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X Symposium of the Polish
Bioinformatics Society27-29.09.2017, Uniejów, Poland
| 12:00 - 13:45 | Registration and lunch |
| 13:45 - 14:00 | Conference opening |
| 14:00 - 15:40 | Session W1 |
| 15:40 - 16:00 | Coffee break |
| 16:00 - 17:40 | Session W2 |
| 18:00 - 21:00 | Poster session and buffet |
| 19:00 - 20:00 | PTBI Board meeting (members of the Board only) |
| 07:30 - 08:00 | Jogging with the treasurer |
| 09:00 - 10:40 | Session T1 |
| 10:40 - 11:00 | Conference photo and coffee |
| 11:00 - 13:00 | Social swimming |
| 13:00 - 14:00 | Lunch |
| 14:00 - 15:40 | Session T2 |
| 15:40 - 16:00 | Coffee break |
| 16:00 - 17:10 | Session T3 (Awards session) |
| 17:30 - 18:30 | PTBI Convention |
| 19:00 - 22:00 | Conference dinner and awards |
| 09:00 - 10:40 | Session F1 |
| 10:40 - 10:50 | Closing remarks and farewell |
| 10:50 - 11:30 | Coffee and lunchbox |
| 11:00 - 12:30 | Session F2 (Workshops) |
| 12:00 - 13:45 | Registration and lunch |
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| 13:45 - 14:00 | Conference opening |
| 14:00 - 15:40 | Session W1 Chair: Małgorzata Kotulska |
| Paweł P. Woźniak, Wroclaw University of Science and Technology, Poland Forecasting Residue - Residue Contact Prediction Accuracy |
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| Aleksandra I. Jarmolińska, University of Warsaw, Poland GapRepairer - Repair Protein Structures and Their Topology |
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| Tymoteusz Oleniecki, University of Warsaw, Poland CABS-flex Standalone Application for Fast Simulations of Flexibility of Globular Proteins |
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| Sebastian Bittrich, Mittweida University of Applied Sciences, Germany eQuant: a Web Service for Energy-Based Model Quality Assessment |
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| Alexander Eisold, Mittweida University of Applied Sciences, Germany In Silico Method for Transformation of DNA/RNA Aptamers into Peptide Nucleic Acid Aptamers |
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| 15:40 - 16:00 | Coffee break |
| 16:00 - 17:40 | Session W2 Chair: Aleksandra Gruca |
| Keynote speaker: Dirk Labudde, Mittweida University of Applied Sciences, Germany Watson meets Watson – How Today’s Life Science Technologies Can Shape the Crime Sciences of Tomorrow |
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| Radosław Piliszek, University of Bialystok, Poland MDFS - a Software Library for Multidimensional Feature Selection in Search for Relevant Genes |
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| Małgorzata Marszałek-Zeńczak, Institute of Bioorganic Chemistry PAS, Poland Population-Scale Detection of Copy Number Variations in Arabidopsis Thaliana Genome |
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| Tomasz Żok, Poznan University of Technology, Poland New Approaches to Determine RNA Pseudoknot Order |
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| 18:00 - 21:00 | Poster session accompanied by dinner buffet |
| 19:00 - 20:00 | PTBI Board meeting (members of the Board only) |
| 07:30 - 08:00 | Jogging with the treasurer |
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| 09:00 - 10:40 | Session T1 Chair: Wiesław Nowak |
| Keynote speaker: Thomas Villmann, Mittweida University of Applied Sciences, Germany Classification and Pattern Recognition in Bioinformatics by Prototype-Based Machine Learning Models |
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| Florian Kaiser, Mittweida University of Applied Sciences, Germany Mining Functionally Conserved Building Blocks in Biological Macromolecules |
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| Aleksandra Suwalska, Silesian University of Technology, Poland The Application of Deep Convolutional Neural Networks in the Automated Diagnosis of Early Alzheimer Disease on Magnetic Resonance Images |
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| Michał Ciach, University of Warsaw, Poland Estimation of Intensities of Reactions Triggered by Electron Transfer in Top-Down Mass Spectrometry |
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| 10:40 - 11:00 | Conference photo and coffee |
| 11:00 - 13:00 | Social swimming (Entrance to Uniejow Thermal baths is not included in the registration fee. Guests accommodated in Zamek and Dom Pracy Twórczej have free entrance to the Therms for 3 hours.) |
| 13:00 - 14:00 | Lunch |
| 14:00 - 15:40 | Session T2 Chair: Bartek Wilczyński |
| Keynote speaker: Maciej Komosiński, Poznan University of Technology, Poland Undirected Evolution of Simulated Stick Creatures |
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| Paweł Błażej, University of Wroclaw, Poland Properties of Alternative Genetic Codes in Comparison with the Canonical Genetic Code and Theoretical Codon Assignments |
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| Małgorzata Wnętrzak, University of Wroclaw, Poland The Application of Multiobjective Approach in the Optimization of the Genetic Code |
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| Jarosław Paszek, University of Warsaw, Poland Algorithms for Genomic Duplication Models |
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| 15:40 - 16:00 | Coffee break |
| 16:00 - 17:10 | Session T3 (Awards session) Chair: Paweł Górecki |
| Maciej Błaszczyk, University of Warsaw, Poland Theoretical Methods for Structure Prediction of Proteins and Protein-Peptide Complexes |
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| Melania Nowicka, Poznan University of Technology, Poland Codon Pair Bias Optimization in Synthetic Open Reading Frame Design |
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| Anita Dudek, University of Warsaw, Poland How Good Are Poisson-Boltzmann Calculations for Protein Hydration Free Energy |
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| Aleksandra Świercz (on behalf of Piotr Żurkowski), Poznan University of Technology, Poland Graph Algorithms for DNA Sequencing - Origins, Current Models and the Future |
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| 17:30 - 18:30 | PTBI Convention |
| 19:00 - 22:00 | Conference dinner |
| 09:00 - 10:40 | Session F1 Chair: Anna Gambin |
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| Keynote speaker: Jacek Błażewicz, Poznan University of Technology, Poland Bioinformatics for RNA world theory |
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| Robert Nowak, Warsaw University of Technology, Poland Detecting Genomic Rearrangements Using Markers |
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| Maciej Miłostan, Poznan University of Technology, Poland Sharing of Life Sciences Linked Data - State of the Art and Challenges |
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| Krzysztof Mnich, University of Bialystok, Poland Critical Line Algorithm for Combining Classifiers |
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| 10:40 - 10:50 | Closing remarks |
| 10:50 - 11:30 | Coffee and lunchbox |
| 11:00 - 12:30 | Session F2 (Workshops) Chair: Sebastian Kmiecik |
Poster session is scheduled for the first day of the conference and will be displayed on the terrace of Uniejow castle. Presenters will benefit from the interactive critique, suggestions and encouragement from colleagues working in bioinformatics area. A panel of senior researchers will review presented posters, with one prize winner selected.
List of posters is available here.
Each poster should be provided in the form of a printed single large sheet of paper/plastic with a maximum format of A0 and portrait orientation.
| Subject | Standalone programs for fast simulations of protein flexibility and protein-peptide docking: CABS-flex and CABS-dock |
|---|---|
| Presenters | Mateusz Kurcinski, Maciej Ciemny, Tymoteusz Oleniecki, Karolina Dawid, Sebastian
Kmiecik
Biological and Chemical Research Centre, University of Warsaw, Poland |
| Description | In the workshop, we will present a suite of standalone programs for efficient modeling of protein
flexibility and protein-peptide interactions. These newly developed programs are extended versions of widely used web servers:
CABS-flex and CABS-dock. The workshop will be focused on practical demonstrations on how to use:
(a) CABS-flex standalone application for fast simulations of protein structure fluctuations; (b) CABS-dock standalone application for flexible protein-peptide docking (including docking with large-scale conformational changes of a protein receptor); (c) PyMOL plugin for convenient visualization and analysis of CABS-flex/CABS-dock modeling results. Participants will be able to test selected software features. In order to exercise, participants should have their own laptops, although hands-on exercise is not obligatory. The workshop will be held in the form of short presentations and participants will get access to all presented step-by-step instructions. The workshop is suited for the beginners. |
| How to attend | To participate in the workshop, please send an email to sekmi@cnbc.uw.edu.pl or sign-up via facebook event web page. All registered participants will receive introductory and follow-up materials. |
| Additional information | Participation in the workshop is free of charge. |