Workshop Proposal
10th International Workshop on Data Mining in Bioinformatics (BIOKDD?11)
in conjunction with
ACM SIGKDD International Conference on
Knowledge Discovery and Data Mining (SIGKDD'11)
http://bio.informatics.iupui.edu/biokdd11
August 21-24, 2011
San Diego, CA


CALL FOR PAPERS
--------------------------------------------------
The goal of the BIOKDD workshop is to encourage KDD researchers to
take on the numerous challenges that Bioinformatics offers.
This year, the workshop will feature the theme of ?Data Analysis
Challenges in High throughput Sequencing?. High throughput sequencing
is revolutionizing biological, biomedical, and health research.
There are enormous data analysis and knowledge discovery challenges
in the high throughput sequencing technology, including alternative
slicing pattern discovery, whole transcription sequence alignment,
epigenetics site discovery, storing and compression of high volume sequence
data and clustering and classification of structural variations in a population.

We encourage papers that propose novel data mining techniques
for areas including but not limited to

* High throughput sequencing data analysis
* Genome structural variation analysis
* Phylogenetics and comparative Genomics
* DNA microarray data analysis
* RNAi and microRNA analysis
* Protein/RNA structure prediction
* Sequence and structural motif finding
* Modeling of biological networks and pathways
* Statistical learning methods in bioinformatics
* Computational proteomics
* Computational biomarker discoveries
* Gene-environment, Gene-drug, drug-drug interaction discoveries
* Computer aided drug discoveries
* Biomedical Text mining
* Biological data management techniques
* Genome-wide association studies
* Semantic webs and ontology-driven biological data integration methods
* Knowledge discovery in electronic health records
* Privacy and security issues in mining health databases

Papers should be at most 10 pages long, single-spaced, in font size 10 or larger
with one-inch margins on all sides.? Paper in PDF format can be sent to both
of the program co-chairs by email. Camera-ready format papers may be
referenced from previous BIOKDD conference proceedings.


IMPORTANT DATES (tentative)
----------------------------
5/13/2011 Deadline for Submission of papers
6/19/2011 Notification of Acceptance; Workshop Registration Open
7/01/2011 Submission of Camera Ready Papers
7/21/2011 Workshop Presentation

PUBLICATION
------------

Submission of accepted paper: For accepted workshop papers, we
require that each camera-ready paper be formatted strictly according
to the official ACM Proceedings Format. Please submit PDF file only.
To prepare for the camera-ready PDF file submission, you may use either
the Microsoft word template or the Latex files preparation instructions
found at the ACM website. All final camera-ready submissions must be
accompanied by a completed digital copy (scanned Okay) of the ACM copyright transfer form,
or else the paper cannot be included in the final workshop proceedings.

Publication of proceeding and expanded papers: The proceeding will be made available on
the workshop website, and from ACM digital library.
Selected best papers from the workshop will be invited for consideration
for publication in the scientific programming journal
(http://www.iospress.nl/loadtop/load.php?isbn=10589244) ? already confirmed.
Also we are in the process of negotiation with BMC Bioinformatics journal
for a special issue from a second set of selected best papers
from this workshop. Update of the journal/book publication will
be announced at the web site: http://bio.informatics.iupui.edu/biokdd11/

WORKSHOP ORGANIZERS
--------------------
General Chairs:
Jake Chen
Indiana University School of Informatics
Indiana University?Purdue University Indianapolis
535 W. Michigan St, #493
Indianapolis, IN 46202
jakechen@iupui.edu

Mohammed J. Zaki
Department of Computer Science
Rensselaer Polytechnic Institute
Troy, NY 12180-3590
zaki@cs.rpi.edu

Program Chairs:
Mohammad Al Hasan
Department of Computer Science
Indiana University - Purdue University
723 W. Michigan St., #SL-277
Indianapolis, IN 46202
alhasan@cs.iupui.edu

Jun (Luke) Huan
Department of Electrical Engineering and Computer Science
University of Kansas
Lawrence, KS, 66047-7621
jhuan@ku.edu