Call for Papers

The 11th International Workshop on Data Mining in Bioinformatics (BIOKDD'12)
August 12, 2012 Beijing, China
http://bio.informatics.iupui.edu/biokdd12/

In conjunction with the 18th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (SIGKDD'12)

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Selected papers will be invited to be submitted to a special issue of IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
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BIOKDD 2012 encourages submissions on analyzing a broad range of biological, biochemical, and clinical datasets.
The data of interest include “omic” datasets (genomic, transcriptomic, proteomic, metabolomic, interactomic), biochemical datasets, and clinical datasets (ranging from physiological measurements to free text).
Papers that integrate multiple types of data to extract novel information will also be of great interest to the workshop.
The topics of interest, classified according to data type, include the following:


Genomics/Sequence Analysis:
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Analysis of next-generation sequencing data Phylogenetics and comparative genomics Genome-wide association studies and genetic interactions Motif finding; Population genetics, Haplotype analysis

Transcriptomics/Functional Genomics:
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Analysis of DNA microarray and RNA-seq data RNAi and microRNA analysis Biomarker discovery; RNA structure prediction

Proteomics:
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Computational proteomics
Prediction of protein structure and interactions Identification of drug targets Post-translational regulation of proteins

Metabolomics:
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Analysis and comparison of metabolic networks and pathways

Systems Biology/Interactomics:
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Analysis of protein interaction networks Genetic regulatory networks, DNA-protein interactions Modeling of biological systems Mining of gene-environment, gene-drug, drug-drug interactions

Clinical and Translational Informatics:
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Mining electronic health records
Ontologies
Privacy issues in medical informatics


Papers should be at most 10 pages long, single-spaced, in font size 10 or larger with one-inch margins on all sides.
Paper should be submitted in PDF/PS format through Easychar at the following link: http://www.easychair.org/conferences?conf=biokdd12
Camera-ready format papers may be referenced from previous BIOKDD conference proceedings (e.g., BIOKDD10, BIOKDD11)

Important Dates:
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5/15/2012 Paper Submission Due
6/06/2012 Notification of Acceptance
6/15/2012 Camera-ready Paper Due
8/12/2012 Workshop Presentation

Publication:
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All papers will be published at the workshop proceedings and at the ACM digital library.
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 here. 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 Proceedings and Extended Journal Versions:
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All accepted papers will be published at the workshop proceedings and at the ACM digital library.

A selection of accepted papers will also be invited to be submitted to a special issue of IEEE/ACM Transactions on Computational Biology (TCBB). Each paper submitted to the special issue should contain "a sufficient amount of new material" relative to the worksop version, by TCBB's (and IEEE's) rules as specified here: http://www2.computer.org/portal/web/peerreviewjournals/author#preliminary
These papers will go through further review before acceptance for publication at TCBB."

Organization:
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General Chairs:
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Mohammed Zaki, Rensselaer Polytechnic Institute, (zaki@cs.rpi.edu)
Jake Y. Chen, Indiana University Purdue University Indianapolis, (jakechen@iupui.edu)

Program Chairs:
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Tamer Kahveci, University of Florida, (tamer@cise.ufl.edu)
Saeed Salem, North Dakota State University, (saeed.salem@ndsu.edu)
Mehmet Koyuturk, Case Western Reserve University, (mehmet.koyuturk@case.edu)