Dissertation Topics

Keywords : Follicular lymphoma, FL, non-Hodgkin lymphoma, B-cell lymphoma, NGS,
Illumina, genome editing, CRISPR, DLBCL, leukemia, CLL, FCR, BCR signaling
inhibitors

6. REGULATION OF CELL MIGRATION IN B CELL LEUKEMIAS ANDLYMPHOMAS

Supervisor : Marek Mráz

RG : Marek Mráz Research Group

Keywords: Follicular lymphoma, FL, non-Hodgkin lymphoma, B-cell lymphoma, NGS,
Illumina, genome editing, CRISPR, DLBCL, leukemia, CLL, FCR, BCR signaling
inhibitors

7. ROLE OF TRANSCRIPTION FACTORS IN ONSET AND PROGRESSIONOF B-CELL MALIGNANCIES

Supervisor : Marek Mráz

Co-supervisor : Josef Večeřa

RG : Marek Mráz Research Group

Keywords: leukemia, lymphoma, B cell malignancies, TFs, CLL3

8. Subcellular trafficking in plant survival

Supervisor : Tomasz Nodzynski

RG : Tomasz Nodzynski Research Group

Keywords: vesicular trafficking; intracellular localization; stress response; adaptation

9. Investigating the regulation of the RNA modifying enzyme ADAR1 and how it regulates other biological pathways and diseases

Supervisor : Mary O’Connell

RG : Mary O’Connell Research Group

Keywords: RNA modification, epitranscriptome, ADAR, innate immunity, cancer

10. Complexes Maintaining Chromatin Structure

Supervisor : Jan Paleček

RG : Jiří Fajkus Research Group

Keywords: Chromatin structure, genome stability, SMC complexes

11. Proteins involved in the regulation of telomeric repeats

Supervisor : Petra Prochazkova Schrumpfova

RG : Jiří Fajkus Research Group

Keywords: telomerase; telomeres; proteins; telo-box; regulatory elements; telomerase assembly; plant
development

12. The use of CRISPR/Cas9 technology to developinnovative strategies for cellular therapy ofhematological malignancies

Supervisor : Michal Šmída

RG : Michal Šmída Research Group

Keywords: CRISPR/Cas9, CAR-T cell, B-cell malignancy, genetic screening

13 . The role of protein-protein interactions in the dynamics of m6A RNA modification

Supervisor : Štěpánka Vaňáčová

RG : Štěpánka Vaňáčová Research Group

Keywords: mRNA, protein interactions, m6A RNA, m6Am, RNA modification

Structural Biology

1. Structal studies of various states of direct and bridged transcription-translation coupling in vitro and in vivo

Supervisor : Gabriel Demo

RG : Gabriel Demo Research Group

Keywords : RNA polymerase, ribosome, coupling, structure, cryo-EM, cryo-ET

2. Determination of structural mechanism of coupledviral transcription and host translation in virusinfected mammalian cells

Supervisor : Gabriel Demo

RG : Gabriel Demo Research Group

Keywords : Poxviruses, viral RNA polymerase, ribosome, coupling, cryo-ET

3. RNA as a drug target

Supervisor : Peter Lukavsky

RG : Peter Lukavsky Research Group

Keywords : mRNAs, 3’UTRs, non-coding mRNA

4. Designing modified DNA fragments

Supervisor : Radek Marek

RG : Radek Marek Research Group

Keywords : DNA, base pairing, molecular modelling, quantum chemistry

5. Structure of parallel forms of nucleic acids studied by NMR spectroscopy and molecular modelling

Supervisor : Radek Marek

RG : Radek Marek Research Group

Keywords : DNA, base pairing, NMR spectroscopy, molecular modelling

6. Structural and time-resolved studies of phage replication in bacterial biofilm

Supervisor : Pavel Plevka

RG : Pavel Plevka Research Group

Keywords : bacterial biofilm, phage therapy, ion beam milling, cryo-electron tomography, cryo-ET,
fluorescence microscopy, cryo-electron microscopy, virology, antibiotic-resistance

7. Structural study of enterovirus replication in vivo

Supervisor : Pavel Plevka

RG : Pavel Plevka Research Group

Keywords : enteroviruses, replication cycle, ion beam milling, cryo-electron tomography, cryo-ET, virology,
cryo-electron microscopy

8. Structural Biology of WNT Signalling

Supervisor : Konstantinos Tripsianes

RG : Konstantinos Tripsianes Research Group

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

9. Association of proteins in phospholipid membranes

Supervisor : Robert Vácha

RG : Robert Vácha Research Group

10. Selectivity of translocation across lipid membranes

Supervisor : Robert Vácha

RG : Robert Vácha Research Group

11. Structural characterization of hybrid proteinsinvolved in neurodegenerative diseases

Supervisor : Jozef Hritz

Consultant : Lukáš Žídek

RG : Lukáš Žídek Research Group

Keywords : hydrid proteins, disordered region, NMR spectroscopy, neurodegenerative diseases
phosphorylation, computational simulations

12. Structural properties of human carbonic anhydrase IX and design of its inhibitors