Methods, Results, References.
All posters will be evaluated on the basis of
their relevance fot the workshop's topics only.
For any further information or clarification,
please contact the organization by email at info at nettab.org.
ORGANIZATION
Co-chairs
* Angelo Facchiano, CNR-ISA, Avellino, Italy
* Paolo Romano, National Cancer Research Institute, Genoa, Italy
Scientific Committee
* Claudia Angelini, IAC, National Research Council, Napoli, Italy
* Roland Barriot, Université Paul Sabatier - CNRS, Toulouse, France
* Alex Bateman, Wellcome Trust Sanger Institute, Hinxton, United Kingdom
* Dan Bolser, University of Dundee, Scotland, United kingdom
* Philip E. Bourne, University of
California, San Diego UCSD, La Jolla, USA
* Mike Carasio, Keygene N.V., Wageningen, The Netherlands
* Maria Luisa Chiusano, University of Napoli "Federico II", Napoli, Italy
* Italia De Feis, IAC, National Research Council, Napoli, Italy
* Angelo Facchiano, ISA, National Research Council, Avellino, Italy
* Carl Herrmann, Université de la Méditerranée, Marseille, France
* Pascal Hingamp, Université de la Méditerranée, Marseille, France
* Eran Hodis, Weizmann Institute of Science, Rehovot, Israel
* Robert Hoehndorf, Department of Genetics,
University of Cambridge, United Kingdom
* Robert Hoffmann, Computational Biology
Center, Memorial Sloan-Kettering Cancer Center, New York, USA
* Thomas Kelder, BiGCaT Bioinformatics,
University of Maastricht, The Netherlands
* Alexander Pico, The Gladstone Institutes,
University of California, San Francisco, USA
* Jaime Prilusky, Bioinformatics, Weizmann
Institute of Science, Rehovot, Israel
* Paolo Romano, Bioinformatics, National Cancer Research Institute, Italy
* Andrew Su, Bioinformatics, Genomics
Institute of the Novartis Research Foundation, San Diego, USA
* Joel Sussman, Weizmann Institute of Science, Rehovot, Israel
* Tim Vickers, Department of Molecular
Microbiology, Washington University in St. Louis, St. Louis, USA
* Wyeth Wasserman, Department of Medical
Genetics, University of British Columbia, Vancouver, Canada
* and further members yet to be confirmed
Organizing Committee
* Claudia Angelini, IAC, National Research Council, Napoli, Italy
* Maria Luisa Chiusano, University of Napoli "Federico II", Napoli, Italy
* Italia De Feis, IAC, National Research Council, Napoli, Italy
* Angelo Facchiano, ISA, National Research Council, Avellino, Italy
* Paolo Romano, Bioinformatics, National
Cancer Research Institute, Genoa, Italy
Supporting Institutes, Scientific Societies and Projects
This list is still under definition.
* National Research Council (CNR), Italy
* National Cancer Research Institute (IST), Genoa, Italy
* Italian Network for Oncology Bioinformatics (RNBIO)
Sponsors
Sponsorships are still under definition. You are
welcome to email us for further information if
you are interested in sponsoring this workshop.
We look forward to meeting you in Naples!
Paolo Romano and Angelo Facchiano
on behalf of the Scientific Committee
Paolo Romano (paolo.romano at istge.it)
Bioinformatics
National Cancer Research Institute (IST)
Largo Rosanna Benzi, 10, I-16132, Genova, Italy
Tel: +39-010-5737-288 Fax: +39-010-5737-295 Skype: p.romano
Web: http://www.nettab.org/promano/
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