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Special Session
Multiobjective Optimization in Bioinformatics, Computational Biology and Biomedical Engineering
May 30th to June 2nd 2018
Saint Louis, Missouri, USA
Organizers
Richard Allmendinger
The University of Manchester, UK
Julia Handl
The University of Manchester, UK
Amarda Shehu
Mason University, USA
Scope and call for papers
This special session invites papers discussing recent advances in the development and application of Multiobjective Optimization in Bioinformatics, Computational Biology and Biomedical Engineering.
Bioinformatics, Computational Biology and Biomedical Engineering (BCBBE) are interdisciplinary scientific fields involving many branches of computer science, engineering, mathematics, and statistics. Broadly speaking, we can define Bioinformatics as a field concerned with the creation/engineering of tools (e.g. algorithms, databases) that solve problems based on biological data, while Computational Biology is concerned with the (scientific) study of biology using computational techniques with the goal to learn new biology and knowledge about living systems (Russ Altman). Finally, Computational Biomedical Engineering is an emerging research field concerned with the development of software and hardware tools to ultimately enhance human health.
Bioinformatics, and Computational Biology and Biomedical Engineering are fields in which challenges and issues can often be formulated as optimization problems subject to multiple conflicting objectives. Such multiobjective optimization problems span from traditional problems, such as the optimization of biochemical processes, construction of gene regulatory networks, protein structure alignment and prediction, to more modern problems, such as big data analysis of healthcare data, and medical imaging and pattern recognition.
The main aim of this special session is to bring together both experts and new-comers working on Multiobjective Optimization in Bioinformatics, Computational Biology and Biomedical Engineering to discuss new and exciting issues in this area.
We encourage submission of methodology papers describing new challenges and optimization techniques as well as application papers discussing the power and applicability of these novel methods to multiobjective problems in Bioinformatics, Computational Biology and Biomedical Engineering. You are invited to submit papers that are unpublished original work for this special session at IEEE CIBCB 2016. Topics include, but are not limited to,
- Multiobjective optimization techniques for problems in Bioinformatics, Computational Biology and Biomedical Engineering (BCBBE)
- Evolutionary algorithms
- Swarm Intelligence
- Metaheuristics
- Fuzzy optimization
- Surrogate-based methods
- Hybrid optimization algorithms (combinations of heuristics and exact methods)
- Preference-based methods
- Tuning of multiobjective optimization and decision-making techniques for problems in BCBBE
- Performance measures
- Test and benchmark problems
- Visualization techniques
- Optimization and visualization software
- Applications of multiobjective optimization techniques in BCBBE
- Gene expression array analysis
- Structure prediction and folding
- MicroRNA analysis
- Biological network reconstruction
- Signal and image processing
- Medical imaging and pattern recognition
- Biomarker
- Further prominent and emerging topics in multiobjective optimization in BCBBE
- Scaling up from lab-based work to commerical manufacture
- Challenging problem features (e.g. many decision variables, dynamic problems, uncertainty, expensive and limited evaluations, etc)
- Closed-loop applications and challenges
- Multiobjective data mining
- Predictive fitness landscape design
- Many-objective optimization
- Side effect machines and other kernal representations for sequence analysis
- Ecoinformatics
- Visual analytics
- Data modelling/mining, and Big Data analytics
Submission instructions
We welcome original contributions describing ongoing projects or completed work. The instructions for authors, and LaTeX and Word templates can be found at http://cibcb.org/CIBCB2018/index-4.html
Important dates
Paper submission:
December 23, 2017
Author notification: February 9, 2018
Final Submission: TBD
Contact
Please feel free to contact us
Richard Allmendinger: richard.allmendinger@manchester.ac.uk
Julia Handl: julia.handl@manchester.ac.uk
Amarda Shehu: amarda@gmu.edu
About the organizers
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Richard Allmendinger
is a Lecturer at the Alliance Manchester Business School (Alliance MBS), The University of Manchester,
UK. Richard has joined Alliance MBS after a 4-year long stint as Postdoc at the EPSRC Centre for
Innovative Manufacturing in Emergent Macromolecular Therapies, University College London (UCL), UK.
He received a PhD degree in Computer Science from the University of Manchester, UK, and a Diplom in
Industrial Engineering from the Karlsruhe Institute of technology (KIT), Germany, and the Royal Melbourne
Institute of Technology (RMIT), Australia.
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Julia Handl
is a Senior Lecturer in the Decision and Cognitive Sciences Group at the University of Manchester.
Prior to this I was an MRC Special Training Fellow at the University of Manchester and the
University of Washington. I hold a PhD from the University of Manchester, a Masters degree
in Computer Science from the University of Erlangen-Nuremberg and a Bachelor (Hons) degree
from Monash University.
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Amarda Shehu
holds affiliated appointments in the School of Systems Biology and the Department of
Bioengineering at George Mason University. Shehu's research contributions are in
computational structural biology, biophysics, and bioinformatics with a focus on issues
concerning the relationship between sequence, structure, dynamics, and function of
biological molecules. Her research on probabilistic search and optimization algorithms
for protein structure modeling is supported by various NSF programs, including Intelligent
Information Systems, Computing Core Foundations, and Software Infrastructure.
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