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[platne_od] => 29.04.2025 10:30:00
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Technická 5
166 28 Prague 6 – Dejvice
IČO: 60461373 / VAT: CZ60461373
Czech Post certified digital mail code: sp4j9ch
Copyright: UCT Prague
Information provided by the Department of International Relations and the Department of R&D. Technical support by the Computing Centre.
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Come and learn what life as a PhD candidate is like.
Meet your fellow PhD candidates and get to know the people from various support offices who will be there to help you throughout your doctoral journey.
Get oriented in the new structure of doctoral studies at UCT Prague!
- What are your obligations during the PhD?
- What is expected from you and how can you prepare?
- What are the financial opportunities?
- What do projects, mentoring, and soft skills courses involve?
- What other opportunities does UCT Prague offer?
You’ll be introduced to all available support departments and the offices that organize support activities and courses:
PROGRAMME
9:00 – 9:10 Welcome speech – Vice-Rector for Doctoral Studies, Prof. Michaela Rumlová *
9:10 – 9:30 Introducing the PhD Office – Mgr. Mili Losmanová, PhD Support
(incl. a short introduction of Faculty Offices) *
9:30 – 10:30 The Electronic PhD Guide Team – Ing. Petra Špringer Šimonová *
* For this part of the program (9 - 10:30), come with your supervisor
BREAK – 15 min
10:45 – 11:00 University Ombudsperson – ThDr. Klára Muzikářová, Ph.D.
11:00 – 11:20 International Relations Office – Bc. Lenka Polanská
11:20 – 11:40 HR Department – Ing. Simona Pavelková
11:40 – 12:20 Open discussion with current doctoral candidates
LUNCH BREAK – 1 hour
13:30 – 15:00 Workshop – Jan Froněk, Academic Coach:
“Roadmap to PhD”
BREAK – 15 min
15:15 – 15:30 Welcome Office – Ing. Anna Mittnerová and Ing. Jitka Tomanová
15:30 – 15:50 Counselling and Career Centre – TBA
15:50 – 16:10 National Library of Technology – Ing. Naděžda Firsová, Ph.D.
16:10 – 16:30 Project Centre – Ing. Hana Štěpánková
16:30 – 16:50 Research and Technology Transfer Office – Ing. Kateřina Kovaříčková
16:50 – 17:10 Data Stewardship Team – Ing. Martin Schatz, Ph.D. and Data Stewards
Moderated by: PhD Support – Mili Losmanová, Office for Doctoral Studies
Representatives from each Faculty Office will also be present.
You will receive:
- Adaptation plan
- “Survival Guide: 15 Tips for Navigating Your PhD” leaflet
- A timeline of your PhD journey – clearly defined responsibilities and the ideal timing for completing them
- A list of all transferable skills courses available to doctoral candidates at UCT Prague
Hosted by the PhD Office
Start your PhD with a clear overview and strong support!
Preparation of IDCAC 2025 is under way. Details coming soon.
--------------------------------------------------------------
We are pleased to welcome you on the website of The First International Doctoral Conference on Advances in Chemistry , a conference for PhD candidates organised (mainly) by PhD candidates.
The conference took place on November 9, 2024 . The in-person part took place at UCT Prague. Especially for foreign participants, we were happy to offer the possibility to present their contribution on-line in a hybrid session.
Sections (Chairpersons)
- Organic & Inorganic Chemistry (Pavel Kraina)
- Biochemistry (Anna Amirianová)
- Environmental Chemistry (Annelie Kadlecová)
- Analytical, Physical and Computational Chemistry (Jan Vališ & Eva Pospíšilová)
- Chemical Engineering and Technology (Jakub Staś)
Venue
The in-person part of the conference will be held in the Dejvice Campus, particularly in the buildings of the University of Chemistry and Technology, Prague (Technická 5, Prague 6, Czech Republic).
If you are further from our venue, we are happy to offer the possibility to present your contribution on-line in a hybrid session. Participants who enrolled in the virtual form will receive a link to join us in due time.
Registration
The registration, which was opend up to Oct 15, 2024, is now closed.
Abstract submision
Abstract were to be submitted by Oct 15, 2024 and the limit was 2500 symbols (including spaces; names of authors and their respecitive affiliations are excluded from character count limit) and the abstract should not contain any graphics. The abstract will be published in a conference proceedings and an ISBN will be attached to it.
Fees
We are pleased to inform you, that thanks to our parntners, the conference is free of cherge and in-person participants will be able to enjoy complimentary coffee breaks and lunch at UCT Prague. So don't forget to let us know about your dietary preferences and restrictions in the registration.
Programme
The registration will be held between 9:30 and 9:45 in the building A of UCT Prague (Technická 5, Prague), however participants are free to join us at any moment - if you are not local, just stop by the reception desk and ask for the conference; the receptionists will let us know and we will come for you. The end of the conference together with presentation of awards is planned to be around 16:30. For more details, please see the general programme or a time-table with list of presenting authors.
Presentations
The presentations are to be made in english and should last 10 min. Each presentation will be followed by a Q&A.
In person participants will have the opportunity to upload their pptx or pdf files on a computer durting the coffe break prior to their session.
Virtual participants will share their presentation from their computer. In the hybrid form, virtual participants are encorugaed to secure a calm enviroment with good connection as well as to share their video.
Best presentation awards
The chairpersons and the organizers had the pleasure to present the following doctoral candidates with prices for the best presentation in their sections:
- Organic Chemistry: Killiann Heinz (University of Chemistry and Technology, Prague)
- Biochemistry: Ondřej Morávek (University of Pardubice)
- Environmental Chemistry: Jan Čundrle (J. E. Purkyně University in Ústí nad Labem)
- Analytical, Physical and Computational Chemistry: Jorge Servert Lerdo de Tejada (University of Manchester)
- Chemical Engineering and Technology: Dániel Gardenö (University of Chemistry and Technology, Prague)
Conference proceedings
The orginisers wish to thank to all participants who submited their abstracts which were collected in the IDCAC 2024 Book of abstracts. The publication with ISBN: 978-80-7592-269-4 is available here. The full sugested citation is: E. Pospíšilová, S. Hermochováa J. Vališ, „The 1st International Doctoral Conference on Advances in Chemistry – book of abstracts", Prague, Czechia, 2024. doi: 10.5281/zenodo.14015303.
Conference partners
The orginisers wish to thank to both UCT Prague, ORLEN Unipetrol Foundation and Zentiva for their generous support.
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What is onboarding?
Onboarding is a key process of integrating new employees into the organisation, thereby enhancing both their professional, social, cultural and organisational integration. As a result, employees feel welcomed as part of the organisation and better prepared for the tasks ahead of them. The sooner the new employee feels welcome and fully informed, the better and quicker they will be able to contribute to the organisation successfully.
Onboarding procedures are common in the private sector but often absent in academic institutions. In particular for newly hired Early Career Researchers (ECR), namely PhD candidates, such procedures will strongly impact both their integration into the organisation and clarification of roles and responsibilities of all stakeholders involved in their programme. In order to maximize their impact, it is therefore important that onboarding procedures are approved and supported by supervisors and Postgraduate offices. While it has been shown that successful onboarding contributes to increased well-being and motivation, many ECRs often feel somewhat lost and poorly supported when entering academia, leading to doubt, insecurity and sometimes even an early abandonment of their research project.
UCT and onboarding
In collaboration with the PRIDE network (Professionals in Doctoral Education), a working group was formed with the aim of drafting a publication on onboarding, focusing for the first time on doctoral candidates and postdocs and their adaptation process at the university.
UCT Prague initially launched an extensive questionnaire to assess awareness of onboarding, whether and how many people have encountered it, and what they would welcome within the academic environment. After evaluating the questionnaire, meetings were held in the private sector with HR professionals. We wanted to verify how onboarding is conducted in private companies and how we can leverage their know-how and experiences in our context.
The collected materials and interviews with HR professionals were used to create an adaptation plan, which was piloted from September 2023 at three institutes of UCT Prague. The resulting adaptation plan, which is part of this page, will serve the needs of UCT Prague supervisors who work with newly hired doctoral candidates. Furthermore, the adaptation plan will be utilized for the PRIDE network publication, serving as a foundation for other European universities.
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[ikona] => [obrazek] => 0002~~y0lMyi9KLMkvik9KTEs0MQYA.jpg [vyska] => md [ogobrazek] => [pozadi] => [obsah] =>What is a “Double-Degree” programme?
It is doctoral study programme that is leading to two diplomas from both home university as well as partner university. Student works on one dissertation, the study programmes are fully integrated between collaborating universities and include specialized courses at home university and one interdisciplinary at partner university.
Each successful applicant signs individual contract about doctoral double degree based on his/her particular situation (research area, supervisor’s requirements, home university requirements etc.). The contract is signed between UCT Prague and student’s home university.
Requirements for doctoral double degree contract:
- Student has to agree with two supervisors – one from the home university, one from UCT Prague
- Student has to be accepted by his/her supervisor to PhD studies at UCT Prague
- Student has to be accepted to PhD studies at his/her home university
- UCT Prague and student’s home university have to have a joint double degree study programme (list of offered programmes below)
Contact persons at UCT Prague
First contact (study matter) - Contact person of each double degree study programme.
Second contact (general matter, information about the application proceedings)– Department of International Relations: international@vscht.cz
Finances
In terms of cooperation with partner universities no tuition is required. Students are expected to cover any additional costs themselves.
What are the advantages?
Besides improved employability of graduates, there is emphasis on research activity coupled with a possibility to lead small research groups. The program inherently strengthens professional language knowledge. There are possibilities to gain practical skills thanks to cooperation with partner companies such as Zentiva, Zeva, Contipro, Lonza Biotec or in practically oriented departments of Czech Academy of Sciences, where are practical traineeships available. Last but not least there is excellent support of students, including motivational scholarships.
Double degree programmes offered
There are 8 programmes at 4 faculties
FCT – Faculty of Chemical Technology
FET – Faculty of Environmental Technology
FBT – Faculty of Food and Biochemical Technology
FCE – Faculty of Chemical Engineering
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Institute of Organic Chemistry and Biochemistry of the CAS
Biomimetic Approaches to the Total Synthesis of the Axinellamines
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Chemistry of Natural Compounds
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | |
| Also available in study programmes: | Biochemistry and Bioorganic Chemistry ( in English language ), Chemistry ( in English language ) |
| Supervisor: | Dr. habil. Ullrich Jahn |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
The axinellamines belong to the most complex alkaloids with interesting biological properties. With this project biomimetic approaches will be explored to enable short total syntheses of the natural products themselves and of analogs. Their biological profile will be investigated in collaboration.
Catalytic Synthesis of Atropisomers by Substitution
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | Dr. Paulo Paioti |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
We recently developed a method for synthesis of otherwise difficult-to-access atropisomers by nucleophilic aromatic substitution. One advantage is that starting materials, N‒H heterocycles and fluoroarenes, are readily available, and another is that the reactions are highly efficient and broadly applicable. However, the method currently produces racemates of atropisomers and is not catalytic. Accordingly, PhD students in our laboratory will develop catalytic atroposelective synthesis of such compounds and others. Several possibilities will be studied. The molecules synthesized in this project will be tested broadly in medicinal chemistry screenings.
Computational mass spectrometry
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Informatics and Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Bioinformatics ( in English language ) |
| Supervisor: | Mgr. Tomáš Pluskal, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Our lab combines experimental (mass spectrometry, metabolomics and RNA-seq) and computational (bioinformatics and machine learning) approaches for the discovery of novel bioactive molecules derived from plants. The aim of this project will be the development of new computational methods for processing and interpreting small molecule mass spectrometry data, in particular for automated mass spectra interpretation, molecule annotation, and generation and visualization of molecular networks. Candidates for this position should be able to independently program in Java and Python.
Cryo-EM structural biology of diseases: Rationally designed viral-RNA based inhibitors of influenza RNA polymerase
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Biochemistry and Microbiology
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Mgr. Tomáš Kouba, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Effective treatment against influenza viruses (Flu) suffers from virus resistance. Therefore, there is a great demand for exploring new drug targets and developing effective novel antivirals. This is challenging, since there is only a limited number of antiviral targets for rational drug design. This project will tackle both; it will explore and verify a new target and develop inhibitors against it. Cutting edge results in structural biology of the influenza RNA-dependent RNA polymerase (FluPol), identified a common general mechanism of Flu RNA transcription and replication cycle. The mechanism is entirely dependent on binding of viral endogenous RNA molecules to specific sites on the FluPol. Aided by already existing cryo-EM structures of FluPol, we will design inhibitors based on the sequence, atomic structure and interactions with the protein, and add extensive chemical modification to these viral RNAs. We will then test whether they can inhibit FluPol by in vitro and in cell-based experiments. Targeting these RNA binding sites and using RNA-scaffold based molecules is an innovative concept and expected to be robust in respect to the development of viral resistance. Altogether, the approach has great potential to bring a new universal paradigm to the field of antiviral drug discovery.
Design and synthesis of novel methyltransferase Inhibitors
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | |
| Also available in study programmes: | Drugs and Biomaterials ( in English language ), Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Mgr. Radim Nencka, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
The Ph.D. student will design and synthesise novel methyltransferase (MTase) inhibitors targeting viral, fungal or human MTases. The student will use in silico approach to speed up the development of potential drugs, but the main part of the assignment will be the organic synthesis. Preparation of suitable ligands bearing a fluorescent tag will enable the efficient development of a screening assay.
Development of reversible photoinduced electron transfer
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | RNDr. Tomáš Slanina, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Photoinduced electron transfer and charge separation is one of the most important phenomena in Universe. It plays an important role in processes essential for life, such as photosynthesis, respiration, protein folding and biocatalysis. It is also highly relevant for solar cells, batteries, molecular electronics and smart materials. The thesis will focus on development of systems for reversible charge transfer between two redox-active centres. The transfer of charge will be in both directions controlled by photoinduced electron transfer and both states will be stabilized by follow-up chemical reaction (intramolecular cyclization, protonation and others). Reversible photoinduced electron transfer will be used for dipole reorientation, control of charges and counterions and regulation of electrostatic interactions. These unique properties will be further used in design of novel materials and devices in molecular electronics. The candidate will perform synthesis and characterization of organic redox-active molecules and will study their properties. Highly motivated and skilful candidate will have the opportunity to extend his/her graduate training in physical and organic chemistry by learning electrochemical, photochemical and advanced spectroscopic methods.
Discovery of unique chemical structures of plant metabolites
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Chemistry of Natural Compounds
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Mgr. Tomáš Pluskal, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Our lab combines cutting-edge experimental (e.g., LC-MS, metabolomics, RNA-seq) and computational (e.g., bioinformatics, molecular networking, machine learning) approaches to develop new workflows for the discovery and utilization of bioactive molecules derived from plants. This project will focus on screening many plant species using liquid chromatography mass spectrometry to discover and isolate unique chemicals (metabolites), including basic characterization of their bioactive potential.
Display of proteins on DNA
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | prof. Ing. Michal Hocek, DSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Nucleotides bearing specific ligands or reactive groups will be designed and synthesized, from which modified DNA will be synthesized by enzyme methods and used to attach target proteins. Applications will include multi-enzyme systems.
Display of proteins on DNA
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Biochemistry and Microbiology
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | prof. Ing. Michal Hocek, DSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Nucleotides bearing specific ligands or reactive groups will be designed and synthesized, from which modified DNA will be synthesized by enzyme methods and used to attach target proteins. Applications will include multi-enzyme systems.
Enzymatic synthesis of modified oligonucleotides and DNA bearing several modifications at specific positions
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | |
| Also available in study programmes: | Chemistry ( in English language ), Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | prof. Ing. Michal Hocek, DSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Modified 2'-deoxyribonucleoside-triphosphates will be synthesized and used in enzymatic synthesis of oligodeoxyribonucleotides and DNA bearing several modifications at specific positions using a novel approach involving repeated annealing of RNA templates, primer extension and RNA digestion. Applications will include the spatially defined attachment of several different biomolecules, particularly proteins, to DNA.
Evolutionary origin of terpenoid biosynthesis in insects
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Biochemistry and Microbiology
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Ing. Iva Pichová, CSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Terpenoid secondary metabolites are used by organisms for communication and defense, and their biological activities are exploited by industries such as pharmaceuticals, cosmetics, or food and flavour. This PhD project addresses the question of evolutionary origin of terpenoid biosynthesis in insects. Terpene synthases (TPS) are key enzymes responsible for the conversion of prenyl pyrophosphates into terpenes, and insect TPSs are unrelated to their plant or microbial counterparts. They have evolved multiple times independently in different insect lineages. Our understanding remains limited in terms of their reaction mechanisms and structure-activity relationships. Within this PhD project, the doctoral candidate will functionally characterize a set of insect terpene synthases from unrelated insect clades and define their common and idiosyncratic structural features acquired during their multiple independent origins. This PhD project is funded by the European MSCA Doctoral Network ‘ModBioTerp’ and the grant support for the broader research project is funded by Ministry of Education, Youth, and Sports (2024-2027).
Glycine alkoxyamines for New Bioconjugation Methodologies
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Chemistry of Natural Compounds
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Dr. habil. Ullrich Jahn |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
We just accomplished approaches to glycine alkoxyamines, which hold large promise in bioconjugation. With this project the potential of these non-natural amino acid derivatives for approaching new peptide architectures will be explored.
Glycine alkoxyamines for New Bioconjugation Methodologies
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | Dr. habil. Ullrich Jahn |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
We just accomplished approaches to glycine alkoxyamines, which hold large promise in bioconjugation. With this project the potential of these non-natural amino acid derivatives for approaching new peptide architectures will be explored.
Helically chiral ligands for asymmetric transition metal catalysis
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | |
| Also available in study programmes: | Chemistry ( in English language ), Chemistry ( in English language ) |
| Supervisor: | RNDr. Ivo Starý, CSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship + salary |
| Other expected Forms of Study / Methods of Funding: | |
| Full-time / Scholarship ( in study programme - Chemistry ( in English language ) ) | |
Annotation
The goal of the PhD project will be the development of new helically chiral metal complexes to be explored in enantioselective catalysis. The attention will be paid to the synthesis of cyclometallated helicenes and helical cyclopentadienyl complexes. They will be applied to selected enantioselective reactions catalysed by transition metals such as alkyne cycloisomerisation, olefin metathesis or hydrogenation.
Inhibitors of methyltransferases – design and synthesis of potential new drugs
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | |
| Also available in study programmes: | Drugs and Biomaterials ( in English language ), Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Mgr. Radim Nencka, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
The PhD student will focus on the design and organic synthesis of new methyltransferase inhibitors, whether derived from viral, fungal, or human sources. In the course of developing these compounds, the candidate will employ in silico molecular modeling to streamline and accelerate the search and optimization of inhibitors. Nonetheless, the main emphasis of the project will remain on the organic synthesis of potential therapeutic agents. Additionally, the project will include the preparation of ligand analogs equipped with suitable tags, whether fluorescent or functional (e.g., biotin for pull-down assays, thalidomide for PROTAC technology).
Mass Transport Properties of Porous Materials for Enhanced Adsorption and Catalysis
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | RNDr. Ota Bludský, CSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship + salary |
Annotation
This thesis aims to enhance our understanding of how the dynamic behaviors of host-guest systems in porous solids affect mass transport properties, which are crucial for adsorption and catalysis. It focuses on three key issues: (i) the role of composition and guest molecules in the mass transport properties of flexible materials such as zeolites and ZIFs, (ii) gating effects in low-silica materials, and (iii) the influence of internal defects (e.g., silanols) on gas separation.
Metabolic engineering for bioproduction of terpenoids
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Chemistry of Natural Compounds
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Mgr. Tomáš Pluskal, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Our lab combines cutting-edge experimental (e.g., LC-MS, metabolomics, RNA-seq) and computational (e.g., bioinformatics, molecular networking, machine learning) approaches to develop new workflows for the discovery and utilization of bioactive molecules derived from plants. The aim of this project will be to engineer new microbial platforms for the bioproduction of terpenoid precursors and terpenoids derived from them.
Modelling the catalytic mechanisms of terpene synthases using deep learning
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Informatics and Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Bioinformatics ( in English language ) |
| Supervisor: | Mgr. Tomáš Pluskal, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
The goal of this project is to enable computational characterization and engineering of terpene synthases, an important class of biosynthetic enzymes responsible for creating the chemical scaffolds of the largest class of natural products, terpenoids. The project has three objectives: 1. Assembly of a comprehensive database describing the reaction mechanisms of terpene synthases characterized to date. 2. Development of a deep learning model using transformer neural networks for predicting the substrates, products, and reaction mechanisms of terpene synthases directly from their amino acid sequences. 3. Development of a generative algorithm for designing artificial terpene synthases with a desired function.
Multiphotochromic Molecular Machines
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | Mgr. Jiří Kaleta, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
The project focuses on the development and study of special light-switchable organic molecules that mimic the function of biological systems. These synthetic "molecular machines" will be composed of various photoswitches and molecular motors, with their individual components selectively switched or activated using light of specific wavelengths. The primary goal of the Ph.D. project is the preparation and detailed investigation of these unique molecules and their potential application in the construction of functional prototypes of molecular machines. Emphasis will be placed on different combinations of photoswitches and the methods of their interconnection (orthogonal vs. non-orthogonal).
Novel heterocyclic compounds with potential anticancer properties
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | Ing. Zlatko Janeba, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
In medicinal chemistry, heterocyclic moieties represent important pharmacophores of various biologically active compounds. The goal of this project will be synthesis and structural optimization of novel heterocyclic compounds with potential anticancer properties, and evaluation of their biological properties (activity, ADME, etc.).
Preparation and Characterization of Quantum-Optical Bionanosensors
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Molecular chemical physics and sensorics ( in English language ) |
| Supervisor: | Mgr. Petr Cígler, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship + salary |
Annotation
Photoluminescent nanodiamonds represent a novel type of quantum biosensor that exploits changes in luminescent properties in response to external stimuli. Compared to classical sensors, they offer the benefits of high sensitivity and resolution but are often nonspecific. The aim of the project is to chemically functionalize these sensors for specific and sensitive detection in biologically relevant environments. To achieve this, the student will employ covalent surface modifications of nanosensors in a colloidal state and subsequently characterize them. The functionality of the constructed nanosensors will be verified using a quantum confocal microscope with advanced pulse sequences. The outcome of the project will be time-resolved, localized quantum detection of specific molecules.
Quantum Sensing Using Optical Bionanosensors
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Molecular chemical physics and sensorics ( in English language ) |
| Supervisor: | Mgr. Petr Cígler, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Quantum nanosensors offer significant advantages over classical sensors, including high sensitivity and resolution. One type of such quantum nanosensor is photoluminescent nanoparticles, whose detection is based on monitoring luminescence changes in response to external stimuli. The goal of the project is to read optical nanosensors using pulsed optical EPR detection and tracking spectral changes. The student will design and implement advanced pulse sequences into an existing quantum confocal microscope, conduct measurements, and analyze the results. Furthermore, they will optimize the sensitivity of the nanosensors through chemical surface modifications. The outcome of the project will be time-resolved, localized quantum detection in biologically relevant environments.
Regulation of growth and metabolism by the mTOR pathway
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Biochemistry and Microbiology
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | David Marcelo Sabatini, M.D., Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
My lab has a long-standing interest in the regulation of growth and metabolism. This interest stems from our early work on the pathway anchored by mTOR protein kinase, which we now appreciate is a major regulator of growth and anabolism responds to nutrients. Because we found that lysosomes play a key role in the activation of mTORC1 by nutrients, we began to study lysosomes as well as other organelles, like mitochondria. We developed methods for the rapid isolation and profiling of these organelles (e.g., Lyso-IP), and used them to deorphan the functions of disease-associated genes. Because mTORC1 senses nutrients, we also became interested in the metabolic pathways that cells to use incorporate biomass and generate energy. (1) Nutrient sensing by mTORC1 in vitro and in vivo. We seek to identify the glucose sensor for the mTORC1 pathway; discover nutrient sensors in animals beyond mammals; understand how the nutrient sensors function in vivo. (2) Lysosomes in normal physiology and disease.We seek to understand how common and rare neurodegenerative diseases impact lysosomal function and identify the contents of lysosomes in specialized cells. (3) In collaboration with chemists, we will develop drug-like molecules that target mTOR pathway components as well lysosomal proteins.
Spinristor and memristor: molecular switches with added functions.
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Molecular chemical physics and sensorics ( in English language ) |
| Supervisor: | Doc. Mgr. Michal Straka, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship + salary |
Annotation
With the miniaturization of electronic components nearing its limits, single-molecule components hold great potential as a solution. Our proposal aims to address a gap in molecular electronics by developing switchable spin-filters. We will begin with an in-depth in silico survey to identify experimentally viable molecules, with a focus on introducing spin-filtering via open-shell metal atoms, chirality, or both. Our initial targets include metalloporphyrins, helicenes, short peptides, and endohedral fullerenes. By combining spin-filtering with field-induced spin crossover and isomerization, we can control the transmission properties of these molecules. We will construct a library of in silico characterized systems and use electronic structure to gain a fundamental understanding of their function. The best compounds will be synthesized and characterized experimentally to guide further experiments and provide feedback for our rational design. Ultimately, we envision applications in data storage and in-memory computing.
Structural analysis of small molecules using crystalline sponge X-ray diffraction
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | Mgr. Tomáš Pluskal, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Our lab combines cutting-edge experimental (e.g., LC-MS, metabolomics, RNA-seq) and computational (e.g., bioinformatics, molecular networking, machine learning) approaches to develop new workflows for the discovery and utilization of bioactive molecules derived from plants. The aim of this project will be the development of methods for structural analysis of small molecules isolated from plants using the technique of crystalline sponge X-ray diffraction. The applicants for this position should already have laboratory experience with small molecule crystallography.
Study of photochemistry of non-classical electrophiles and Lewis acids
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | RNDr. Tomáš Slanina, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
Electrophiles and Lewis acids are among the most common intermediates utilized for catalytic reactions. Many attempts have been made to characterize and classify the strength and reactivity of these electron deficient species. However, the classical concept of electrophilicity and Lewis acidity starts to fall apart when open-shell (radicals, radical ions) and excited states are considered. The thesis will focus on development of electrophilic systems with open-shell and electronically excited electronic structure capable of various non-classical interactions with nucleophilic and radical partners. This unique behaviour will not only be applied in novel catalytic reactions but if will be used in re-formulation of rules for chemical bonding between open-shell and electronically excited species. The candidate will perform synthesis and characterization of organic non-classical electrophiles and Lewis acids and will study their catalytic properties and non-covalent interactions. Highly motivated and skilful candidate will have the opportunity to extend his/her graduate training in organic chemistry by learning electrochemical, photochemical and physicochemical methods.
Synthesis and Chiroptical Properties of Helicene-Derived Luminophores
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | |
| Also available in study programmes: | Chemistry ( in English language ), Chemistry ( in English language ) |
| Supervisor: | RNDr. Ivo Starý, CSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
| Other expected Forms of Study / Methods of Funding: | |
| Full-time / Scholarship + salary ( in study programme - Chemistry ( in English language ) ) | |
Annotation
The aim of the project is to prepare new helical TADF and excimer luminophores derived from helicenes and to study their chiroptical properties in solution and thin films (in particular circularly polarized luminescence) in order to identify suitable materials for future CP-OLED design.
Synthesis of compounds with potential antiviral properties
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | Ing. Zlatko Janeba, Ph.D. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
The goal of the project will be synthesis and structural optimization of novel antiviral compounds, and evaluation of their biological as well as pharmacokinetic properties (in collaboration with other scientific groups as virology and biochemical pharmacology). Suitable prodrugs will be prepared and studied, if necessary.
Total Syntheses of Complex Indoloterpene Alkaloids and Their Analogs
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Chemistry ( in English language ) |
| Supervisor: | Dr. habil. Ullrich Jahn |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
With the project, synthetic approaches to complex indoloterpene and their analogs displaying wide-ranging biological activity will be developed.
Total Syntheses of Complex Indoloterpene Alkaloids and Their Analogs
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Chemistry of Natural Compounds
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | Biochemistry and Bioorganic Chemistry ( in English language ) |
| Supervisor: | Dr. habil. Ullrich Jahn |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
With the project, synthetic approaches to complex indoloterpene and their analogs displaying wide-ranging biological activity will be developed.
Warped and Chiral Nanocarbons
| Study place: | Institute of Organic Chemistry and Biochemistry of the CAS |
| Guaranteeing Departments: |
Department of Organic Chemistry
Institute of Organic Chemistry and Biochemistry of the CAS |
| Study Programme/Specialization: | |
| Also available in study programmes: | Chemistry ( in English language ), Chemistry ( in English language ) |
| Supervisor: | RNDr. Irena G. Stará, CSc. |
| Expected Form of Study: | Full-time |
| Expected Method of Funding: | Scholarship |
Annotation
The aim of the project is to develop the synthesis of new warped and chiral nanocarbons such as helical pi-conjugated macrocycles, circulenes and cycloarenes. The chiral substances will be prepared in optically pure form by resolution of racemates or by asymmetric synthesis. Their (chir)optical properties, self-assembly in 2D/3D space, aromatic character and their conformational or redox behaviour will be studied in order to identify their possible applications in chemistry or nanoscience. ) ) [sablona] => stdClass Object ( [class] => stranka [html] => [css] => [js] => [autonomni] => 1 ) [api_suffix] => druh/I/jazyk/en/locale/en/ustav/007 )