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43513-01 - Praktikum: Programming for Life Sciences 4 KP

Semester Herbstsemester 2022
Angebotsmuster Jedes Herbstsemester
Dozierende Alexander Kanitz (alexander.kanitz@unibas.ch)
Mihaela Zavolan (mihaela.zavolan@unibas.ch, BeurteilerIn)
Inhalt Together with new measurement technologies, the use of computational and mathematical approaches that exploit modern information technology in the study of biological systems have brought about a deep transformation in the practice of molecular biology research. This course aims to train the students into the proficient use of programming in analyzing data derived from projects in life sciences. The format of the course includes 2 hour lectures, in which notions of software design and engineering will be discussed, and programming projects, done both in groups as well as individually. Group projects will come from various areas of life sciences (e.g. gene expression modeling and analysis, machine learning for sequence analysis, image analysis) and individual projects from the students’ areas of interest. The primary programming language is Python, a language broadly used in life sciences applications, but examples from other commonly used languages such as R and Matlab may also be included.
Lernziele By the end of the course, students should be comfortable with accessing and analyzing a wide variety of biological data. Concepts such as reproducibility, modularity, interoperability, and scalability will be emphasised.
Bemerkungen Course registration is limited to 15 students. In the case of over-subscription to the course, selection will be based on the suitability of participants.
Weblink Graduate Teaching Program


Teilnahmebedingungen Basic knowledge of computing systems, programming languages and algorithms are required. The course is focused on the widely used Python programming language in a UNIX context. Students should be comfortable with the material covered in basic tutorials in these languages, for example:


Students will require a sciCORE account, which can be requested with an email to scicore-admin@unibas.ch (please indicate the PI of your lab group).
Unterrichtssprache Englisch
Einsatz digitaler Medien kein spezifischer Einsatz


Intervall Wochentag Zeit Raum
wöchentlich Mittwoch 10.15-12.00 Biozentrum, Seminarraum U1.197


Datum Zeit Raum
Mittwoch 21.09.2022 10.15-12.00 Uhr Biozentrum, Findet online statt
Mittwoch 28.09.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 05.10.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 12.10.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 19.10.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 26.10.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 02.11.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 09.11.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 16.11.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 23.11.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 30.11.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 07.12.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 14.12.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Mittwoch 21.12.2022 10.15-12.00 Uhr Biozentrum, Seminarraum U1.197
Module Cycle E: Computational and Systems Biology (Masterstudium: Molekularbiologie)
Doktorat Biochemie: Empfehlungen (Promotionsfach: Biochemie)
Doktorat Biophysik: Empfehlungen (Promotionsfach: Biophysik)
Doktorat Computational Biology: Empfehlungen (Promotionsfach: Computational Biology)
Doktorat Genetik: Empfehlungen (Promotionsfach: Genetik)
Doktorat Mikrobiologie: Empfehlungen (Promotionsfach: Mikrobiologie)
Doktorat Molekularbiologie: Empfehlungen (Promotionsfach: Molekularbiologie)
Doktorat Neurobiologie: Empfehlungen (Promotionsfach: Neurobiologie)
Doktorat Pharmakologie: Empfehlungen (Promotionsfach: Pharmakologie)
Doktorat Strukturbiologie: Empfehlungen (Promotionsfach: Strukturbiologie)
Doktorat Zellbiologie: Empfehlungen (Promotionsfach: Zellbiologie)
Modul: Vertiefung Molekularbiologie (Masterstudium: Nanowissenschaften)
Vertiefungsfächer Theorie und Vertiefungsfächer Biologie (Masterstudium: Computational Biology and Bioinformatics)
Leistungsüberprüfung Lehrveranst.-begleitend
Hinweise zur Leistungsüberprüfung Students must attend at least 80% of the sessions and actively contribute to discussion. Each student will develop, execute, and report the results of an independent project related to the computational methods discussed during the course. Ideally, students will develop their independent project around data from their own research.
An-/Abmeldung zur Leistungsüberprüfung Anm.: Belegen Lehrveranstaltung; Abm.: stornieren
Wiederholungsprüfung keine Wiederholungsprüfung
Skala Pass / Fail
Wiederholtes Belegen beliebig wiederholbar
Zuständige Fakultät Philosophisch-Naturwissenschaftliche Fakultät, studiendekanat-philnat@unibas.ch
Anbietende Organisationseinheit Departement Biozentrum