[Biopython-announce] Fwd: CFP: NETTAB 2009 on Collaborative Bioinformatics Research and Development (open source, social networks, wikis, ...)

Mon Apr 6 12:15:42 UTC 2009

I hope this will be of interest to some of our subscribers,

Peter

---------- Forwarded message ----------
From: Paolo Romano <paolo.romano at istge.it>
Date: Apr 6, 2009 9:41 AM
Subject: CFP: NETTAB 2009 on Collaborative Bioinformatics Research and
Development (open source, social networks, wikis, ...)
To: biopython-owner at lists.open-bio.org

Dear list owner,

 I think the following announce could be of interest for biopython list members.
 So, please, could you forward it to the list?

 Many thanks in advance. Paolo

 ===========================
 Apologies if you receive more copies.
 ===========================

 Announce and Preliminary Call for Papers

 NETTAB 2009 Workshop on
 "Technologies, Tools and Applications for Collaborative and Social
Bioinformatics Research and Development"
 with a Special Session on:
 "Methods and Tools for RNA Structure and Functional Analysis"

 June 10-13, 2009
 Department of Computer Science, University of Catania, Italy

 http://www.nettab.org/2009/

 Submissions deadlines:
 - April 28, 2009: Oral communication submission
 - May 15, 2009: Posters submission
 Submissions must be short papers of around 3 pages or 12.000 characters long.
 Special Issues in peer-review journals on workshop's topics planned:
post-workshop ad hoc Call for papers will be issued.

 RATIONALE
 Advent of Wide Area Networks (WAN) allowed the availability of
distributed information and prompted the need for searching and
retrieving this data (Network Information Retrieval tools, NIR), as
well the development of unprecedented communications between users
(Computer Mediated Communication tools, CMC). Initially, CMC was
asynchronous and based on electronic mail and newsgroups. From email
systems, mailing lists and newsletter were soon derived, while
newsgroups generated, shortly after, electronic fora. Synchronous
communication were introduced through the advent of chat services. On
this line, current multimedia teleconference systems were then set up.
Virtual reality was first introduced for educational purposes by means
of MUD (Multi-users Domain) systems, and especially by means of MOO
(MUD Object-oriented). This line produced current virtual reality
environment, like the emerging Second Life system.
 Life Sciences researchers largely took profit from CMC tools. The
bionet newsgroups hierarchy remains one of the most famous and useful
CMC system supporting life science research. Many mailing lists that
were born in that context are still used. The development of open
source software was largely made possible by the possibility of
exchanging, in an effective way, knowledge, practices and skills among
researchers. Web sites of communities of scientists were set up and
often constituted the base for a real collaborative development and
research.
 The most recent developments of collaborative development tools are
impressive. Researchers can now collaboratively develop software (open
source systems), discuss and compare development strategies (social
networks), write documents (google docs, wiki systems), build
knowledge bases. So, it may now be the time for presenting current
technologies, tools and applications for collaborative work and for
discussing perspectives of their utilization in support of
Bioinformatics.
 For these reasons, NETTAB 2009 will be devoted to "Technologies,
Tools and Applications for Collaborative and Social Bioinformatics
Research and Development".

 Moreover, there will be a special session on "Methods and Tools for
RNA Structure and Functional Analysis".

 The transcription of almost all genomes generates a great number of
coding and non-coding RNAs (ncRNAs).  Although RNA is central to the
synthesis of proteins, it is not only a messenger of genetic
information: many cellular functions depend on ncRNAs, which exert
their functions by their sequence and structure.  In particular, small
silencing RNAs (miRNAs, siRNAs and piRNAs) play a crucial role in many
physiological processes and their aberrant expression is a common
feature of human diseases including cancer. Models and tools  able to
increase our understanding of RNAs functions and their involvement in
diseases may lead to the design of new RNA-based  therapeutics.
 The RNA community is also taking advantage of collaborative research
tools such as Wikis and other virtual environments. The RNA
WikiProject contains now over 600 articles describing families of
noncoding RNAs based on the Rfam database, and invite the community to
update, edit, and correct those articles. Therefore, the NETTAB  2009
special session will focus on collaborative research project,
computational methods and tools for the analysis of RNA structures and
functions, with a special emphasis on ncRNAs.

 KEYNOTE SPEAKER

 # Alex Bateman
 Wellcome Trust Sanger Institute
 Hinxton, Cambridge, UK

 # Tim Clark
 Director of Informatics, MassGeneral Institute for Neurodegenerative
Disease Neurology Research Department, Massachusetts General Hospital,
Boston, USA

 # Duncan Hull
 School of Chemistry, University of Manchester, Manchester, UK

 # Michael Levitt
 Stanford University, USA

 # Debora Marks
 Systems Biology Department, Harvard Medical School
 Boston, USA

 TOPICS
 - Collaborative Web sites (bioinformatics.org, biojava, bioperl, …)
 - Communities of Practices (CoPs)
  Scientific practices in scientific communities
  Automatic detection / gathering / modelling of scientific practices
  Implementations of CoPs
 - Social networking (myExperiment, Annotea, myScience)
  Social Bookmarking
  Semantic Document Markup
  Relationships mining from literature
 - Open Source development
  Sharing of data models, libraries, interfaces
 - Social software for collaborative documentation development
  Wikis, blogs, google docs
  Knowledge Wikis
  Social-software-mediated collaborative scientific research
  Social-software-mediated collaborative tools' development
  Knowledge base collaborative development
  Ontologies collaborative development
 - Education and training tools
  E-learning
  Virtual environments

 Methods and Tools for RNA Structure and Functional Analysis
 - RNA structure prediction
 - Collaborative studies of RNAs
 - ncRNAs functional analysis and classification
 - miRNAs and networks
 - Genome-wide functional studies
 - Identification of ncRNAs
 - Databases of ncRNAs and miRNA targets
 - miRNA targets prediction
 - Synthetic miRNA and siRNA design
 - Gene expression analysis
 - Analysis of viral RNAs
 - RNAi therapeutics
 - Identification of ncRNAs biomarkers
 - RNA-protein interaction prediction

 DEADLINES
 Submissions for both oral communications and posters must be short
papers of around THREE A4 pages or 12.000 characters long.

 - April 28, 2009: Oral communication submission
  Acceptation communication: May 12, 2009
 - May 15, 2009: Posters submission
 - May 17, 2009: Early registration
 - June 10-13, 2009: Tutorials and Workshop

 Calls for SPECIAL ISSUES
 We plan to launch Calls for Special Issues on the themes of the
workshop in peer-review journals with associated Impact factor around
July for submission in September 2009.

 Best regards. Paolo Romano
 on behalf of NETTAB 2009 Chairs

 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

 AIUTACI AD AIUTARE: Il tuo 5 per MILLE a sostegno della nostra RICERCA.
 Come fare:
 Nella prossima dichiarazione dei redditi metti la firma nell'apposito
riquadro del 5 per mille,
 scrivendo anche il codice fiscale dell'Istituto Nazionale per la
Ricerca sul Cancro di Genova :
  c.f. 80 100 850 108
 Istituto Nazionale per la Ricerca sul Cancro
 L.go R. Benzi, 10 -16132 Genova
 http://www.istge.it

 NETTAB '09 - Ninth International Workshop on Network Tools and
Applications in Biology
 10-13 June 2009, Catania, Italy
 http://www.nettab.org/2009/ (soon available)

 Paolo Romano (paolo.romano at istge.it)
 Bioinformatics
 National Cancer Research Institute (IST)

 AIUTACI AD AIUTARE: Il tuo 5 per MILLE a sostegno della nostra RICERCA.
 Come fare:
 Nella prossima dichiarazione dei redditi metti la firma nell'apposito
riquadro del 5 per mille,
 scrivendo anche il codice fiscale dell'Istituto Nazionale per la
Ricerca sul Cancro di Genova :
  c.f. 80 100 850 108
 Istituto Nazionale per la Ricerca sul Cancro
 L.go R. Benzi, 10 -16132 Genova
 http://www.istge.it