Last update: RNDr. Nataša Šebková, Ph.D. (22.09.2021)
Epigenetics is intended for students in the second year of their MS studies and for PhD. students, who wish to engage in a scientific career in the area of cell biology, molecular biology or biomedicine. The course is based on lectures in MS and PhD. programs at University of Pennsylvania. The course is in English, presented in an interactive form, and uses original data from the area of epigenetics. Emphasis is given on the synthesis of knowledge and problem solving. In its first half, the course covers three main epigenetic mechanisms (histon modifications, DNA methylation and small RNA molecules). In the second half, these mechanisms are integrated in the presentation of important biological processes and models, such as imprinting, dosage compensation (including X-inactivation), epigenetic reprogramming in the life cycle of mammals and stem cell biology. Methods used to study epigenetics, such as chromatin immunoprecipitation, bisulphite sequencing and RNAi are explained in detail.
Regarding COVID-19
The course is planned to be taught in person (B8 V5 9-10:30). In case of restrictions, there would be live streaming through Zoom during the same time slot as a regular lecture (Wednesday 9-10:30 AM), so students could ask questions during the lecture. Recorded lectures will be available from a file repository. There will be online consulting. All information will be shared with registered students via e-mail, so it is essential that every registered student would have a functional and regularly checked e-mail address in SIS.
Last update: RNDr. Nataša Šebková, Ph.D. (22.09.2021)
Epigenetika je kurz určený pro studenty 2. ročníku magisterského studia a postgraduální studenty, kteří uvažují o vědecké kariéře v oblasti buněčné a molekulární biologie a biomedicíny. Kurz byl vytvořen podle přednášek v magisterském a PhD programu na University of Pennsylvania. Kurz je přednášen v angličtině interaktivní formou a používá původní data z oblasti epigenetiky. Zásadní důraz je kladen na syntézu znalostí a řešení problémů. Kurz pokrývá v první polovině tři hlavní epigenetické mechanismy: histonové modifikace, DNA metylaci a malé RNA molekuly. Ve druhé polovině pak tyto mechanismy integruje ve výkladu významných biologických procesů a modelů jako jsou imprinting, dosage compensation (včetně X-inaktivace), epigenetické reprogramování v životním cyklu savců a biologie kmenových buněk. V kurzu jsou podrobně rozebrány metody studia epigenetiky jako jsou chromatinová imunoprecipitace, bisulfitové sekvenování a RNAi.
Ad COVID-19
Kurz je plánovaný jako kontaktní výuka dle rozvrhu (B8 V5 9-10:30). Pouze v případě, že by byla zavedena opatření, která by vyžadovala online výuku, kurz by pokračoval aplikaci Zoom ve stejném čase jako by probíhala kontaktní výuka (středa 9-10:30), aby bylo možné klást dotazy. Záznam přednášek bude k dispozici na úložišti. K dispozici bude možnost online konzultací. Aktuální informace týkající se kurzu budou registrovaným studentům zasílané e-mailem, je proto nutné, aby každý účastník kurzu měl v SISu uvedenou funkční a pravidelně kontrolovanou e-mailovou adresu.
Literature -
Last update: RNDr. Nataša Šebková, Ph.D. (08.06.2022)
Epigenetics 1st Edition, by C. David Allis, Thomas Jenuwein, Danny Reinberg , Marie-Laure Caparros, ISBN-13: 978-0879697242, ISBN-10: 0879697245, Cold Spring Harbor Laboratory Press 2007.
For each lecture, students get a set of original articles and recent reviews. Powerpoint presentations are also provided.
Last update: RNDr. Nataša Šebková, Ph.D. (31.05.2022)
Epigenetics 1st Edition, by C. David Allis, Thomas Jenuwein, Danny Reinberg , Marie-Laure Caparros, ISBN-13: 978-0879697242, ISBN-10: 0879697245, Cold Spring Harbor Laboratory Press 2007.
Studenti dostávají ke každé přednášce sadu tematických původních článků a recentních review. Studenti také dostanou powerpointovou prezentaci z přednášky.
Requirements to the exam -
Last update: RNDr. Nataša Šebková, Ph.D. (24.10.2019)
The topic of the exam will be the content of the powerpoint presentation.
Last update: RNDr. Nataša Šebková, Ph.D. (24.10.2019)
Téma zkoušky bude obsah powerpointové prezentace.
Syllabus -
Last update: RNDr. Jana Rubešová, Ph.D. (14.09.2019)
an advanced course for M.Sc. and PhD students (the course is in English)
signing up for the course is HIGHLY RECOMMENDED only after completing bachelor studies, ideally in the second year of the masters program.
Introduction
Overview of the course, basic concepts of epigenetic marks, diversity of epigenetic mechanisms and effects
Histone modification I
Concept of chromatin structure. Heterochromatin and euchromatin. Core histones, linker histones, replacement histones, protamines. Methods for studying chromatin.
Histone modification II
Histone modifications, polycomb proteins, acetylation, fosforylation and histone methylations, effects on gene expression.
DNA methylation I
Molecular basis of DNA methylation. CpG and non-CpG methylation. Adenosin methylation. Metods for studying DNA methylation. Bisulfite sequencing.
DNA methylation II
Effects of DNA methylation on gene expression, Methyl-binding proteins and mechanisms of inhibition of gene expression, distribution of DNA methylation within genes and mammalian genomes.
Imprinting
Concept of imprinting, mammalian imprinting. Molecular mechanisms of imprinting. Role of imprinting, Battle of the sexes.
X-inactivation
Principles and different strategies for dosage compensation. Control of X-inactivation in mammals.
Epigenetic reprogramming in the mammalian life-cycle
Integration of epigenetic modification in the mammalian life cycle. Reprogramming of gene expression during development, artificial reprogramming - the traditional view.
Epigenetic mechanisms found in other model systems (plants, yeasts, invertebrates ...)
Selected epigenetic mechanisms controlling genome integrity and gene expression
RNA silencing I - molecular machines for RNA silencing
A historical introduction into RNA silencing. Post-transcriptional effects. Roles and effects of dsRNA. Proteins and complexes in RNA silencing.
RNA silencing II - RNAi technology
Experimental and therapeutic use. Design of RNAi experiments
RNA silencing III - roles of RNA silencing pathways
miRNA pathway, chromatin connection.
Integrated view of regulation of gene expression
Establishment and maintenance of pluripotency in ES cells and embryos
Students are expected to actively participate during the course.
The course is taught with the support of the project reg. number CZ.02.2.69/0.0/0.0/16_015/0002362
Last update: RNDr. Jana Rubešová, Ph.D. (05.09.2019)
- an advanced course for M.Sc. and PhD students (the course is in English) - signing up for the course is HIGHLY RECOMMENDED only after completing bachelor studies, ideally in the second year of the masters program.
*Introduction Overview of the course, basic concepts of epigenetic marks, diversity of epigenetic mechanisms and effects
*Histone modification I Concept of chromatin structure. Heterochromatin and euchromatin. Core histones, linker histones, replacement histones, protamines. Methods for studying chromatin.
*Histone modification II Histone modifications, polycomb proteins, acetylation, fosforylation and histone methylations, effects on gene expression.
*DNA methylation I Molecular basis of DNA methylation. CpG and non-CpG methylation. Adenosin methylation. Metods for studying DNA methylation. Bisulfite sequencing.
*DNA methylation II Effects of DNA methylation on gene expression, Methyl-binding proteins and mechanisms of inhibition of gene expression, distribution of DNA methylation within genes and mammalian genomes.
*Imprinting Concept of imprinting, mammalian imprinting. Molecular mechanisms of imprinting. Role of imprinting, Battle of the sexes.
*X-inactivation Principles and different strategies for dosage compensation. Control of X-inactivation in mammals.
*Epigenetic reprogramming in the mammalian life-cycle Integration of epigenetic modification in the mammalian life cycle. Reprogramming of gene expression during development, artificial reprogramming - the traditional view.
*Epigenetic mechanisms found in other model systems (plants, yeasts, invertebrates ...) Selected epigenetic mechanisms controlling genome integrity and gene expression
*RNA silencing I - molecular machines for RNA silencing A historical introduction into RNA silencing. Post-transcriptional effects. Roles and effects of dsRNA. Proteins and complexes in RNA silencing.
*RNA silencing II - RNAi technology Experimental and therapeutic use. Design of RNAi experiments
*RNA silencing III - roles of RNA silencing pathways miRNA pathway, chromatin connection.
*Integrated view of regulation of gene expression Establishment and maintenance of pluripotency in ES cells and embryos
Students are expected to actively participate during the course.
Předmět je vyučován za podpory projektu Zvýšení kvality vzdělávání na UK a jeho relevance pro potřeby trhu práce, reg.č. CZ.02.2.69/0.0/0.0/16_015/0002362.
