Conference schedule

Program overview

WEDNESDAY, September 27

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)

THURSDAY, September 28

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

FRIDAY, September 29

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)

Detailed program

WEDNESDAY, September 27

12:00 - 13:45 Registration and lunch
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
Aleksandra I. Jarmolińska, University of Warsaw, Poland
GapRepairer - Repair Protein Structures and Their Topology
Tymoteusz Oleniecki, University of Warsaw, Poland
CABS-flex Standalone Application for Fast Simulations of Flexibility of Globular Proteins
Sebastian Bittrich, Mittweida University of Applied Sciences, Germany
eQuant: a Web Service for Energy-Based Model Quality Assessment
Alexander Eisold, Mittweida University of Applied Sciences, Germany
In Silico Method for Transformation of DNA/RNA Aptamers into Peptide Nucleic Acid Aptamers
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
Radosław Piliszek, University of Bialystok, Poland
MDFS - a Software Library for Multidimensional Feature Selection in Search for Relevant Genes
Małgorzata Marszałek-Zeńczak, Institute of Bioorganic Chemistry PAS, Poland
Population-Scale Detection of Copy Number Variations in Arabidopsis Thaliana Genome
Tomasz Żok, Poznan University of Technology, Poland
New Approaches to Determine RNA Pseudoknot Order
18:00 - 21:00 Poster session accompanied by dinner buffet
19:00 - 20:00 PTBI Board meeting (members of the Board only)

THURSDAY, September 28

07:30 - 08:00 Jogging with the treasurer
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
Florian Kaiser, Mittweida University of Applied Sciences, Germany
Mining Functionally Conserved Building Blocks in Biological Macromolecules
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
Michał Ciach, University of Warsaw, Poland
Estimation of Intensities of Reactions Triggered by Electron Transfer in Top-Down Mass Spectrometry
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
Paweł Błażej, University of Wroclaw, Poland
Properties of Alternative Genetic Codes in Comparison with the Canonical Genetic Code and Theoretical Codon Assignments
Małgorzata Wnętrzak, University of Wroclaw, Poland
The Application of Multiobjective Approach in the Optimization of the Genetic Code
Jarosław Paszek, University of Warsaw, Poland
Algorithms for Genomic Duplication Models
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
Melania Nowicka, Poznan University of Technology, Poland
Codon Pair Bias Optimization in Synthetic Open Reading Frame Design
Anita Dudek, University of Warsaw, Poland
How Good Are Poisson-Boltzmann Calculations for Protein Hydration Free Energy
Aleksandra Świercz (on behalf of Piotr Żurkowski), Poznan University of Technology, Poland
Graph Algorithms for DNA Sequencing - Origins, Current Models and the Future
17:30 - 18:30 PTBI Convention
19:00 - 22:00 Conference dinner

FRIDAY, September 29

09:00 - 10:40 Session F1 Chair: Anna Gambin
Keynote speaker: Jacek Błażewicz, Poznan University of Technology, Poland
Bioinformatics for RNA world theory
Robert Nowak, Warsaw University of Technology, Poland
Detecting Genomic Rearrangements Using Markers
Maciej Miłostan, Poznan University of Technology, Poland
Sharing of Life Sciences Linked Data - State of the Art and Challenges
Krzysztof Mnich, University of Bialystok, Poland
Critical Line Algorithm for Combining Classifiers
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

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.

Workshops

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.