[CPM-SPIRE-L] RECOMB-SEQ Call for Papers

[Stefano Lonardi]

RECOMB-SEQ: THIRD ANNUAL RECOMB SATELLITE WORKSHOP ON MASSIVELY PARALLEL SEQUENCING

April 11-12, 2013

Beijing, China
Homepage: http://bioinfo.au.tsinghua.edu.cn/recomb2013/satellite.html

Call-for-Papers

About the Workshop
------------------
RECOMB-seq is a workshop held immediately after the main RECOMB conference, with a
distinct paper submission process and program. Our goal is to bring together the
community of scientists working on methods for massively parallel sequencing.

Scope
-----
The recent revolution in sequencing technology has opened the door for myriads of
new applications and bio-medical discoveries. Projects are under way to sequence
thousands of individuals (the 1000 Genome project), tens of thousands of vertebrate
species (the Genome10K project), and the whole microbial ecosystem that live in
our bodies (the Human Microbiome project). Simultaneously, the novelty and complexity
of the data has highlighted the challenges and limitations of current methods.
As the technology continues to evolve and approaches its third generation, the
challenges facing the community are becoming increasingly computational.

We would like to invite contributions describing new methodology to deal with all
aspects of massively parallel sequencing data, including, but not limited to:

     Bio-medical applications, including cancer genomics
     Discovery and genotyping of genomic variants, including SNPs, indels and
        structural variants
     Local and de novo sequence assembly
     RNA sequencing, including the analysis of RNA expression and novel transcript
        assembly
     Epigenetics, including ChIP-SEQ analysis, methylation profiling, and histone
        modifications
     Metagenomics
     Read mapping
     Methods for emerging sequencing technologies, such as single-cell or single
        molecule real-time sequencing

Paper Submission
----------------
We are soliciting high-quality contributions that will go through a rigorous peer-review
process. Selected papers will be presented at the workshop and published in a special
proceedings issue of BMC Bioinformatics. You may also specify that you do not wish your
paper to be published in the proceedings, if accepted. In this case, you will be asked
to provide a one-page abstract to be included in the conference program booklet.

The cover page should contain the title, author(s) names and affiliations, an abstract,
the keywords, and the contact author e-mail. The manuscript should start with a succinct
statement of the problem, the results achieved, their significance, and a comparison
with previous work. This material should be understandable to non-specialists. A technical
exposition directed to the specialist should follow. The length, excluding cover page and
bibliography, should not exceed 10 pages. The manuscript should be easy to read, using
at least 11 point font size on U.S. standard 8 1/2 by 11 inch paper with no less than one
inch margin all around. If the authors believe that more details are absolutely necessary
to substantiate the claims of the paper, they may include a clearly marked appendix, which
might be read at the discretion of the reviewers. Manuscripts that deviate significantly
from these guidelines risk rejection without consideration of their merits.

Speicial Note for Papers Submitted to RECOMB'2013
-------------------------------------------------
If you would like to consider submitting a paper rejected by RECOMB'2013 to the satellite
workshop, you have the option of including, with your submission, the RECOMB'2013 reviews
together with an explanation of how you have addressed the issues raised in the reviews.
This will help enable a more thorough and accurate review for your paper. If you would
like to use this option, please send an email to recombseq2013 at gmail.com  prior to the
submission deadline and include your RECOMB'2013 reviews and your response to reviewers.
Please note that your reviews will be treated confidentially and will only be visible to
the PC members evaluating your paper.

EasyChair Submission Site
-------------------------
To be announced. Please see the workshop homepage for updates.

Poster Submission
-----------------
To be announced.

Important Dates
---------------
Paper submission opens: December 10, 2012

Paper submission deadline: January 4, 2013

Author notification: January 25, 2013

Final version due: February 15, 2013

Workshop: April 11-12, 2013

Keynote Speakers
----------------
     Inna Dubchak
     Bing Ren

Steering Committee
------------------
     S. Cenk Sahinalp, Simon Fraser University
     Michael Brudno, University of Toronto
     Inanc Birol, BC Genome Sciences Centre
     Eran Halperin, Tel-Aviv University
     Ben Raphael, Brown University

Program Committee Chairs
------------------------
     Haixu Tang, Indiana University, Bloomington, USA
     Tao Jiang, University of California, Riverside, USA

Local Organization Committee Chairs
-----------------------------------
     Xuegong Zhang, Tsinghua University, China
     Rui Jiang, Tsinghua University, China