Topics Life Sciences

Life Sciences

1. Characterization of cyclin-dependent kinase 12 (CDK12) substrates and their roles in regulation of transcription and tumorigenesis

Supervisor: Mgr. Dalibor Blažek, Ph.D.   Research group: Inherited Diseases - Transcriptional Regulation 

Keywords: CDK12, transcription, mRNA processing, RNA polymerase II, cancer, genomics, proteomics, kinase inhibitors

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2. Functions of cyclin-dependent kinase 11 (CDK11) in regulation of gene expression and tumorigenesis

Supervisor: Mgr. Dalibor Blažek, Ph.D.  Research group: Inherited Diseases - Transcriptional Regulation 

Keywords: CDK11, transcription, mRNA processing, RNA polymerase II, cancer, genomics, proteomics, kinase inhibitors

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 3. Microenvironment models and their use to study aggressiveness and targeted therapy in B cell malignancies

​Supervisor:  Prof. MUDr. Mgr. Marek Mráz, Ph.D.  Research group: Microenvironment of Immune Cells 

Keywords:   lymphoma, microenvironment, models

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4. Investigating the impact of heat stress on ovule fitness for seed set in Arabidopsis thaliana

​Supervisor: Helene Robert Boisivon, Ph.D.  Research group: Hormonal Crosstalk in Plant Development Group

Keywords:  Arabidopsis thaliana, fertilization, high temperatures

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5. Dishevelled internal affairs in Wnt signalling

Supervisor: Konstantinos Tripsianes, Ph.D.  Research group: Protein-DNA Interactions

Keywords: Wnt signalling, Dishevelled, Casein kinase, interactions, conformations, phosphorylations, dynamics, allostery, NMR, X-ray crystallography, SAXS, FRET, cryo-EM, native MS, MS-HDX.

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6. Deciphering the mechanisms of signal integration via MSP signalling in Arabidopsis thaliana

Supervisor: doc. RNDr. Jan Hejátko, Ph.D.  Research group: Functional Genomics and Proteomics of Plants

Keywords: Multistep phosphorelay, cytokinins, ethylene, signal integration, synthetic biology.

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7. Advancing Long-Read Sequencing Analysis for Structural and Splice Variant Detection and Post-Transcriptional Modification Identification Using Nanopore Technology

Supervisor: Mgr. Vojtěch Bystrý, Ph.D.  Core facility: Bioinformatics Core Facility

Keywords: Bioinformatics, long-read sequencing, nanopore technology, structural variant detection, splice variant estimation, direct RNA sequencing, post-transcriptional modification detection, epitranscriptomics.

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8. Co-translational quality control and its role in neural tissue

Supervisor: RNDr. Petr Těšina, Ph.D.  Research group: Translation Control

Keywords: Translation, cryo-EM, ribosome-associated quality control, co-translational control.

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9. Translation in the context of human host-pathogen interaction

Supervisor: RNDr. Petr Těšina, Ph.D.  Research group: Translation Control

Keywords: Translation, cryo-EM, host-pathogen interaction, co-translational control.

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10. The role of RNA modifying factors in human cancer

Supervisor: Prof. Mgr. Štěpánka Vaňáčová, Ph.D.  Research group: RNA Quality Control

Keywords: RNA modifications, RNA processing, transcriptomics, proteomics, protein-RNA interactions

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11. Terminal RNA modifications in gene expression and viral infection

Supervisor: Prof. Mgr. Štěpánka Vaňáčová, Ph.D.  Research group: RNA Quality Control

Keywords: RNA modifications, RNA processing, transcriptomics, proteomics, protein-RNA interactions

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12. Peptide Sequence Motifs for Selective Targeting of Pathogens

Supervisor: doc. RNDr. Robert Vácha, Ph.D.  Research group: Interaction Protein-Protein and Protein-Membrane

Keywords: Computer simulations, Molecular dynamics, Free energy, Peptides, Sequence motif

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13. Regulation of protein liquid droplets during transcription

Supervisor: doc. RNDr. Robert Vácha, Ph.D.  Research group: Interaction Protein-Protein and Protein-Membrane

Keywords: Computer simulations, Coarse-grained model, Molecular dynamics, Monte Carlo,
Free energy, Sequence motif

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14. RNA condensates in plant stress adaptation

Supervisor: Mgr. Karel Říha, Ph.D.  Research group: Plant Molecular Biology

Keywords: cytoplasmic RNA condensates, plant adaptation, abiotic stress

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15. Deciphering the Argonaute Loading Mechanisms in RNA-Silencing Pathways

Supervisor: prof. Mgr. Richard Štefl, Ph.D.  Research group: Structural Biology of Gene Regulation

Keywords: gene silencing, small RNA, Argonaute, cryoEM, structures

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16. Investigating the Role of Short Regulatory Elements in Plant Sexual Reproduction

Supervisor: Mgr. Petra Procházková Schrumpfová, Ph.D.  Research group: Chromatin Molecular Complexes

Keywords: gene regulatory sequences, transcriptional regulation, gametophyte development, genomics, proteomics, plants

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