Call for Proceedings - ISMB 2014

Proceedings Co-chairs: Serafim Batzoglou, Stanford University, United States;
                                              Russell Schwartz, Carnegie Mellon University, United States

Call for Proceedings Submission Site: 

Closed: January 10, 2014

ISMB 2014 will bring together Bioinformaticians and Computational Biologists working in a wide range of disciplines, including molecular biology, biology, medicine, computer science, mathematics and statistics. Papers that demonstrate both the development of new computational techniques AND their application to Molecular and Systems Biology, with significant outcomes to biomedical, agricultural, and environmental questions are especially encouraged.


Proceedings Submission Deadline
Monday, September 30, 2013 Call for Proceedings Opens
Friday, January 10, 2014
Proceedings Submission Deadline
Friday, February 7,  2014 Announcement of Submissions Selected for the Second Round
Friday, March 7, 2014 Revised Submission Deadline
Friday, March 28, 2014 Conditional Acceptance Notification
Friday, April 11, 2014 Final Submission Deadline
Friday, April 18, 2014 Final Acceptance Notification


In 2014 the organizers will adopt a review procedure that involves two rounds of reviews, allowing the authors to reply to the reviewer comments. In the first round the submissions will be classified into three categories: (a) accept/minor changes, (b) major changes, and (c) not accepted.  Papers in the first category will be accepted without a second round of review. Authors of submissions in the second category will be given the opportunity to submit revised drafts based on the reviewer comments, with letters of reply to the reviewers outlining the main changes and/or giving counter arguments to the reviewer points. We expect the majority of papers to fall in categories (a) and (c), with category (b) reserved for papers that the reviewers identified as strong but with substantial issues that need to be addressed. Among the resubmitted papers, the second round of review will select the most suitable papers for ISMB. These will be published in the Bioinformatics journal and presented at the conference. The authors of submissions that will not be accepted in the second round will be given the opportunity to be redirected to an on-line issue of the Bioinformatics journal (fully citable; equal to regular publication in this journal), subjected to the Editorial considerations of Bioinformatics.

We are soliciting high-quality research papers in any aspect of computational biology, including the following areas:


Area Area Chair
Applied Bioinformatics  Thomas Lengauer, Lenore Cowen
Bioimaging & Data Visualization  Bob Murphy
Databases, Ontologies & Text Mining  Hagit Shatkay, Alex Bateman
Disease Models & Epidemiology  Simon Kasif, David Heckerman
Evolution & Comparative Genomics  Bernard Moret, Tandy Warnow
Gene Regulation & Transcriptomics  Alex Hartemink, Zohar Yakhini
Mass Spectrometry & Proteomics  Olga Vitek, Bill Noble
Metabolic Networks  Jason Papin
Population Genomics  Eran Halperin, Itsik Pe'er
Protein Interactions & Molecular Networks  Mona Singh, Trey Ideker
Protein Structure & Function  Jie Liang, Jinbo Xu
RNA Bioinformatics  Ivo Hofacker, Jerome Waldespuhl
Sequence Analysis  Cenk Sahinalp, Mike Brudno


Relevant computational techniques include, but are not limited to: machine learning; data mining; text analysis; pattern recognition; knowledge representation; databases; data modeling; combinatorics; stochastic modeling; string and graph algorithms; linguistic methods; robotics; constraint satisfaction; data visualization; parallel computation; data integration; modelling and simulation.

Submission Guidelines

Papers will be assigned to an Area and three reviews sought. Papers may be moved between areas as appropriate - this is often necessary for load balance and fit between areas during the review process. Accepted papers will be published as conference proceedings in an open access, online-only, section of a regular issue of the Bioinformatics journal with an electronic version distributed to conference delegates. The proceedings will be available online approximately one month prior to the conference opening.

Publication of the proceedings as an online part of the Bioinformatics journal will result in fully citable articles, indexed by Medline and ISI. See the conference proceedings for ISMB/ECCB 2013 for an example of online-only publication by Oxford University Press.

ISMB 2014 provide authors of accepted papers a 20-minute time slot (plus 5 minutes for questions) in the conference schedule to provide an oral summary of their work.

Papers can be submitted in either a template-free format or in the format following the template for author submission to the OUP journal bioinformatics. If the OUP template is used the paper length must not exceed nine pages. If the template-free format is used the length of the paper must not exceed 12 pages (single space, 12 point font), including abstract, figures, tables, and bibliography. In either case, the paper must contain an abstract whose length does not exceed 250 words.

After acceptance papers will have to be formatted according to the layout style required by the OUP bioinformatics journal and will be limited to 9 pages. Formatting requirements can be found at:

If absolutely necessary, submissions can be accompanied by supplementary material, similar to submissions to scientific journals. The supplementary material should be collected in a separate file that is appropriately marked and uploaded as an attachment on the paper submission page in EasyChair. However, we advise against adding supplementary material, in general. Supplementary material will be published on the proceedings site alongside the online version of the conference paper. We do not support supplementary material presented at any other than the publisher's site. Additionally, OUP does not edit or typeset supplementary data - it is uploaded online exactly as it is received, so authors must ensure its accuracy before submitting.

Papers should be submitted in their final form since the evaluation procedure does not allow for additional rounds of refinement / modification in response to referee criticisms. Poor quality submissions or insufficiently prepared papers are very often rejected. Paper presenters must register and pay to attend and present at the conference.


Papers submitted for review should represent original, previously unpublished work. At the time the paper is submitted to ISMB 2014, and for the entire review period, the paper should not be under review by any other conference or scientific journal.

Papers will be accepted electronically, in PDF format only, at the submission site until Friday, January 10, 2014. (You have until 11.59 p.m. in the time zone of your choice. This means that the submission server will be closed at noon, 11:59 am GMT (UTC+0), January 11, 2014).

Notification of submissions selected for second rounds will be notified by February, 7, 2014. The revised submission deadline for these second round papers will be March 7, 2014. Conditional acceptance will be provided by e-mail no later than March 28, 2014. Final, corrected versions of accepted papers, which must conform to the formatting guidelines available when the paper is accepted, are due no later than April 11, 2014 and Final acceptance notification is April 18, 2014. Details of the submission process and format of accepted papers will be provided at the time of paper acceptance.

For questions concerning the scientific content of submissions, please contact This email address is being protected from spambots. You need JavaScript enabled to view it..