This eligible subject consists of a series of interactive seminars that will introduce to the participants new tools of biomedical informatics and teach practical skills in bioinformatics on bioinformatical analysis of selected topics. The seminars are divided into a part that presents a particular topic and a practical interactive seminar. During the practical part, students will be able to analyze selected problems using individual computer stations. A series of ten (or eleven) seminars is prepared. The selected topics project to more than one medical discipline. Each participant will be assigned a personal project, that will be presented to all participants in the last two seminars. It is expected that this personal presentation will represent a modern view of the selected topic, that should help the author, as well as other participants to be oriented in the selected topic on the most updated way. It may have, although it is not strictly required a form of a small diploma thesis. Work on the "thesis" will show students how to work on the defined project, how to obtain bioinformatical data, assemble, write and present a thesis.
The tutors are Marta Kostrouchová and Zdenek Kostrouch and members of their labs (assistant professors):
Kateřina Šimečková, Petr Yilma, Markéta Kostrouchová, Johana Kollárová, Vladimír Zima, Kateřina Šebková. The relatively big number of tutors will ensure that each participant will get personal attention. The maximal number of participants is 20.
Last update: Kostrouch Zdeněk, MUDr., CSc. (14.02.2013)
Education plan -
Schedule by date
Day
Date
Description
Teacher
Files
Note
Hodnocení
Wednesday
05.03.2025
Description of the elective subject, its structure, and objectives: This elective subject has knowledge, skill, and broader intellectual goals. In the first aspect (knowledge and skills), it is designed to effectively present the current state of informatics in relation to biology and medicine. It will actively cover approaches and tools of contemporary bioinformatics, including the storage of scientific and medical information, retrieval from databases, specific applications, and further analysis. In the second aspect, specific areas relevant to understanding important concepts and areas of biology and medicine will be discussed. These areas include the evolutionary concept of biology, regulatory mechanisms of metabolism, development, cellular and tissue homeostasis, tissue turnover, cell specialization, and differentiation.
Seminar 1: Introduction to Integrative Systems Biology. The introductory seminar provides an overview of basic informatics tools for text-based searching, comparison, and characterization of biomedical knowledge and data. It presents modern model systems and their integration into a comprehensive bioinformatics approach. It showcases the state of development in specific model organisms and their connection to human biology and modern medicine. It also provides a closer presentation of the C. elegans model and its significance in understanding cell specification regulation and a holistic biological perspective.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE, Wednesdays 14.00 - 15.30
Wednesday
12.03.2025
2.Tools of Modern Informatics: In this seminar, we will use informatics tools to explore interconnected databases containing biological data from various systems.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE, 14.00 - 15.30
Wednesday
19.03.2025
3.Evolutionary Concept of Biology: A concept that provides a unifying perspective on the structures and functions of biological processes. We will analyze the relatedness of genes and proteins, determine their phylogeny, and construct cladograms.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Wednesday
26.03.2025
4. A Systems Perspective on Regulatory Networks and Gene Expression Regulation
Specifically, this seminar discusses fundamental mechanisms of transcription regulation.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE 14.00 - 15.30
Wednesday
02.04.2025
5. A Systems View of Regulatory Networks b/ Insulin Receptor Pathway Regulation, Diabetes, and Metabolic Syndrome
This seminar demonstrates that this medically significant and complex syndrome represents an exceptionally interesting topic. It is attractive not only for potential treatment but also for the highly effective prevention of associated complications.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Wednesday
09.04.2025
6: A Systems View of Regulatory Networks c/ Post-transcriptional Gene Expression Regulation: RNA Interference and Small Regulatory RNA Molecules.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE 14.00 - 15.30
Wednesday
23.04.2025
7. Systems Biology of Organelles: Structural-Functional Relationships
This session explores how organismal needs and cellular stress regulate cellular function.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Wednesday
30.04.2025
8. Integrative Pathology. Informatics in Pathology
This includes databases connecting pathology with clinical data, data categorization and concepts, gene ontology, UniGene, expression, and other databases of pathological conditions. We discuss the NCBI Database and the transition to Artificial Intelligence, including The Cancer Genome Atlas.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE 14.00 - 15.30
Wednesday
07.05.2025
9. Systemic Integrative Oncology, Regulatory Networks of Cancer Biology
Informatics-based tumor classification system and artificial intelligence in oncology and its targeted development.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Wednesday
14.05.2025
10. Regulatory Networks with Infectious Agents
We explore the danger of modern molecular biology misuse and ways to monitor and defend against it on a societal level.
Credit.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE 14.30 - 15.30
Rozpis datumový
Den
Datum
Popis
Učitel
Soubory
Poznámka
Hodnocení
Středa
05.03.2025
Description of the elective subject, its structure, and objectives: This elective subject has knowledge, skill, and broader intellectual goals. In the first aspect (knowledge and skills), it is designed to effectively present the current state of informatics in relation to biology and medicine. It will actively cover approaches and tools of contemporary bioinformatics, including the storage of scientific and medical information, retrieval from databases, specific applications, and further analysis. In the second aspect, specific areas relevant to understanding important concepts and areas of biology and medicine will be discussed. These areas include the evolutionary concept of biology, regulatory mechanisms of metabolism, development, cellular and tissue homeostasis, tissue turnover, cell specialization, and differentiation.
Seminar 1: Introduction to Integrative Systems Biology. The introductory seminar provides an overview of basic informatics tools for text-based searching, comparison, and characterization of biomedical knowledge and data. It presents modern model systems and their integration into a comprehensive bioinformatics approach. It showcases the state of development in specific model organisms and their connection to human biology and modern medicine. It also provides a closer presentation of the C. elegans model and its significance in understanding cell specification regulation and a holistic biological perspective.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE, Wednesdays 14.00 - 15.30
Středa
12.03.2025
2.Tools of Modern Informatics: In this seminar, we will use informatics tools to explore interconnected databases containing biological data from various systems.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE, 14.00 - 15.30
Středa
19.03.2025
3.Evolutionary Concept of Biology: A concept that provides a unifying perspective on the structures and functions of biological processes. We will analyze the relatedness of genes and proteins, determine their phylogeny, and construct cladograms.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Středa
26.03.2025
4. A Systems Perspective on Regulatory Networks and Gene Expression Regulation
Specifically, this seminar discusses fundamental mechanisms of transcription regulation.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE 14.00 - 15.30
Středa
02.04.2025
5. A Systems View of Regulatory Networks b/ Insulin Receptor Pathway Regulation, Diabetes, and Metabolic Syndrome
This seminar demonstrates that this medically significant and complex syndrome represents an exceptionally interesting topic. It is attractive not only for potential treatment but also for the highly effective prevention of associated complications.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Středa
09.04.2025
6: A Systems View of Regulatory Networks c/ Post-transcriptional Gene Expression Regulation: RNA Interference and Small Regulatory RNA Molecules.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE 14.00 - 15.30
Středa
23.04.2025
7. Systems Biology of Organelles: Structural-Functional Relationships
This session explores how organismal needs and cellular stress regulate cellular function.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Středa
30.04.2025
8. Integrative Pathology. Informatics in Pathology
This includes databases connecting pathology with clinical data, data categorization and concepts, gene ontology, UniGene, expression, and other databases of pathological conditions. We discuss the NCBI Database and the transition to Artificial Intelligence, including The Cancer Genome Atlas.
MUDr. Marta Kostrouchová, CSc.
Seminar is ONLINE 14.00 - 15.30
Středa
07.05.2025
9. Systemic Integrative Oncology, Regulatory Networks of Cancer Biology
Informatics-based tumor classification system and artificial intelligence in oncology and its targeted development.
MUDr. Zdeněk Kostrouch, CSc.
Seminar is ONLINE 14.00 - 15.30
Středa
14.05.2025
10. Regulatory Networks with Infectious Agents
We explore the danger of modern molecular biology misuse and ways to monitor and defend against it on a societal level.
Credit.
