Call for Papers

Cancer Pathways: Automatic Extraction, Representation, and Reasoning
in the Big Data Era


20th Anniversary of the Pacific Symposium on Biocomputing


January 4-8, 2015

Fairmont Orchid, Big Island

Hawaii, U.S.A.



There has been great interest and research initiatives in the biomedical community around harnessing "big data", including data from the literature, high-throughput gene expression experiments, array CGH and high-throughput siRNA and many other types of data to generate novel hypothesis to address the most crucial biomedical questions and aid in the discovery of more effective and improved therapeutic options for the treatment of complex diseases. Given its ever increasing volume and diversity, interest in taming "big data" through methods and systems to extract, represent, and transform it to knowledge that can be used for reasoning and question answering will only increase over time, enabling scientists to effectively use it for discovery and validation..


This session will bring together researchers in text mining and knowledge representation and reasoning with bench scientists, geneticists and translational scientists. It serves as a unique forum to discuss novel approaches to the complex text extraction and knowledge representation and reasoning problems that come with dealing with big data. Given that computational approaches often draw upon disease-specific resources and expertise, we focus the session on disseminating approaches to extract, represent, or reason with knowledge derived from the literature, databases, or experimental data that respond to biological questions about the signaling pathways in cancer pathophysiology.



Session Topics

There have been increased efforts to develop such systems and approaches, but there is no single place to present them. This session will attract cross-discipline collaborators in areas such as text and data mining, computational methods, artificial intelligence, knowledge representation, computational biology, and others, with focused applications in cancer pathophysiology. Some examples of topics of interest to this session include novel approaches in one or more of the following areas:



applied to the study of cancer pathophysiology and its underlying signaling pathways. Submissions should emphasize the translational value of their contribution.



Session Organizers


Graciela H. González

Arizona State University




Chitta Baral

Arizona State University


Suengchan Kim

Translational Genomics Research Institute


Jeff Kiefer

Translational Genomics Research Institute


Jieping Ye

Arizona State University



Submission Information


Please note that the submitted papers are reviewed and accepted on a competitive basis. At least three reviewers will be assigned to each submitted manuscript.


Important Dates

Paper submissions due: July 31, 2014 August 4, 2014

Notification of paper acceptance: September 9, 2014

Final paper deadline: October 1, 2014 at 11:59pm PT

Registration opens: August 1, 2014 at noon PT

Travel award applications

PSB has been able to offer travel support to many attendees in the past. However, please note that no one is guaranteed travel support.

Available: August 1, 2014 at noon PT

Deadline: October 6, 2014 at noon PT

Decisions will be announced in mid-October.

For details, please see

Abstract Submissions

Poster presenters will be provided with an easel and a poster board 32"W x 40"H (80x100cm). One poster from each paid participant is accepted.

Available: August 1, 2014 at noon PT

Deadline: November 17, 2014 at noon PT

Decisions will be announced in mid-October.


Paper Format


Please see the PSB paper format template and instructions at


The file formats we accept are: postscript (*.ps) and Adobe Acrobat (*.pdf)). Attached files should be named with the last name of the first author (e.g. or altman.pdf). Hardcopy submissions or unprocessed TeX or LaTeX files will be rejected without review.


Each paper must be accompanied by a cover letter. The cover letter must state the following:

*   The email address of the corresponding author.

*   The specific PSB session that should review the paper or abstract.

*   The submitted paper contains original, unpublished results, and is not currently under consideration elsewhere.

*   All co-authors concur with the contents of the paper.


Submitted papers are limited to twelve (12) pages in our publication format. Please format your paper according to instructions found at If figures cannot be easily resized and placed precisely in the text, then it should be clear that with appropriate modifications, the total manuscript length would be within the page limit.