PředmětyPředměty(verze: 978)
Předmět, akademický rok 2025/2026
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Biomedicine and Biotechnology - B90275
Anglický název: Biomedicine and Biotechnology
Zajišťuje: BIOCEV, 1. LF UK (11-00131)
Fakulta: 1. lékařská fakulta
Platnost: od 2019
Semestr: letní
Body: 0
E-Kredity: 0
Způsob provedení zkoušky: letní s.:
Rozsah, examinace: letní s.:0/0, Z [HT]
Počet míst: neomezen
Minimální obsazenost: neomezen
4EU+: ne
Virtuální mobilita / počet míst pro virtuální mobilitu: ne
Stav předmětu: vyučován
Jazyk výuky: angličtina
Způsob výuky: prezenční
Poznámka: předmět je určen pouze pro doktorandy
Garant: prof. MUDr. Tomáš Stopka, Ph.D.
Anotace - angličtina
This subject focuses on educating students in biomedical research and biotechnologies. It teaches the basis of scientific work, introduction to methodology in biomedicine up to the development of novel diagnostics and therapeutics. Lectures and seminars will contain the insight into modern tools such as transgenic biology or global technologies such as OMICs. Students are encouraged to read education material (available at https://biocev.lf1.cuni.cz/vyuka) ahead of the seminar. Presentation of selected education material, which constists a research publication, will be included in the final seminar day.
Poslední úprava: Renková Martina, Mgr. (27.01.2020)
Metody výuky - angličtina

Lecture 1 – February 26th, 2026

RNDr. Jiří Zahradník, Ph.D.

https://biocev.lf1.cuni.cz/zahradnik-lab

Title: Protein engineering in biomedicine

  • State-of-the-art protein engineering is progressively asserting itself in biomedicine in a plethora of tasks such as adjustment, amplification, or attenuation of immune responses, development of new diagnostic and therapeutic modalities, and strategies to treat multiple infectious, autoimmune, and neoplastic diseases.
  •          Bojar D. and Fussenegger M. (2019) The Role of Protein Engineering in Biomedical Applications of Mammalian Synthetic Biology, Small 16 (27), 1613-6810, doi: 10.1002/smll.201903093.

Lecture 2 – March 12th, 2026

Prof. Tomáš STOPKA MD, Ph.D.

https://stopka-lab.lf1.cuni.cz/en
Title: CELL BIOLOGY : Stem cell biology versus proliferation and differentiation control
Regulatory mechanisms in normal cell differentiation including transcription factors and their effector pathways. Biology of stem cells and tissue transplantation. Regulation of cell cycle and its detection.

Study material:

·         Kokavec J, Zikmund T, Savvulidi F, Kulvait V, Edelmann W, Skoultchi AI, Stopka T. The ISWI ATPase Smarca5 (Snf2h) Is Required for Proliferation and Differentiation of Hematopoietic Stem and Progenitor Cells. Stem Cells. 2017. Jun;35(6):1614-1623. doi: 10.1002/stem.2604.

·         Carvajal LA, Neriah DB, Senecal A, Benard L, Thiruthuvanathan V, Yatsenko T, Narayanagari SR, Wheat JC, Todorova TI, Mitchell K, Kenworthy C, Guerlavais V, Annis DA, Bartholdy B, Will B, Anampa JD, Mantzaris I, Aivado M, Singer RH, Coleman RA, Verma A, Steidl U. Dual inhibition of MDMX and MDM2 as a therapeutic strategy in leukemia. Sci Transl Med. 2018 Apr 11;10(436):eaao3003. doi: 10.1126/scitranslmed.aao3003.·         Yusenko M, Jakobs A, Klempnauer KH. A novel cell-based screening assay for small-molecule MYB inhibitors identifies podophyllotoxins teniposide and etoposide as inhibitors of MYB activity. Sci Rep. 2018 Sep 3;8(1):13159. doi:10.1038/s41598-018-31620-1.·         Decker S, Zwick A, Khaja Saleem S, Kissel S, Rettig A, Aumann K, Dierks C. Optimized Xenograft Protocol for Chronic Lymphocytic Leukemia Results in High Engraftment Efficiency for All CLL Subgroups. Int J Mol Sci. 2019 Dec 12;20(24).pii: E6277. doi: 10.3390/ijms20246277.·         Janku F, Angenendt P, Tsimberidou AM, Fu S, Naing A, Falchook GS, Hong DS, Holley VR, Cabrilo G, Wheler JJ, Piha-Paul SA, Zinner RG, Bedikian AY, Overman MJ, Kee BK, Kim KB, Kopetz ES, Luthra R, Diehl F, Meric-Bernstam F, Kurzrock R.Actionable mutations in plasma cell-free DNA in patients with advanced cancers referred for experimental targeted therapies. Oncotarget. 2015 May 20;6(14):12809-21.

Lecture 3 – March 26th, 2026

Mgr. Miroslav Hons, Ph.D.

https://biocev.lf1.cuni.cz/hons-lab

Title: Leukocyte migration and immunology

Migration of leukocytes in healthy and pathological states. Imaging of leukocyte behaviour and interactions. Cell biology of leukocyte motility.

Study material:

·         Pittet MJ, Garris CS, Arlauckas SP, Weissleder R. Recording the wild lives of immune cells. Sci Immunol. 2018 Sep 7;3(27). pii: eaaq0491. doi:10.1126/sciimmunol.aaq0491.

·         Miller, M. J. (2002). Two-Photon Imaging of Lymphocyte Motility and Antigen Response in Intact Lymph Node. Science, 296(5574), 1869–1873. doi:10.1126/science.1070051 

·         Mempel, T. R., Henrickson, S. E., & von Andrian, U. H. (2004). T-cell priming by dendriticcells in lymph nodes occurs in three distinct phases. Nature, 427(6970), 154–159. doi:10.1038/nature02238. 

Lecture 4 – April 9th, 2026

Assoc. Prof. Ondřej Havránek, MD, Ph.D.

https://havranek-lab.lf1.cuni.cz/about-us

Title: GENETICS : Cancer genomes and genome editing technology

Cancer associated acquired DNA mutations and their role in tumor development, progression, and therapy resistance. Consequences for interaction of tumor cells with immune system. Use of genome modifying technologies to create models for cancer research and options for therapy.

Study material:

·         Stratton M.R., Campbell P. J., Futreal P.A., The cancer genome. Nature. Vol.458/9 April 2009. Doi:10.1038/nature07943.

·         Ding L, Bailey MH, Porta-Pardo E, Thorsson V, Colaprico A, Bertrand D, Gibbs DL, Weerasinghe A, Huang KL, Tokheim C, Cortés-Ciriano I, Jayasinghe R, Chen F,Yu L, Sun S, Olsen C, Kim J, Taylor AM, Cherniack AD, Akbani R, Suphavilai C,Nagarajan N, Stuart JM, Mills GB, Wyczalkowski MA, Vincent BG, Hutter CM,Zenklusen JC, Hoadley KA, Wendl MC, Shmulevich L, Lazar AJ, Wheeler DA, Getz G;Cancer Genome Atlas Research Network. Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics. Cell. 2018 Apr 5;173(2):305-320.e10.doi: 10.1016/j.cell.2018.03.033.

  •         Sanchez-Vega F, Mina M, Armenia J, Chatila WK, Luna A, La KC, Dimitriadoy S, Liu DL, Kantheti HS, Saghafinia S, Chakravarty D, Daian F, Gao Q, Bailey MH,Liang WW, Foltz SM, Shmulevich I, Ding L, Heins Z, Ochoa A, Gross B, Gao J, Zhang H, Kundra R, Kandoth C, Bahceci I, Dervishi L, Dogrusoz U, Zhou W, Shen H, Laird PW, Way GP, Greene CS, Liang H, Xiao Y, Wang C, Iavarone A, Berger AH, Bivona TG,Lazar AJ, Hammer GD, Giordano T, Kwong LN, McArthur G, Huang C, Tward AD,Frederick MJ, McCormick F, Meyerson M; Cancer Genome Atlas Research Network, Van Allen EM, Cherniack AD, Ciriello G, Sander C, Schultz N. Oncogenic Signaling Pathways in The Cancer Genome Atlas. Cell. 2018 Apr 5;173(2):321-337.e10. doi:10.1016/j.cell.2018.03.035.
  •          Kebriaei P, Izsvák Z, Narayanavari SA, Singh H, Ivics Z. Gene Therapy with the Sleeping Beauty Transposon System. Trends Genet. 2017 Nov;33(11):852-870. doi:10.1016/j.tig.2017.08.008.
  •         Hsu PD,Lander ES,Zhang F. Development and Applications of CRISPR-Cas9 for Genome Engineering. Cell 157, June 5, 2014. doi:10.1016/j.cell.2014.05.010.
  •         Komor AC, Badran AH, Liu DR. CRISPR-Based Technologies for the Manipulation of Eukaryotic Genomes. Cell. 2017 Apr 20;169(3):559. doi:10.1016/j.cell.2017.04.005.

Lecture 5 – April 23rd, 2026

RNDr. Kristýna Gloc Pimková, Ph.D.

https://hematologylaboratories.lf1.cuni.cz/en/pimkova-lab

Title: Redox Biology

Reactive oxygen and nitrogen species are not just harmful by-products that cause damage to macromolecules and ultimately cell death. They are essential signaling molecules that play a role in basic biological processes, so-called "redox signaling". The basic principles of redox signalling, its role in physiological cellular processes and in cancer will be discussed.

Study material:

·         Georgiou G. How to flip the (redox) switch. Cell. 2002 Nov 27;111(5):607-10. doi: 10.1016/s0092-8674(02)01165-0. PMID: 12464172.

·         Paulsen CE, Carroll KS. Cysteine-mediated redox signaling: chemistry, biology, and tools for discovery. Chem Rev. 2013 Jul 10;113(7):4633-79. doi: 10.1021/cr300163e. Epub 2013 Mar 20. PMID: 23514336; PMCID: PMC4303468.

·         Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, Ge Y, Gunawardena J, Hendrickson RC, Hergenrother PJ, Huber CG, Ivanov AR, Jensen ON, Jewett MC, Kelleher NL, Kiessling LL, Krogan NJ, Larsen MR, Loo JA, Ogorzalek Loo RR, Lundberg E, MacCoss MJ, Mallick P, Mootha VK, Mrksich M, Muir TW, Patrie SM, Pesavento JJ, Pitteri SJ, Rodriguez H, Saghatelian A, Sandoval W, Schlüter H, Sechi S, Slavoff SA, Smith LM, Snyder MP, Thomas PM, Uhlén M, Van Eyk JE, Vidal M, Walt DR, White FM, Williams ER, Wohlschlager T, Wysocki VH, Yates NA, Young NL, Zhang B. How many human proteoforms are there? Nat Chem Biol. 2018 Feb 14;14(3):206-214. doi: 10.1038/nchembio.2576. PMID: 29443976; PMCID: PMC5837046.

·         Xiao H, Jedrychowski MP, Schweppe DK, Huttlin EL, Yu Q, Heppner DE, Li J, Long J, Mills EL, Szpyt J, He Z, Du G, Garrity R, Reddy A, Vaites LP, Paulo JA, Zhang T, Gray NS, Gygi SP, Chouchani ET. A Quantitative Tissue-Specific Landscape of Protein Redox Regulation during Aging. Cell. 2020 Mar 5;180(5):968-983.e24. doi: 10.1016/j.cell.2020.02.012. Epub 2020 Feb 27. PMID: 32109415; PMCID: PMC8164166.

·         5. Pimkova K, Jassinskaja M, Munita R, Ciesla M, Guzzi N, Cao Thi Ngoc P, Vajrychova M, Johansson E, Bellodi C, Hansson J. Quantitative analysis of redox proteome reveals oxidation-sensitive protein thiols acting in fundamental processes of developmental hematopoiesis. Redox Biol. 2022 Jul;53:102343. doi: 10.1016/j.redox.2022.102343. Epub 2022 May 23. PMID: 35640380; PMCID: PMC9157258.

Lecture 6– May 7th, 2026

RNDr. Radoslav Janoštiak, Ph.D.

https://biocev.lf1.cuni.cz/janostiaklab

Title: Biology of solid tumors and translational medicine

Basic principles of cancer development, cancer driver mutations and targeted therapy, cancer evolution and progression, cancer cell dormancy and invasiveness, circulating tumor cells.

Study material:

  •     Vendramin R, Litchfield K, Swanton C. Cancer evolution: Darwin and beyond. EMBO J. 2021 Sep 15;40(18):e108389. doi: 10.15252/embj.2021108389.·         Falzone L, Salomone S, Libra M. Evolution of Cancer Pharmacological Treatments at the Turn of the Third Millennium. Front Pharmacol. 2018 Nov 13;9:1300. doi: 10.3389/fphar.2018.01300.

·         Hanahan D. Hallmarks of Cancer: New Dimensions. Cancer Discov. 2022 Jan;12(1):31-46. doi: 10.1158/2159-8290.CD-21-1059.

·         Fares J, Fares MY, Khachfe HH, Salhab HA, Fares Y. Molecular principles of metastasis: a hallmark of cancer revisited. Signal Transduct Target Ther. 2020 Mar 12;5(1):28. doi: 10.1038/s41392-020-0134-x.

Lecture 7– May 21st, 2026

Assoc. Prof. RNDr. Jiří Petrák, Ph.D.

https://www.petraklab.cz/

Title: CLINICAL PROTEOMICS

Using efficient separation methods and high-resolution mass spectrometry PROTEOMICS  enables monitoring of quantitative and qualitative changes of thousands of proteins in biological samples. Detailed knowledge of proteome changes in cells and tissues can elucidate molecular mechanisms of physiologic and pathologic processes, and identify disease markers or novel therapeutic targets.

Study material:

·         Guo T, Steen JA, Mann M. Mass-spectrometry-based proteomics: from single cells to clinical applications. Nature. 2025 Feb;638(8052):901-911. 

·         Shuken SR. An Introduction to Mass Spectrometry-Based Proteomics. J Proteome Res. 2023 Jul 7;22(7):2151-2171. 

·         Jiang L, Wang M, Lin S, Jian R, Li X, Chan J, Dong G, Fang H, Robinson AE; GTEx Consortium; Snyder MP. A Quantitative Proteome Map of the Human Body. Cell. 2020 Oct 1;183(1):269-283.e19.

Lecture 8 – June 4th, 2026

Ing. Jan Hajduch, Ph.D.

https://biocev.lf1.cuni.cz/jakubeklab

Title: Diagnostic methods based on biosensors

Biosensors are detectors that combine a biological and a physicochemical element to identify an analyte. The lecture will include a brief introduction to basic principles of detection of physical or chemical signals obtained from biological materials and conversion of such signals to electrical signals. The development of biosensors and their use in diagnostic methods will be discussed.

Study material:

·         Naresh, V., Lee, N.: A Review on Biosensors and Recent Development of Nanostructured Materials-Enabled Biosensors, Sensors 2021 Feb 5;21/4):1109 doi: 10.3390/s21041109. ·         Shrivastav, A.M., Cvelbar, U., Abdulhalim, I.: A comprehensive review on plasmonic-based biosensors used in viral diagnostics. Commun Biol 4, 70 (2021) doi.org/10.1038/s42003-020-01615-8·         Prabowo, B.A.; Cabral, P.D.; Freitas, P.; Fernandes, E. The Challenges of Developing Biosensors for Clinical Assessment: A Review. Chemosensors 2021, 9, 299. doi: 10.3390/chemosensors9110299

Poslední úprava: Vyšatová Lucie, Ing. (10.02.2026)
Požadavky k zápisu

Starting on February 26th, 2026 on bi-weekly basis based on provided schedulle.

Furhter information can be found at: https://biocev.lf1.cuni.cz/vyuka
Registration: send an email to Ing. Lucie Vysatova: lucie.vysatova@lf1.cuni.cz

Poslední úprava: Vyšatová Lucie, Ing. (22.01.2026)
Rozpis výuky -
Rozpis datumový
Den Datum Popis Učitel Soubory Poznámka Hodnocení
Čtvrtek26.02.2026Title: PROTEIN ENGINEERING IN BIOMEDICINE State-of-the-art protein engineering is progressively asserting itself in biomedicine in a plethora of tasks such as adjustment, amplification, or attenuation of immune responses, development of new diagnostic and therapeutic modalities, and strategies to treat multiple infectious, autoimmune, and neoplastic diseases. RNDr. Jiří Zahradník, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
Čtvrtek12.03.2026Title: CELL BIOLOGY Stem cell biology versus proliferation and differentiation control Regulatory mechanisms in normal cell differentiation including transcription factors and their effector pathways. Biology of stem cells and tissue transplantation. Regulation of cell cycle and its detection. prof. MUDr. Tomáš Stopka, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
Čtvrtek26.03.2026Title: LEUKOCYTE MIGRATION AND IMMUNOLOGY Migration of leukocytes in healthy and pathological states. Imaging of leukocyte behaviour and interactions. Cell biology of leukocyte motility. Mgr. Miroslav Hons, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
Čtvrtek09.04.2026Title: GENETICS : Cancer genomes and genome editing technology Cancer associated acquired DNA mutations and their role in tumor development, progression, and therapy resistance. Consequences for interaction of tumor cells with immune system. Use of genome modifying technologies to create models for cancer research and options for therapy. doc. MUDr. Ondřej Havránek, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
Čtvrtek23.04.2026Title: REDOX BIOLOGY Reactive oxygen and nitrogen species are not just harmful by-products that cause damage to macromolecules and ultimately cell death. They are essential signaling molecules that play a role in basic biological processes, so-called "redox signaling". The basic principles of redox signalling, its role in physiological cellular processes and in cancer will be discussed. RNDr. Kristýna Gloc Pimková, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
Čtvrtek07.05.2026Title: BIOLOGY OF SOLID TUMORS AND TRANSLATIONAL MEDICINE Basic principles of cancer development, cancer driver mutations and targeted therapy, cancer evolution and progression, cancer cell dormancy and invasiveness, circulating tumor cells. RNDr. Radoslav Janoštiak, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
Čtvrtek21.05.2026Title: CLINICAL PROTEOMICS Using efficient separation methods and high-resolution mass spectrometry PROTEOMICS enables monitoring of quantitative and qualitative changes of thousands of proteins in biological samples. Detailed knowledge of proteome changes in cells and tissues can elucidate molecular mechanisms of physiologic and pathologic processes, and identify disease markers or novel therapeutic targets. doc. RNDr. Jiří Petrák, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
Čtvrtek04.06.2026Title: DIAGNOSTIC METHODS BASED ON BIOSENSORS Biosensors are detectors that combine a biological and a physicochemical element to identify an analyte. The lecture will include a brief introduction to basic principles of detection of physical or chemical signals obtained from biological materials and conversion of such signals to electrical signals. The development of biosensors and their use in diagnostic methods will be discussed. Ing. Jan Hajduch, Ph.D.Study material available at https://biocev.lf1.cuni.cz/vyuka
 
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