Possibly of interest, if anyone is working on Semantic Wikis in biology. -Jodi
Begin forwarded message: > From: Paolo Romano <paolo.rom...@istge.it> > Date: 5 July 2010 15:28:15 GMT+01:00 > To: swi...@aifb.uni-karlsruhe.de > Cc: Paolo Romano <paolo.rom...@istge.it> > Subject: [swikig] NETTAB 2010 on Biological Wikis: Call for Contributions > > I apologize for possible duplications. > ========================== > > NETTAB 2010 on "Biological Wikis" > > November 29 - December 1, 2010, Naples, Italy > http://www.nettab.org/ > > 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 i...@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.rom...@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/ >
