BIOLOGICAL DATA MANAGEMENT AND ANALYSIS CORE FACILITY
Contact us:
biodata(at)ceitec.cz
Defended theses
Doctoral theses
- Partial atomic charges in proteins (Ondřej Schindler, 2024)
- Visualization of biomacromolecules (David Sehnal, 2023)
- Visualization of protein structures, complexes, and annotations (Aliaksei Chareshneu, 2023)
- Validation of molecular 3D structures (Vladimír Horský, 2022)
- Annotation and visualization of protein secondary structures (Adam Midlik, 2022)
Master theses
- Annotation of ligands in protein families (Kamil Jelínek, 2026)
- Comparison of data management systems for research data (Filip Fábry, 2026)
- Web Search Component for Dynamic Metadata-Based Search and Filtering (Michal Mikuš, 2026)
- Configurable De-identification and Export of Experimental DICOM Data for Research Repositories (Juraj Kulich, 2026)
- Extension for Automated Workflow Processing in the National Repository Platform (Filip Kollár, 2026)
- DAREG Data Processing Workflow Component Integration (Filip Bugoš, 2026)
- Predicted 3D structures as a source of potential novel sugar-interacting proteins (Kateřina Nazarčuková, 2026)
- Refactoring Mol* Volumes & Segmentations 2.0 into a Standalone Library (Daniel Kříž, 2026)
- Lightweight Visualisation and Annotation of Volumetric and Segmentation Data in Mol* (Dominik Tichý, 2026)
- Acquisition of research data from specialised instruments (David Konečný, 2025)
- Calculations of partial atomic charges by machine learning methods (Jan Bříza, 2025)
- Design and implementation of a new architecture for the ACC II (Martin Pilát, 2025)
- Design and implementation of automatic data storage in ChannelsDB (Ján Kučera, 2025)
- Structural Bioinformatics Application Platform (Eduard Ruisl, 2025)
- Automatic updates for the protein similarity search application (Jakub Oršula, 2024)
- API for a web application Atomic Charge Calculator II (Lenka Ptáčníková, 2023)
Bachelor theses
- Visualization and Analytics Components for Molecular Dynamics Data Repository (Oliver Blščák, 2026)
- Virtual Research Environment for Molecular Dynamics Simulation Experiments (Filip Krása, 2026)
- Advancing Automated VM Image Orchestration for Federated Clouds (Lukas Móder, 2026)
- User Interface for Molecular Dynamics Data Repository (Filip Múdry, 2026)
- Implementation of a Deployment Method to Kubernetes for Electronic Laboratory Notebook Software (Drahomír Malota, 2026)
- Implementation of unattended mode and optimization of DAREG Lab Client (Matej Barna, 2026)
- Design and implementation of a new version of 2DProts database web pages (Mario Mičulka, 2026)
- Repairing protein structures from AlphaFold DB (Lukáš Bohuš, 2025)
- Analysis of IDR in transcriptome (Margarita Marsova, 2025)
- GOLEM application back end (Jakub Plhal, 2025)
- VRML to STL mesh format converter for Mol* VS (Marek Eibel, 2025)
- Data downsampling for Mol* VS (Patrik Roháč, 2025)
- Making data stored in the Onedata system available by application for Windows (Andrej Gáfrik, 2025)
- Extending Metadata Annotations with Identification of Biomolecules in Simulation Data (Tomáš Pavlík, 2025)
- Visualisation of tunnels in ChannelsDB using Mol* (Dušan Veľký, 2024)
- Anonymizing experimental data in the MAFIL laboratory (Filip Kovářík, 2024)
- Enhancing the FAIRness of Gromacs software: Adding support to extract metadata in JSON/YAML formats (Róbert Randiak, 2024)
- Deployment of the OMERO system as part of the data workflow in the CELLIM laboratory (Barbora Juríčková, 2024)
- Acquisition protocol templates and compliance verification in the MAFIL laboratory (Boris Engler, 2024)
- Software tools for analysis of ring 3D structure (Michal Oleksik, 2024)
- Modern visualization of partial atomic charges in Mol* (Dominik Tichý, 2023)
- Comparison of machine-learning approaches for calculating partial atomic charges (Jan Bříza, 2023)
- Interactive data system to record the process of neurological measurements of volunteers (Maxmilián Šeffer, 29. 6. 2023)
- System for ensuring the registration and safety of MR measurements in the MAFIL laboratory (Lukáš Kratochvíl, 2023)
- Automated setup of the experiment parameters on magnetic resonance device and following acquiring measured data from PACS (Matúš Pavlásek, 2023)
- Visualization of protein families using 2D diagrams (Amálie Švehlová, 2023)