Evento

Bachelor's programme in Bioinformatics

Bachelor's programme in Bioinformatics (2012 study regulations) (0260c_k150)

Module: Informatik A (0260cA1.1)

Computer Science A

LV: 19305601

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4 SWS

Max Willert

Lecture

Submod: 0260cA1.1.1

Akt: 20.01.2021 11:45

Wed, 08:00 - 10:00 (Virtueller Raum 03)

Fri, 08:00 - 10:00 (Virtueller Raum 03)

Description

Contents: We begin with the notion of an algorithm, and we describe the cycle from problem statement to algorithmic solution to working code. We consider numerous examples that illustrate fundamental principles of algorithm design. In order to implement our algorithms, we introduce the functional programming language Haskell. Additionally, we explore the theoretical, technological, and organizational principles of computer systems. Topics covered include the binary representation of information in a computer, Boolean functions and their implementation as circuits, the design principles of CPUs, and the von-Neumann-architecture.

Prerequisites: We recommend that participants of this class attend the Brückenkurs Mathematical Foundations of Computer Science and Bioinformatics.

References

S. Thompson; Haskell: The Craft of Functional Programming; Addison-Wesley
F. Rabhi, G. Lapalme; Algorithms: A Functional Proramming Approach; Addison-Wesley
G. Hutton; Programming in Haskell; Cambridge University Press
A. Tanenbaum, J. Goodman; Computerarchitektur; Pearson Studium

Additional appointments

Klausur

Virtueller Raum 01

Max Willert

03.03.2021 08:00 - 10:00

Nachklausur

Virtueller Raum 01

Max Willert

01.04.2021 08:00 - 10:00

Appointment series

Virtueller Raum 03

Max Willert

einmal, ab 04.11.2020, 08:00 - 10:00 (15 Termine)

Virtueller Raum 03

Max Willert

einmal, ab 06.11.2020, 08:00 - 10:00 (15 Termine)

Practice seminar for Computer Science A

LV: 19305602

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2 SWS

Max Willert

Practice seminar

Submod: 0260cA1.1.2

Akt: 20.10.2020 12:00

Fri, 14:00 - 16:00 (T9/SR 005 Übungsraum)

Wed, 16:00 - 18:00 (T9/SR 005 Übungsraum)

Tue, 12:00 - 14:00 (T9/SR 005 Übungsraum)

Tue, 14:00 - 16:00 (T9/SR 005 Übungsraum)

Wed, 08:00 - 10:00 (Virtueller Raum 02)

Wed, 12:00 - 14:00 (T9/SR 005 Übungsraum)

Additional appointments

Appointment series

T9/SR 005 Übungsraum

Max Willert

einmal, ab 06.11.2020, 14:00 - 16:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Virtueller Raum 02

Max Willert

einmal, ab 04.11.2020, 08:00 - 10:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 04.11.2020, 12:00 - 14:00 (15 Termine)

Module: Algorithms and Data Structures (0260cA1.3)

AlDaBi

LV: 19400001

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2 SWS

Knut Reinert

Lecture

Submod: 0260cA1.3.1

Akt: 09.03.2021 14:09

Thu, 14:00 - 16:00 (Virtueller Raum 30)

Description

This lecture deals with: Exact and approximative string matching, dynamic programming and scoring schemata, finite automata and formal languages, pairwise und multiple alignment, multiple string matching, basics of Markov Chains und Hidden Markov Models, algorithms for fast search in sequence data bases.

In the exercises the above topics will be deepened, and techniques of analysis and evidence will be practised.

There is an associated practical course "Algorithmen und Datenstrukturen" (19401330). Please check there for further information!

References

Generelle Bücher/Basic reading:

Neil C. Jones, Pavel A. Pevzner: An Introduction to Bioinformatics Algorithms. MIT Press, Cambridge, MA, 2004. ISBN 0-262-10106-8
R. Durbin, S. Eddy, A. Krogh, G. Mitchison: Biological sequence analysis. Cambridge University Press, 1998. ISBN 0-521-62971-3
David B. Mount: Bioinformatics. Sequence and Genome Analysis. Cold Spring Harbor Laboratory Press, New York, 2001. ISBN 0-87969-608-7
Chao, Zhang: Sequence comparison, Theory and Methods: Springer, ISBN: 978-1-85800-319-4

Additional appointments

Algorithmen und Datenstrukturen

Knut Reinert

25.02.2021 12:00 - 14:00

Nachklausur

T9/Gr. Hörsaal

Knut Reinert

08.04.2021 10:00 - 12:00

Appointment series

Virtueller Raum 30

Knut Reinert

einmal, ab 05.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for AlDaBi

LV: 19400002

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2 SWS

Knut Reinert

Practice seminar

Submod: 0260cA1.3.2

Akt: 29.10.2020 12:00

Tue, 12:00 - 14:00 (Virtueller Raum 07)

Wed, 12:00 - 14:00 (Virtueller Raum 07)

Thu, 12:00 - 14:00 (Virtueller Raum 07)

Tue, 08:00 - 10:00 (Virtueller Raum 08)

Additional appointments

Appointment series

Virtueller Raum 07

Knut Reinert

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 07

Knut Reinert

einmal, ab 04.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 07

Knut Reinert

einmal, ab 05.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 08

Knut Reinert

einmal, ab 03.11.2020, 08:00 - 10:00 (15 Termine)

Module: Algorithmic Bioinformatics (0260cA1.5)

Algorithmic Bioinformatics

LV: 19401201

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4 SWS

Knut Reinert

Martin Vingron

Lecture

Submod: 0260cA1.5.1

Akt: 09.03.2021 14:09

Mon, 12:00 - 14:00 ()

Wed, 10:00 - 12:00 ()

Wed, 10:00 - 12:00 (Virtueller Raum 35)

Mon, 12:00 - 14:00 (Virtueller Raum 35)

Description

Please see German description.

Additional appointments

Algorithmische Bioinformatik

Knut Reinert

Martin Vingron

24.02.2021 10:00 - 12:00

Klausur

Gr. Hörsaal (Raum B.001)

Knut Reinert

Martin Vingron

24.02.2021 16:00 - 18:00

Nachklausur

T9/Gr. Hörsaal

Knut Reinert

Martin Vingron

07.04.2021 10:00 - 12:00

Appointment series

Knut Reinert

Martin Vingron

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

Knut Reinert

Martin Vingron

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Martin Vingron

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Martin Vingron

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

Ü: Algorithmic Bioinformatics

LV: 19401202

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2 SWS

Knut Reinert

Martin Vingron

Practice seminar

Submod: 0260cA1.5.2

Akt: 18.06.2021 14:00

Tue, 14:00 - 16:00 (Virtueller Raum 30)

Tue, 12:00 - 14:00 (Virtueller Raum 31)

Tue, 16:00 - 18:00 (Virtueller Raum 35)

Additional appointments

Appointment series

Virtueller Raum 30

Knut Reinert

Martin Vingron

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Virtueller Raum 31

Knut Reinert

Martin Vingron

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Martin Vingron

einmal, ab 03.11.2020, 16:00 - 18:00 (15 Termine)

Prak: Algorithmic Bioinformatics

LV: 19401230

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2 SWS

No lecturers

Internship

Submod: 0260cA1.5.3

Akt: 14.10.2020 11:35

Module: Algorithm and Data Structures Practical (0260cA1.6)

P: Algorithms and Data Structures

LV: 19401330

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4 SWS

Chris Bielow

Internship

Submod: 0260cA1.6.1

Akt: 29.10.2020 12:00

Tue, 08:00 - 10:00 (Virtueller Raum 07)

Mon, 12:00 - 14:00 (Virtueller Raum 07)

Mon, 14:00 - 16:00 (Virtueller Raum 07)

Mon, 10:00 - 12:00 (Virtueller Raum 07)

Description

This practical course is associated with the lecture and exercise "Algorithmen und Datenstrukturen". It starts with an introduction to programming tools and the programming language applied in the lecture/exercise. After that, programming skills will be explained and taught using the algorithms discussed in the lecture.

Additional appointments

Praktikum: Algorithmen und Datenstrukturen

Virtueller Raum 17

Chris Bielow

02.11.2020 14:00 - 16:00

Appointment series

Virtueller Raum 07

Chris Bielow

einmal, ab 10.11.2020, 08:00 - 10:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 09.11.2020, 12:00 - 14:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 09.11.2020, 14:00 - 16:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 16.11.2020, 10:00 - 12:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 09.11.2020, 10:00 - 12:00 (7 Termine)

Module: Mathematik für Bioinformatiker I (0260cA2.1)

Mathematics for Bioinformaticians I

LV: 19400201

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4 SWS

Heike Siebert

Lecture

Submod: 0260cA2.1.1

Akt: 16.03.2021 12:00

Wed, 10:00 - 12:00 (Virtueller Raum 32)

Tue, 14:00 - 16:00 (Virtueller Raum 32)

Description

See German text.

Additional appointments

Klausur Mathe I (Bioinf)

Gr. Hörsaal (Raum B.001)

Heike Siebert

25.02.2021 16:00 - 18:00

Mathematik für Bioinformatiker I

T9/SR 005 Übungsraum

Heike Siebert

08.04.2021 14:00 - 16:00

Appointment series

Virtueller Raum 32

Heike Siebert

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 32

Heike Siebert

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Mathematics for Bioinformaticians I

LV: 19400202

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2 SWS

Heike Siebert

Frederik Laszlo Wieder

Practice seminar

Submod: 0260cA2.1.2

Akt: 03.11.2020 20:00

Wed, 16:00 - 18:00 (T9/Gr. Hörsaal)

Thu, 08:00 - 10:00 (Virtueller Raum 10)

Thu, 16:00 - 18:00 (T9/Gr. Hörsaal)

Fri, 12:00 - 14:00 (Virtueller Raum 01)

Additional appointments

Appointment series

T9/Gr. Hörsaal

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

Virtueller Raum 10

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 05.11.2020, 08:00 - 10:00 (15 Termine)

T9/Gr. Hörsaal

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 05.11.2020, 16:00 - 18:00 (15 Termine)

Virtueller Raum 01

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 06.11.2020, 12:00 - 14:00 (15 Termine)

Module: Computerorientierte Mathematik I (0260cA2.3)

Computerorientated Mathematics I (5 LP)

LV: 19200501

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2 SWS

Ralf Kornhuber

Christof Schütte

Lecture

Submod: 0260cA2.3.1

Akt: 16.11.2020 16:00

Fri, 12:00 - 14:00 (T9/Gr. Hörsaal)

Description

Contents:
Computers play an important role in (almost) all situations in life today. Computer-oriented mathematics provides basic knowledge in dealing with computers for solving mathematical problems and an introduction to algorithmic thinking. At the same time, typical mathematical software such as Matlab and Mathematica will be introduced. The motivation for the questions under consideration is provided by simple application examples from the aforementioned areas. The content of the first part includes fundamental terms of numerical calculation: number representation and rounding errors, condition, efficiency and stability.

Homepage: All current information on lectures and lectures

References

Literatur: R. Kornhuber, C. Schuette, A. Fest: Mit Zahlen Rechnen (Skript zur Vorlesung)

Additional appointments

Appointment series

T9/Gr. Hörsaal

Ralf Kornhuber

Christof Schütte

einmal, ab 06.11.2020, 12:00 - 14:00 (15 Termine)

Practice seminar for Computerorientated Mathematics I (5 LP)

LV: 19200502

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2 SWS

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

Practice seminar

Submod: 0260cA2.3.2

Akt: 12.02.2021 18:00

Mon, 12:00 - 14:00 (A6/SR 032 Seminarraum)

Wed, 16:00 - 18:00 (A6/SR 025/026 Seminarraum)

Mon, 14:00 - 16:00 (A6/SR 032 Seminarraum)

Fri, 14:00 - 16:00 (A6/SR 031 Seminarraum)

Wed, 14:00 - 16:00 (T9/SR 005 Übungsraum)

Mon, 14:00 - 16:00 (A6/SR 025/026 Seminarraum)

Tue, 14:00 - 16:00 (A3/ 024 Seminarraum )

Mon, 16:00 - 18:00 (A6/SR 025/026 Seminarraum)

Wed, 14:00 - 16:00 (T9/SR 006 Seminarraum)

Mon, 12:00 - 14:00 (A6/SR 025/026 Seminarraum)

Mon, 16:00 - 18:00 (A6/SR 032 Seminarraum)

Fri, 16:00 - 18:00 (T9/046 Seminarraum)

Fri, 16:00 - 18:00 (T9/049 Seminarraum)

Tue, 14:00 - 16:00 (A3/019 Seminarraum)

Fri, 14:00 - 16:00 (A6/SR 032 Seminarraum)

Wed, 16:00 - 18:00 (A6/SR 031 Seminarraum)

Additional appointments

Appointment series

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 031 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 14:00 - 16:00 (15 Termine)

T9/SR 005 Übungsraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

A3/ 024 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 16:00 - 18:00 (15 Termine)

T9/SR 006 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 16:00 - 18:00 (15 Termine)

T9/046 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 16:00 - 18:00 (15 Termine)

T9/049 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 16:00 - 18:00 (15 Termine)

A3/019 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 031 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

Module: Statistics for Biosciences I (0260cA2.5)

Statistics I for biosciences

LV: 60100001

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2 SWS

Jochen Kruppa

Lecture

Submod: 0260cA2.5.1

Akt: 12.09.2020 06:00

Mon, 16:00 - 18:00 (Virtueller Raum 09)

Practice seminar for Statistics I for biosciences

LV: 60100002

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2 SWS

Jochen Kruppa

Practice seminar

Submod: 0260cA2.5.2

Akt: 01.10.2020 14:00

Wed, 14:00 - 16:00 (Virtueller Raum 35)

Module: General Biology (0260cA3.2)

V Allgemeine Biologie für Bioinformatik - Teil Botanik

LV: 23770a

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2 SWS

No lecturers

Lecture

Submod: 0260cA3.2.1

Akt: 04.11.2020 18:00

V Allgemeine Biologie für Bioinformatik - Teil Zoologie

LV: 23770b

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2 SWS

No lecturers

Lecture

Submod: 0260cA3.2.2

Akt: 04.11.2020 18:00

Module: Molecular Biology and Biochemistry I (0260cA3.3)

Biochemie I - Grundlagen der Biochemie

LV: 21601a

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2 SWS

Markus Wahl

Florian Heyd

Helge Ewers

Lecture

Submod: 0260cA3.3.1

Akt: 26.01.2021 12:00

Wed, 12:00 - 14:00 ()

Description

Qualifikationsziele:
Die Studentinnen und Studenten kennen die Entstehung und molekulare Struktur der wichtigsten zellulären Makromoleküle und Stoffklassen sowie ihren biologischen Kontext. Der Schwerpunkt liegt auf einem chemischen Grundverständnis des molekularen Aufbaus von Biomolekülen.

Inhalte:
Chemische und zellbiologische Grundlagen, Struktur von DNA und RNA, Replikation und Transkription, Proteinbiosynthese, Regulation der Genexpression, gentechnologische Methoden, Aminosäuren und Peptide, Proteinstruktur und Proteinfaltung, Proteom, posttranslationale Modifikationen, Methoden der Proteinforschung, Enzyme, Kohlenhydrate, Lipide und Biomembranen, Einführung in den Stoffwechsel und die Stoffwechselregulation.

Prof. Dr. H. Ewers: helge.ewers@fu-berlin.de
Prof. Dr. F. Heyd: florian.heyd@fu-berlin.de
Prof. Dr. M. Wahl: mwahl@zedat.fu-berlin.de

Additional information for students

Vertonte ppt und/oder Videokonferenz zur regulären Zeit. Entspricht Molekularbiologie und Biochemie I für Bioinformatiker.

Additional appointments

Vorbesprechung

Markus Wahl

Florian Heyd

Helge Ewers

03.11.2020 12:00 - 14:00

Klausur: 21601 - Biochemie I - Grundlagen der Biochemie

Markus Wahl

Florian Heyd

Helge Ewers

24.02.2021 12:00 - 14:00

Nachklausur: 21601 - Biochemie I - Grundlagen der Biochemie

Markus Wahl

Florian Heyd

Helge Ewers

24.03.2021 14:00 - 16:00

Appointment series

Markus Wahl

Florian Heyd

Helge Ewers

wöchentlich, ab 04.11.2020, 12:00 - 14:00 (14 Termine)

Übungen zur Biochemie I - Grundlagen der Biochemie

LV: 21601b

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2 SWS

Markus Wahl

Florian Heyd

Helge Ewers

Practice seminar

Submod: 0260cA3.3.2

Akt: 02.11.2020 14:00

Tue, 12:00 - 14:00 ()

Wed, 10:00 - 12:00 ()

Wed, 08:00 - 10:00 ()

Description

Qualifikationsziele: Die Studentinnen und Studenten kennen die Entstehung und molekulare Struktur der wichtigsten zellulären Makromoleküle und Stoffklassen sowie ihren biologischen Kontext. Der Schwerpunkt liegt auf einem chemischen Grundverständnis des molekularen Aufbaus von Biomolekülen. Inhalte: Chemische und zellbiologische Grundlagen, Struktur von DNA und RNA, Replikation und Transkription, Proteinbiosynthese, Regulation der Genexpression, gentechnologische Methoden, Aminosäuren und Peptide, Proteinstruktur und Proteinfaltung, Proteom, posttranslationale Modifikationen, Methoden der Proteinforschung, Enzyme, Kohlenhydrate, Lipide und Biomembranen, Einführung in den Stoffwechsel und die Stoffwechselregulation. Prof. Dr. H. Ewers: helge.ewers@fu-berlin.de Prof. Dr. F. Heyd: florian.heyd@fu-berlin.de Prof. Dr. M. Wahl: mwahl@zedat.fu-berlin.de

Additional information

Die Übungen finden n.V. in kleineren Gruppen i.d.R. dienstags von 12:00 - 14:00 Uhr bzw. mittwochs von 10:00 - 12:00 Uhr Uhr statt. Die Verteilung findet im Rahmen der Vorbesprechung (s. 21601a) statt.

Additional information for students

Videokonferenz zur regulären Zeit.

Additional appointments

Appointment series

Markus Wahl

Florian Heyd

Helge Ewers

wöchentlich, ab 10.11.2020, 12:00 - 14:00 (14 Termine)

Markus Wahl

Florian Heyd

Helge Ewers

wöchentlich, ab 11.11.2020, 10:00 - 12:00 (14 Termine)

Markus Wahl

Florian Heyd

Helge Ewers

wöchentlich, ab 11.11.2020, 08:00 - 10:00 (14 Termine)

Module: Molecular Biology and Biochemistry II (0260cA3.4)

Molekularbiologie und Biochemie II

LV: 21698a

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2 SWS

Sigmar Stricker

Marina Chekulaeva

Lecture

Submod: 0260cA3.4.1

Akt: 05.07.2021 12:00

Thu, 10:00 - 12:00 ()

Description

Vorlesung für Studierende der Bioinformatik

Additional information for students

Qualifikationsziele: Die Studentinnen und Studenten haben ein Grundlagenverständnis in folgenden Bereichen: Zusammenwirken anatomischer, zellbiologischer und biochemische Prinzipien der Genexpression und des Energiestoffwechsels in Säugetieren, Regulation der Genexpression auf den Ebenen von Chromatinstruktur, Transkription, Prozessierung und Modifizierung in Säugetieren, Zell-Morphologie, -Mobilität und -Adhäsion in Organstrukturen von Säugetieren. Inhalte: Strukturprinzipien in Nuckleinsäuren und Proteinen, Chaperone und Ausbildung biologisch korrekter Protein Strukturen, Prinzipien der Struktur-Vorhersage, Genom-Komponenten und quantitative Zusammensetzung, Remodellierung von Chromatin zu transkribierbaren und nicht-transkribierbaren Konformationen, epigenetischer Histon-Code, CG-Inseln und DNA-Methylierung, modularer Aufbau der Promotoren, Protein: DNA-Wechelwirkungen und deren Strukturdomänen bei der qualitativen und quantitativen Steuerung der Transkription, snRNP und RNA-Prozessierung, Selbstspleißende Introns, RNA-Editierung, Kern-Cytoplasma, Cyotoplasma-Kern Transport, anatomische, zellbiologische und biochemische Prinzipien zur Gewinnung chemischer Reaktionsernergie, Protein-Abbau und Autophagie, Cytoskelett, Zell-Motilität und Zelladhäsion.

Additional appointments

Klausur 21698 Molekularbiologie und Biochemie II

Sigmar Stricker

Marina Chekulaeva

22.02.2021 14:00 - 16:00

Nachklausur 21698 Molekularbiologie und Biochemie II

Sigmar Stricker

Marina Chekulaeva

01.04.2021 10:00 - 12:00

Appointment series

Sigmar Stricker

Marina Chekulaeva

wöchentlich, ab 05.11.2020, 10:00 - 12:00 (14 Termine)

Übungen zu Molekularbiologie und Biochemie II

LV: 21698b

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2 SWS

Sigmar Stricker

Marina Chekulaeva

Practice seminar

Submod: 0260cA3.4.2

Akt: 05.07.2021 12:00

Wed, 10:00 - 12:00 ()

Module: Genetik und Genomforschung (0260cA3.6)

V Genetik und Genomforschung (V)

LV: 23771a

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2 SWS

No lecturers

Lecture

Submod: 0260cA3.6.1

Akt: 01.06.2021 12:00

Description

Ein Überblick über den Aufbau der Lehrveranstaltung (d.h. Vorlesung und Übung) wird im Rahmen der ersten Vorlesung gegeben.

Behandelte Themen (Teil Nowick):
1. Genregulation: Dogma der Molekularbiologie, Transkription, Translation, Transkriptionsfaktoren und deren Bindungsmotive
2. Nicht-kodierende RNAs: Strukturen, Funktionen
3. Genregulatorische Netzwerke: Komplexität der Genregulation, Analysemethoden
4. Alignments: paarweise Alignments, multiple Alignments
5. Populationsgenetik: Vererbungsmuster und Erbkrankheiten, Mutation, Selektion, Hardy-Weinberg-Gleichgewicht, Neutrale Theory, Molekulare Uhr, Linkage Disequilibrium, Tests fuer positive Selektion in Populationen
6. Phylogenetik: Baeume (rooted/unrooted), Neighbor joining, Maximum Parsimony, Maximum Likeliood, Tests für positive Selektion, Genomprojekte

Behandelte Themen (Teil Grünstäudl):
Vorlesung 1: Prinzipien der Evolution, Genetische Algorithmen
Vorlesung 2: Genomtypen einer Zelle (nukleäres, mitochondriales und chloroplastisches Genom), Aufbau und Struktur des nukleären Genoms, Aufbau und Struktur von Chromosomen
Vorlesung 3: Funktion chromosomaler Strukturelemente (Replikationsursprung, Zentromer, Telomer), Steuerung des Zellzyklus, Modifikation von Histonen
Vorlesung 4: Methoden der Chromosomenanalyse (Karyogramm, FISH, GISH), Chromosomenanomalien (Translokationen, Duplikationen, Deletionen)
Vorlesung 5: Aufbau und Struktur des mitochondrialen und des chloroplastischen Genoms, Unterschiede zum nukleären Genom
Vorlesung 6: Genfamilien und Prinzip der Homologie bei Genen, Prinzipien der Phylogenetik und Phylogenomik
Vorlesung 7: Arten der Genomsequenzierung, Next-Generation Sequencing (Illumina, PacBio), Genome Assembly, Genome Annotation

Additional information for students

Vorbesprechung am 1. Vorlesungstag (4.11.2020), 13:00-15:00

Additional appointments

Appointment series

Ü Genetik und Genomforschung (Ü)

LV: 23771b

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1 SWS

No lecturers

Practice seminar

Submod: 0260cA3.6.2

Akt: 01.06.2021 12:00

Module: Neurobiology (0260cA3.8)

V Einführung in die Neurobiologie und Neuroinformatik für Bioinformatiker

LV: 23772a

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2 SWS

No lecturers

Lecture

Submod: 0260cA3.8.1

Akt: 20.10.2020 00:00

P Neurobiologie für Bioinformatiker Kurs A

LV: 23772b

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2 SWS

Dagmar Malun

Peter Robin Hiesinger

Mathias Wernet

Thomas Mathejczyk

Emil Kind

Internship

Submod: 0260cA3.8.2

Akt: 21.09.2020 18:00

Mon, 08:00 - 12:00 (Online - zeitABhängig)

P Neurobiologie für Bioinformatiker Kurs B

LV: 23772c

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2 SWS

Dagmar Malun

Peter Robin Hiesinger

Mathias Wernet

Thomas Mathejczyk

Emil Kind

Internship

Submod: 0260cA3.8.2

Akt: 28.06.2021 16:00

Mon, 14:00 - 18:00 (Online - zeitABhängig)

Module: General Chemistry (0260cA3.9)

Chemie für Studierende der Veterinärmedizin, Biologie und Bioinformatik

LV: 21791a

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4 SWS

Ulrich Abram

Carlo Fasting

Johann Spandl

Lecture

Submod: 0260cA3.9.1

Akt: 13.10.2020 14:00

Tue, 10:00 - 12:00 ()

Thu, 10:00 - 12:00 ()

References

Siehe FU-Blackboard

Additional information for students

Weitere Informationen: <a href='https://lms.fu-berlin.de/'>FU-Blackboard</a> und <a href=' http://userpage.fu-berlin.de/cdinkel/CP-NF/index.html‘>Chemiepraktikum / Nebenfächer</a>

Additional appointments

Lüften VOR Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

13.10.2020 12:00 - 13:00

Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

13.10.2020 13:00 - 15:00

Lüften NACH Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

13.10.2020 15:00 - 16:00

Lüften VOR Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

16.10.2020 09:00 - 10:00

Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

16.10.2020 10:00 - 13:00

Lüften NACH Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

16.10.2020 13:00 - 14:00

Lüften VOR Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

27.10.2020 12:00 - 13:00

Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

27.10.2020 13:00 - 17:00

Lüften NACH Aufzeichnug Experimente

Gr. Hörsaal (Raum B.001)

Ulrich Abram

Carlo Fasting

Johann Spandl

27.10.2020 17:00 - 18:00

Appointment series

Ulrich Abram

Carlo Fasting

Johann Spandl

wöchentlich, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Ulrich Abram

Carlo Fasting

Johann Spandl

wöchentlich, ab 05.11.2020, 10:00 - 12:00 (15 Termine)

Master's programme in Bioinformatics

Master Bioinformatik (StO/PO 2012) (0262b_MA120)

Module: Research Lab (0262bA1.6)

Bioinformatics Research Internship

LV: 19400432

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0 SWS

No lecturers

Research Internship

Submod: 0262bA1.6.1

Akt: 14.10.2020 11:35

Module: Current Issues in Cell Physiology (0262bB2.1)

Current topics in cell physiology

LV: 60100613

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.1.1

Akt: 12.09.2020 06:00

Description

Block course during the semester break. The exact time will be determined by doodle (Duration: 2 weeks; all day)

Location: Charité Campus Benjamin Franklin (Steglitz, Hindenburgdamm 30), Institut für Klinische Physiologie

For further information: http://klinphys.charite.de/bioinfo/

or mail to Dorothee Günzel

Within this course you will generate structural models of proteins by homology modelling. You will develop hypotheses which amino acids should be decisive for the structure. These Hypotheses will be tested by carrying out molecular biologic experiments (such as site-directed mutagenesis by using two-step PCR). The construct will be cloned into expression vectors, transformed and amplified in bacteria, extracted, sequenced and overexpressed in cultured cells.

These cells will be analyzed in the confocal laser scanning microscope and by other techniques. The results will be evaluated and interpreted in the context of the original hypitheses.

The experimental part will be flanked by seminars introducing the theoretical background and the various techniques.

The exact program of this course depends on the actual research of the institute and is tightly connected to our actual projects.

References

Milatz S, Piontek J, Hempel C, Meoli L, Grohe C, Fromm A, Lee IM, El-Athman R, Günzel D (2017) Tight junction strand formation by claudin-10 isoforms and claudin-10a/-10b chimeras. Ann. N.Y. Acad. Sci. 1405: 102-115 (https://www.ncbi.nlm.nih.gov/pubmed/28633196)

Piontek J, Winkler L, Wolburg H, Müller SL, Zuleger N, Piehl C, Wiesner B, Krause G, Blasig IE (2008) Formation of tight junction: determinants of homophilic interaction between classic claudins. FASEB J. 22: 146-158 (https://www.ncbi.nlm.nih.gov/pubmed/17761522)

Additional information

Please bring lab coat, if available!

Additional appointments

Appointment series

Module: Messung und Analyse physiologischer Prozesse (0262bB2.3)

Computer-aided drug design

LV: 60101813

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.3.1

Akt: 01.06.2021 12:00

Description

Practical Course: Using open source software and libraries for data analysis and computer-aided drug design

This practical course introduces the students to diverse software tools and libraries which can support data generation and analysis in various areas of computer-aided drug design. The course will sensitize the students to the ease and the profit of using bio-/cheminformatics methods.

The course shall enable the students to set-up their own drug design pipeline including protein target preparation, compound library set-up and filtering (i.e. using drug-like and toxicity filters), docking of the compounds to the target and evaluation of the results. The course will include the following tasks:

There will be a short introductory part into python programming using the novel and interactive IPython notebooks.
The students will write their own scripts using, e.g., python libraries for data handling (pandas), protein (BioPython) and compound (RDKit) processing as well as machine learning (scikit-learn) to prepare their compound libraries.
Open access tools for protein structure preparation and visual inspection (PyMol) will be used.
AutoDock software will be engaged for docking of the compounds into the target protein and the results will be evaluated.

Each day, we will perform a small task from the described computer-aided drug design pipeline (morning lecture followed by practical work asn presentation). The students can work individually or in groups, depending on the total number of participants.

Additional information

Practical course date: 18.03.-22.03.2019, 5 days, daily 9 am - 5 pm.
Preliminary meeting: In February, exact date will be announced soon.

Place: Campus Mitte, Vorchowweg 6 (or surrounding Charité Campus), 10117 Berlin

Research AG Volkamer

Additional appointments

Appointment series

Module: Environmental Metagenomics (0262bB2.5)

S Umweltmetagenomik (S)

LV: 23780

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.5.1

Akt: 09.09.2020 16:00

Description

Contents:
Overview lectures, field sampling, bioinformatics data analysis, preparation of results, summary presentation. Subject of the practical: Use of iDNA from blood-feeding mosquitoes to assess wildlife biodiversity in an urban environment.

References

Optional: Taberlet, Bonin, Zinger, Coissac. 2018. Environmental DNA for Biodiversity Research and Monitoring. Oxford University Press. https://git.metabarcoding.org/obitools/obitools/wikis/home

Additional information

Registration in Campus Management only for participants

Additional information for students

The course starts 17 August 2020, 10:00; interested students should contact Camila Mazzoni (mazzoni@izw-berlin.de) and Michael Monaghan (m.monaghan@fu-berlin.de)

Additional appointments

Appointment series

Module: Current Issues in Structural Bioinformatics (0262bB2.7)

Current questions of structural Bioinformatics

LV: 60101113

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.7.1

Akt: 12.09.2020 06:00

Description

Welcome to the practical course, please look into the link for the theory module for the basic idea about the course.

The practical course gives the student a chance to test his or her understanding of the material taught in the theory course. A short introduction on each topic will be given on this course for individual topics. The students will be assigned to a small project/task which they have to perform. The students will be assigned into groups of two/three/max four members, depending on the total number of students registered for the course.

Structure of the course:

Everyday students will be assigned projects in groups for each topic. They work together to solve some interesting scientific problem. Each group will be closely supervised by the respective tutors. At the end of the lecture series, students (individual group) will be assigned one of the topic of the course, which they have to present in front of the wider audience. This will provide students, a way to practice presentation skills and can help them to develop the expertise needed to discuss their research in a clear and meaningful way.

Learning how to answer specific questions and present data to a range of individuals, will help students in other endeavors, including future conference presentations, masters or dissertation defenses.

Topic for practical lectures are:

Introductory session
Homology modeling
3D molecular superimposition of small molecules
In silico screening, molecular fingerprints and chemical similarity
Natural products and fragments based drug discovery
In silico toxicity prediction
Personalized medicine

Website: http://bioinf-apache.charite.de/main/course_practical.php

Important: Material from the theory course will be intensively used in the practical course. It is advisable, that the students need to attend the theory course before participating in the practical course. Both the courses are interlinked.

Additional information

Max.no of particpants: 12

Language of instructtion: English

Practical course: 11.03. - 22.04.2019, 7 days during 2 weeks, daily 10 am - 5 pm

Preliminary meeting:

Date: 11.03.2019
Time: 11.00 am
Place: Campus Mitte, Philippstr. 12, 10115 Berlin

website : http://bioinf-apache.charite.de/main/course_practical.php

Additional appointments

Appointment series

Module: Forschungsmodul A (0262bB3.1)

Molecular Networks

LV: 19401801

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2 SWS

Alexander Bockmayr

Lecture

Submod: 0262bB3.1.1

Akt: 03.11.2020 14:00

Mon, 10:00 - 14:00 (Virtueller Raum 08)

Description

The goal of this course is to give an introduction to mathematical and algorithmic methods for the analysis of molecular networks in systems biology, which have numerous applications in biology, medicine and biotechnology. Molecular networks describe interactions between molecules in a cell and may contain several thousands of nodes and (hyper-)arcs.

We will focus on methods from discrete mathematics (polyhedra, matroids, Boolean functions, linear and integer optimization) for the analysis of metabolic and regulatory networks. We first study flux polyhedra of metabolic networks at steady state. Then we consider dynamic processes, cellular resource allocation and regulation/control of cellular processes. This leads to various static and dynamic optimization problems that can be solved by methods from linear and mixed-integer linear programming.

Additional appointments

Appointment series

Virtueller Raum 08

Alexander Bockmayr

einmal, ab 02.11.2020, 10:00 - 14:00 (15 Termine)

Practice seminar for Molecular Networks

LV: 19401802

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2 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 03.11.2020 14:00

Journal Club Computational Biology

LV: 19402911

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2 SWS

Knut Reinert

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Mon, 14:00 - 16:00 (Virtueller Raum 34)

Description

Content:

In this seminar we will present original work in Computational biology as well as progress reports from PhD students. Master students will either be assigend a paper, or present their MSc thesis plans and results, or report about their "Fortgeschrittenenpraktikum". Credits are only awarded for the presentation of papers.

Please sign up on the KVV pages (open "Site Browser" and look forJournal Club).

References

aktuelle Publikationen aus der Forschung

Additional information

Open for:

Master and PhD students

Additional appointments

Appointment series

Virtueller Raum 34

Knut Reinert

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

Open science, data handling and ethical aspects in bioinformatics

LV: 19404611

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2 SWS

Thilo Muth

Seminar

Submod: 0262bB3.1.5

Akt: 04.11.2020 16:00

Wed, 10:00 - 12:00 (Virtueller Raum 08)

Description

The main objectives of this seminar are (1) to introduce fundamental methods of data handling in bioinformatics research with a particular focus on lab management systems, containerized frameworks and software workflow systems, (2) to provide a general overview of open science, sustainable software development, information security and data protection and (3) to discuss ethical issues, chances and risks with regard to fundamental research and personalized medicine.

Planned topics are as follows:

Open vs. closed Science: chances and risks of open science. Open access and traditional publishing.
Sustainable software development and reproducible research: open data and open source, code repositories, maintainability of software and code in the sciences
Laboratory information management systems: sample management, integration of instruments and application, data exchange
Bioinformatic workflows: Galaxy, Snakemake and KNIME
Containerized frameworks: Advantages of using Docker, Bioconda etc.
Information security and data protection: securing personalized data, relevance for data analyses in research, efficient handling guidelines of data security, potential issues with open science
Ethical issues, chances and risks of omics research: immense opportunities when manipulating genome information, novel ethical questions need to be asked, „right not to know“, danger of discrimination against individuals or groups based on genetic differences

Organisational note: During the first course at the beginning of the semester, the aforementioned topics will be briefly introduced and course material (e.g. relevant publications) will be provided. In the second course, topics will be assigned to the attendees of the seminar.

Additional appointments

Appointment series

Virtueller Raum 08

Thilo Muth

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Phylogeny Inference and Application

LV: 19405501

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2 SWS

Prabhav Kalaghatgi

Lecture

Submod: 0262bB3.1.1

Akt: 29.10.2020 12:00

Tue, 14:00 - 16:00 (Virtueller Raum 08)

Description

Course content:

The course is thematically divided into two parts:

Inferring evolutionary relationships:

Methods for inferring phylogenetic trees will be introduced using the following topics

Mechanisms of genome evolution
Combinatorial optimization problems in phylogenetic tree inference
Using minimum spanning trees to infer large phylogenetic trees
Methods for rooting phylogenetic trees
Limitations of phylogenetic trees, and alternate network-based models

Learning evolutionary dynamics using trees:

Additionally, we will cover applications of phylogenetic trees such as

Time-calibrated trees using molecular clocks
Identifying genomic regions under selection
Inferring migration history
Virus epidemiology
Tumor heterogeneity

Prerequisites:

The course is designed for bioinformaticians, and computer scientists interested in biology.

Students will be using current software for their tutorials (Uebungen). Programming assignments are expected to be submitted as jupyter notebooks.

A familiarity with python is helpful but not necessary as it will be covered in the initial tutorials.

Additional appointments

Appointment series

Virtueller Raum 08

Prabhav Kalaghatgi

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Phylogeny Inference and Application

LV: 19405502

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2 SWS

Prabhav Kalaghatgi

Practice seminar

Submod: 0262bB3.1.3

Akt: 29.10.2020 12:00

Tue, 16:00 - 18:00 (Virtueller Raum 08)

Biochemical networks and disease

LV: 19405911

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2 SWS

Jana Wolf

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Thu, 10:00 - 12:00 (Virtueller Raum 08)

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221a

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2 SWS

No lecturers

Lecture

Submod: 0262bB3.1.1

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

This module comprises lectures (216221a), exercises (216221b) and a seminar (216221c) which have to be booked in conjunction. Note that registrations for this module open on 1.10.2020 and close on 30.10.2020. You will need to register via Campus Management and Whiteboard. https://mycampus.imp.fu-berlin.de/portal You will receive an email confirming your registration within a week of the registration deadline. N.B.: For now, Master students in Computer Science can only register for the lectures and exercises (216221a and 216221b). This restriction, however, does not apply to Master students in Bioinformatics and Master students in Biochemistry.

Additional appointments

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221b

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1 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221c

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2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

This module comprises lectures (216221a), exercises (216221b) and a seminar (216221c) which have to be booked in conjunction.
Note that registrations for this module open on 1.10.2020 and close on 30.10.2020. You will need to register via Campus Management and KVV. https://mycampus.imp.fu-berlin.de/portal You will receive an email confirming your registration within a week of the registration deadline. N.B.: For now, Master students in Computer Science can only register for the lectures and exercises (216221a and 216221b). This restriction, however, does not apply to Master students in Bioinformatics and Master students in Biochemistry.

Additional appointments

Appointment series

S Evolutionary Bioinformatics and Next-Generation Sequencing Applications

LV: 23781

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2 SWS

Michael Thomas Monaghan

Camila Mazzoni

Seminar

Submod: 0262bB3.1.5

Akt: 28.09.2020 00:00

Fri, 11:00 - 12:00 (Online - zeitABhängig)

Description

Students attend and participate in weekly seminars given by scientists who are using evolutionary bioinformatics and NGS to address ecological and evolutionary questions in ongoing projects. Speakers are Master or Doctoral students, Postdocs, and PIs at member institutes of the Center for Genomics in Biodiversity Research (BGBM, FU, IGB, IZW, Museum für Naturkunde, Universität Potsdam). Students will read one paper each week related to the topic and prepare a seminar of their own for presentation at the end of the semester.

Additional appointments

Appointment series

Online - zeitABhängig

Michael Thomas Monaghan

Camila Mazzoni

einmal, ab 06.11.2020, 11:00 - 12:00 (15 Termine)

Pathophysiology: methods and findings

LV: 60101311

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2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 12.09.2020 06:00

Methods for clinical trials

LV: 60102001

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2 SWS

Geraldine Rauch

Lecture

Submod: 0262bB3.1.1

Akt: 14.10.2020 10:00

Thu, 14:00 - 16:00 (Virtueller Raum 32)

Description

In this course, we introduce and discuss statistical methods and study design applied in clinical trials. Basic design aspects like randomization, blinding, the definition of control groups and endpoints will be discussed as well as different study types such as efficacy trials, equivalence and bioequivalence trials, phase I, II and III trials and principles of meta analyses. The related statistical models and test will be introduced as well. The aim of the lectures is to learn about biometrical thinking in the context of clinical trials which includes the application of statistical methods, but also critical thinking on the experimental setting.

Additional appointments

Appointment series

Virtueller Raum 32

Geraldine Rauch

einmal, ab 05.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Methods for clinical trials

LV: 60102002

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2 SWS

Geraldine Rauch

Practice seminar

Submod: 0262bB3.1.3

Akt: 14.10.2020 10:00

Thu, 16:00 - 18:00 (Virtueller Raum 35)

Resampling techniques and their application

LV: 60102501

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2 SWS

Frank Konietschke

Lecture

Submod: 0262bB3.1.1

Akt: 14.10.2020 10:00

Wed, 14:00 - 16:00 (Virtueller Raum 33)

Description

In this course, we introduce resampling techniques for analyzing trials with small sample sizes. Special attention will be given to both estimation methods as well as inference procedures. We hereby will find answers to the questions (1) "How does resampling work?" and "When does resampling work"? Throughout the class we will study one sample, two samples and even factorial designs with independent and dependent observations. All algorithms will be presented and illustrated using R statistical software. Knowledge of fundamentals in statistical testing as well as basic skills in R are recommended and prerequisite.

Additional appointments

Appointment series

Virtueller Raum 33

Frank Konietschke

einmal, ab 04.11.2020, 14:00 - 16:00 (15 Termine)

Practice Seminar for Resampling techniques and their application

LV: 60102502

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2 SWS

Frank Konietschke

Practice seminar

Submod: 0262bB3.1.3

Akt: 14.10.2020 10:00

Wed, 16:00 - 18:00 (Virtueller Raum 36)

Module: Forschungsmodul B (0262bB3.2)

Molecular Networks

LV: 19401801

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2 SWS

Alexander Bockmayr

Lecture

Submod: 0262bB3.1.1

Akt: 03.11.2020 14:00

Mon, 10:00 - 14:00 (Virtueller Raum 08)

Description

Additional appointments

Appointment series

Virtueller Raum 08

Alexander Bockmayr

einmal, ab 02.11.2020, 10:00 - 14:00 (15 Termine)

Practice seminar for Molecular Networks

LV: 19401802

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2 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 03.11.2020 14:00

Journal Club Computational Biology

LV: 19402911

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2 SWS

Knut Reinert

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Mon, 14:00 - 16:00 (Virtueller Raum 34)

Description

Content:

Please sign up on the KVV pages (open "Site Browser" and look forJournal Club).

References

aktuelle Publikationen aus der Forschung

Additional information

Open for:

Master and PhD students

Additional appointments

Appointment series

Virtueller Raum 34

Knut Reinert

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

Open science, data handling and ethical aspects in bioinformatics

LV: 19404611

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2 SWS

Thilo Muth

Seminar

Submod: 0262bB3.1.5

Akt: 04.11.2020 16:00

Wed, 10:00 - 12:00 (Virtueller Raum 08)

Description

Planned topics are as follows:

Open vs. closed Science: chances and risks of open science. Open access and traditional publishing.
Sustainable software development and reproducible research: open data and open source, code repositories, maintainability of software and code in the sciences
Laboratory information management systems: sample management, integration of instruments and application, data exchange
Bioinformatic workflows: Galaxy, Snakemake and KNIME
Containerized frameworks: Advantages of using Docker, Bioconda etc.
Information security and data protection: securing personalized data, relevance for data analyses in research, efficient handling guidelines of data security, potential issues with open science
Ethical issues, chances and risks of omics research: immense opportunities when manipulating genome information, novel ethical questions need to be asked, „right not to know“, danger of discrimination against individuals or groups based on genetic differences

Additional appointments

Appointment series

Virtueller Raum 08

Thilo Muth

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Phylogeny Inference and Application

LV: 19405501

a.SAP verarbeitet

2 SWS

Prabhav Kalaghatgi

Lecture

Submod: 0262bB3.1.1

Akt: 29.10.2020 12:00

Tue, 14:00 - 16:00 (Virtueller Raum 08)

Description

Course content:

The course is thematically divided into two parts:

Inferring evolutionary relationships:

Methods for inferring phylogenetic trees will be introduced using the following topics

Mechanisms of genome evolution
Combinatorial optimization problems in phylogenetic tree inference
Using minimum spanning trees to infer large phylogenetic trees
Methods for rooting phylogenetic trees
Limitations of phylogenetic trees, and alternate network-based models

Learning evolutionary dynamics using trees:

Additionally, we will cover applications of phylogenetic trees such as

Time-calibrated trees using molecular clocks
Identifying genomic regions under selection
Inferring migration history
Virus epidemiology
Tumor heterogeneity

Prerequisites:

The course is designed for bioinformaticians, and computer scientists interested in biology.

Students will be using current software for their tutorials (Uebungen). Programming assignments are expected to be submitted as jupyter notebooks.

A familiarity with python is helpful but not necessary as it will be covered in the initial tutorials.

Additional appointments

Appointment series

Virtueller Raum 08

Prabhav Kalaghatgi

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Phylogeny Inference and Application

LV: 19405502

a.SAP verarbeitet

2 SWS

Prabhav Kalaghatgi

Practice seminar

Submod: 0262bB3.1.3

Akt: 29.10.2020 12:00

Tue, 16:00 - 18:00 (Virtueller Raum 08)

Biochemical networks and disease

LV: 19405911

a.SAP verarbeitet

2 SWS

Jana Wolf

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Thu, 10:00 - 12:00 (Virtueller Raum 08)

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221a

a.SAP verarbeitet

2 SWS

No lecturers

Lecture

Submod: 0262bB3.1.1

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221b

a.SAP verarbeitet

1 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221c

a.SAP verarbeitet

2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

This module comprises lectures (216221a), exercises (216221b) and a seminar (216221c) which have to be booked in conjunction.
Note that registrations for this module open on 1.10.2020 and close on 30.10.2020. You will need to register via Campus Management and KVV. https://mycampus.imp.fu-berlin.de/portal You will receive an email confirming your registration within a week of the registration deadline. N.B.: For now, Master students in Computer Science can only register for the lectures and exercises (216221a and 216221b). This restriction, however, does not apply to Master students in Bioinformatics and Master students in Biochemistry.

Additional appointments

Appointment series

S Evolutionary Bioinformatics and Next-Generation Sequencing Applications

LV: 23781

a.SAP verarbeitet

2 SWS

Michael Thomas Monaghan

Camila Mazzoni

Seminar

Submod: 0262bB3.1.5

Akt: 28.09.2020 00:00

Fri, 11:00 - 12:00 (Online - zeitABhängig)

Description

Additional appointments

Appointment series

Online - zeitABhängig

Michael Thomas Monaghan

Camila Mazzoni

einmal, ab 06.11.2020, 11:00 - 12:00 (15 Termine)

Pathophysiology: methods and findings

LV: 60101311

a.SAP verarbeitet

2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 12.09.2020 06:00

Methods for clinical trials

LV: 60102001

a.SAP verarbeitet

2 SWS

Geraldine Rauch

Lecture

Submod: 0262bB3.1.1

Akt: 14.10.2020 10:00

Thu, 14:00 - 16:00 (Virtueller Raum 32)

Description

Additional appointments

Appointment series

Virtueller Raum 32

Geraldine Rauch

einmal, ab 05.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Methods for clinical trials

LV: 60102002

a.SAP verarbeitet

2 SWS

Geraldine Rauch

Practice seminar

Submod: 0262bB3.1.3

Akt: 14.10.2020 10:00

Thu, 16:00 - 18:00 (Virtueller Raum 35)

Resampling techniques and their application

LV: 60102501

a.SAP verarbeitet

2 SWS

Frank Konietschke

Lecture

Submod: 0262bB3.1.1

Akt: 14.10.2020 10:00

Wed, 14:00 - 16:00 (Virtueller Raum 33)

Description

Additional appointments

Appointment series

Virtueller Raum 33

Frank Konietschke

einmal, ab 04.11.2020, 14:00 - 16:00 (15 Termine)

Practice Seminar for Resampling techniques and their application

LV: 60102502

a.SAP verarbeitet

2 SWS

Frank Konietschke

Practice seminar

Submod: 0262bB3.1.3

Akt: 14.10.2020 10:00

Wed, 16:00 - 18:00 (Virtueller Raum 36)

Master Bioinformatik (SPO 2019) (0262c_MA120)

Module: Advanced Topics in Data Management (0089cA1.29)

Geospatial Databases

LV: 19304801

a.SAP verarbeitet

2 SWS

Agnès Voisard

Lecture

Submod: 0089cA1.29.1

Akt: 12.09.2020 06:00

Tue, 14:00 - 16:00 (T9/Gr. Hörsaal)

Description

The goal of this course is to acquire the background of spatial databases, the kernel of Geographic Systems. The major aspects that will be handled are: modeling and querying geospatial information, spatial access methods (SAMs), data representation, basic operations (mostly from computational geometry), and optimization. Insights into current applications such as location-based services (e.g., navigation systems) will also be given. Knowledge in databases is necessary. This course encompasses: formal lectures, exercises, as well as a practical project with PostGIS.

References

Handouts are enough to understand the course.

The following book will be mostly used: P. Rigaux, M. Scholl, A. Voisard.Spatial Databases - With Application to GIS. Morgan Kaufmann, May 2001. 432 p. (copies in the main library)

Additional information

Zielgruppe: Studierende im Masterstudiengang

Voraussetzungen: Vorlesung: Einf. in Datenbanksysteme

Additional appointments

Appointment series

T9/Gr. Hörsaal

Agnès Voisard

einmal, ab 10.11.2020, 14:00 - 16:00 (14 Termine)

Practice seminar for Geospatial Databases

LV: 19304802

a.SAP verarbeitet

2 SWS

Nicolas Lehmann

Practice seminar

Submod: 0089cA1.29.2

Akt: 12.09.2020 06:00

Thu, 14:00 - 16:00 (T9/Gr. Hörsaal)

Module: Advanced Analysis (0089cA2.1)

Advanced Algorithms

LV: 19303501

a.SAP verarbeitet

4 SWS

László Kozma

Lecture

Submod: 0089cA2.1.1

Akt: 08.04.2021 12:02

Thu, 10:00 - 12:00 (Virtueller Raum 03)

Tue, 10:00 - 12:00 (Virtueller Raum 03)

Description

The class focuses on topics such as

general principles of algorithm design,
network flows,
amortised analysis and advanced data structures,
string matching,
NP-completeness,
approximation algorithms for hard problems,
arithmetic algorithms and circuits, fast fourier transform.

References

Cormen, Leiserson, Rivest, Stein: Introduction to Algorithms, 2nd Ed. McGraw-Hill 2001
Kleinberg, Tardos: Algorithm Design Addison-Wesley 2005.

Additional information

Target audience

All Master and Bachelor students who are interested in algorithms.

Prerequisites

Basic familiarity with the design and analysis of algorithms.

Additional appointments

Klausur

Virtueller Raum 01

László Kozma

05.03.2021 12:00 - 14:00

Nachklausur

Virtueller Raum 11

László Kozma

07.05.2021 12:00 - 14:00

Appointment series

Virtueller Raum 03

László Kozma

einmal, ab 05.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 03

László Kozma

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Practice seminar for Advanced Algorithms

LV: 19303502

a.SAP verarbeitet

2 SWS

László Kozma

Practice seminar

Submod: 0089cA2.1.2

Akt: 25.03.2021 12:00

Wed, 10:00 - 12:00 (Virtueller Raum 12)

Wed, 14:00 - 16:00 (Virtueller Raum 15)

Module: Complex Systems in Biomedical Applications (0262cB1.2)

Complex Systems in Biomedical Applications

LV: 60103101

a.SAP verarbeitet

2 SWS

No lecturers

Lecture

Submod: 0262cB1.2.1

Akt: 28.09.2020 00:00

Description

Joint class taught by the Institute of Clinical Physiology and the Institute of Physiology at the Charité.

Contents:

Using selected, up-to-date examples from biology and physiology, the work steps from data acquisition, data processing, data preparation, data assessment to the modeling of complex physiological relationships are studied theoretically and practically. Models from the following areas are dealt with in more detail:

- Basic biophysical and biochemical processes (e.g. free and facilitated diffusion through channel and transport proteins, active ion transport through membrane transporters, receptor-ligand interaction, interaction of structural and motor proteins)

- Structure-function analysis of transport proteins

- Biological networks (e.g. signal networks, metabolic networks, transportome models, feedback-mechanisms)

- Modeling physiological functions of an organism (e.g. mass transfer to the kidney, blood- and immune-function, muscle movement, temperature regulation, circadian rhythm, cardiac- and circulatory function, autonomic regulation / heart-rate-variability, body-composition)

The course will be split into two segments: the first seven appointments in the semester will take place at the Institute of Physiology, while the second seven appointments will take place at the Institute of Clinical Physiology.

Additional appointments

Appointment series

Practice Seminar for Complex Systems in Biomedical Applications

LV: 60103102

a.SAP verarbeitet

2 SWS

No lecturers

Practice seminar

Submod: 0262cB1.2.2

Akt: 28.09.2020 00:00

Module: Research Internship (0262cB1.4)

Bioinformatics Research Internship

LV: 19400432

a.SAP verarbeitet

0 SWS

No lecturers

Research Internship

Submod: 0262bA1.6.1

Akt: 14.10.2020 11:35

Module: Current research topics in Complex Systems (0262cB1.5)

Biochemical networks and disease

LV: 19405911

a.SAP verarbeitet

2 SWS

Jana Wolf

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Thu, 10:00 - 12:00 (Virtueller Raum 08)

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221c

a.SAP verarbeitet

2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

This module comprises lectures (216221a), exercises (216221b) and a seminar (216221c) which have to be booked in conjunction.
Note that registrations for this module open on 1.10.2020 and close on 30.10.2020. You will need to register via Campus Management and KVV. https://mycampus.imp.fu-berlin.de/portal You will receive an email confirming your registration within a week of the registration deadline. N.B.: For now, Master students in Computer Science can only register for the lectures and exercises (216221a and 216221b). This restriction, however, does not apply to Master students in Bioinformatics and Master students in Biochemistry.

Additional appointments

Appointment series

Pathophysiology: methods and findings

LV: 60101311

a.SAP verarbeitet

2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 12.09.2020 06:00

Module: Advanced Network Analysis (0262cB1.6)

Molecular Networks

LV: 19401801

a.SAP verarbeitet

2 SWS

Alexander Bockmayr

Lecture

Submod: 0262bB3.1.1

Akt: 03.11.2020 14:00

Mon, 10:00 - 14:00 (Virtueller Raum 08)

Description

Additional appointments

Appointment series

Virtueller Raum 08

Alexander Bockmayr

einmal, ab 02.11.2020, 10:00 - 14:00 (15 Termine)

Practice seminar for Molecular Networks

LV: 19401802

a.SAP verarbeitet

2 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 03.11.2020 14:00

Module: Special aspects of Complex Systems (0262cB1.8)

Phylogeny Inference and Application

LV: 19405501

a.SAP verarbeitet

2 SWS

Prabhav Kalaghatgi

Lecture

Submod: 0262bB3.1.1

Akt: 29.10.2020 12:00

Tue, 14:00 - 16:00 (Virtueller Raum 08)

Description

Course content:

The course is thematically divided into two parts:

Inferring evolutionary relationships:

Methods for inferring phylogenetic trees will be introduced using the following topics

Mechanisms of genome evolution
Combinatorial optimization problems in phylogenetic tree inference
Using minimum spanning trees to infer large phylogenetic trees
Methods for rooting phylogenetic trees
Limitations of phylogenetic trees, and alternate network-based models

Learning evolutionary dynamics using trees:

Additionally, we will cover applications of phylogenetic trees such as

Time-calibrated trees using molecular clocks
Identifying genomic regions under selection
Inferring migration history
Virus epidemiology
Tumor heterogeneity

Prerequisites:

The course is designed for bioinformaticians, and computer scientists interested in biology.

Students will be using current software for their tutorials (Uebungen). Programming assignments are expected to be submitted as jupyter notebooks.

A familiarity with python is helpful but not necessary as it will be covered in the initial tutorials.

Additional appointments

Appointment series

Virtueller Raum 08

Prabhav Kalaghatgi

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Phylogeny Inference and Application

LV: 19405502

a.SAP verarbeitet

2 SWS

Prabhav Kalaghatgi

Practice seminar

Submod: 0262bB3.1.3

Akt: 29.10.2020 12:00

Tue, 16:00 - 18:00 (Virtueller Raum 08)

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221a

a.SAP verarbeitet

2 SWS

No lecturers

Lecture

Submod: 0262bB3.1.1

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221b

a.SAP verarbeitet

1 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Module: Computer-Aided Drug Design (0262cB1.10)

Computer-aided drug design

LV: 60101813

a.SAP verarbeitet

4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.3.1

Akt: 01.06.2021 12:00

Description

Practical Course: Using open source software and libraries for data analysis and computer-aided drug design

There will be a short introductory part into python programming using the novel and interactive IPython notebooks.
The students will write their own scripts using, e.g., python libraries for data handling (pandas), protein (BioPython) and compound (RDKit) processing as well as machine learning (scikit-learn) to prepare their compound libraries.
Open access tools for protein structure preparation and visual inspection (PyMol) will be used.
AutoDock software will be engaged for docking of the compounds into the target protein and the results will be evaluated.

Additional information

Practical course date: 18.03.-22.03.2019, 5 days, daily 9 am - 5 pm.
Preliminary meeting: In February, exact date will be announced soon.

Place: Campus Mitte, Vorchowweg 6 (or surrounding Charité Campus), 10117 Berlin

Research AG Volkamer

Additional appointments

Appointment series

Module: Current topics in cell-physiology (0262cB1.11)

Current topics in cell physiology

LV: 60100613

a.SAP verarbeitet

4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.1.1

Akt: 12.09.2020 06:00

Description

Block course during the semester break. The exact time will be determined by doodle (Duration: 2 weeks; all day)

Location: Charité Campus Benjamin Franklin (Steglitz, Hindenburgdamm 30), Institut für Klinische Physiologie

For further information: http://klinphys.charite.de/bioinfo/

or mail to Dorothee Günzel

These cells will be analyzed in the confocal laser scanning microscope and by other techniques. The results will be evaluated and interpreted in the context of the original hypitheses.

The experimental part will be flanked by seminars introducing the theoretical background and the various techniques.

The exact program of this course depends on the actual research of the institute and is tightly connected to our actual projects.

References

Additional information

Please bring lab coat, if available!

Additional appointments

Appointment series

Module: Current research topics in Data Science in Life Sciences (0262cB2.5)

Open science, data handling and ethical aspects in bioinformatics

LV: 19404611

a.SAP verarbeitet

2 SWS

Thilo Muth

Seminar

Submod: 0262bB3.1.5

Akt: 04.11.2020 16:00

Wed, 10:00 - 12:00 (Virtueller Raum 08)

Description

Planned topics are as follows:

Open vs. closed Science: chances and risks of open science. Open access and traditional publishing.
Sustainable software development and reproducible research: open data and open source, code repositories, maintainability of software and code in the sciences
Laboratory information management systems: sample management, integration of instruments and application, data exchange
Bioinformatic workflows: Galaxy, Snakemake and KNIME
Containerized frameworks: Advantages of using Docker, Bioconda etc.
Information security and data protection: securing personalized data, relevance for data analyses in research, efficient handling guidelines of data security, potential issues with open science
Ethical issues, chances and risks of omics research: immense opportunities when manipulating genome information, novel ethical questions need to be asked, „right not to know“, danger of discrimination against individuals or groups based on genetic differences

Additional appointments

Appointment series

Virtueller Raum 08

Thilo Muth

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221c

a.SAP verarbeitet

2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

This module comprises lectures (216221a), exercises (216221b) and a seminar (216221c) which have to be booked in conjunction.
Note that registrations for this module open on 1.10.2020 and close on 30.10.2020. You will need to register via Campus Management and KVV. https://mycampus.imp.fu-berlin.de/portal You will receive an email confirming your registration within a week of the registration deadline. N.B.: For now, Master students in Computer Science can only register for the lectures and exercises (216221a and 216221b). This restriction, however, does not apply to Master students in Bioinformatics and Master students in Biochemistry.

Additional appointments

Appointment series

Module: Methodology for clinical trials (0262cB2.9)

Methods for clinical trials

LV: 60102001

a.SAP verarbeitet

2 SWS

Geraldine Rauch

Lecture

Submod: 0262bB3.1.1

Akt: 14.10.2020 10:00

Thu, 14:00 - 16:00 (Virtueller Raum 32)

Description

Additional appointments

Appointment series

Virtueller Raum 32

Geraldine Rauch

einmal, ab 05.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Methods for clinical trials

LV: 60102002

a.SAP verarbeitet

2 SWS

Geraldine Rauch

Practice seminar

Submod: 0262bB3.1.3

Akt: 14.10.2020 10:00

Thu, 16:00 - 18:00 (Virtueller Raum 35)

Module: Special aspects of Data Science in the Life Sciences (0262cB2.10)

Data Visualization

LV: 19328301

a.SAP verarbeitet

2 SWS

Claudia Müller-Birn

Christoph Kinkeldey

Lecture

Submod: 0262cB2.10.1

Akt: 23.10.2020 12:00

Description

The rapid technological development requires the processing of large amounts of data of various kinds in order to make them usable by humans. This challenge affects many areas of life today. Especially in research, economy and politics data visualization is used to explain information and correlations by graphical representation, to explore them by visual analysis and to support decision making. The goal of this course is to familiarize students with the principles, techniques and algorithms of data visualization and to develop practical skills for designing and implementing data visualizations.

This course teaches students the fundamentals of data visualization with current content from research and practice. At the end of the course the students will:

1. know essential theoretical basics of visualization for graphical perception and cognition,

2. know and be able to apply methods for the visual coding of data, as well as methods of interactive visualisation

3. understand and be able to apply algorithms and techniques for visualising data (diagrams, graphs, maps), including methods of interaction

4. be able to critically evaluate visualization solutions, and

5. have practical skills in the design of visualisations and their implementation.

The course is aimed at students who are interested in using data visualization in their work as well as students who want to develop visualization tools. Basic knowledge in programming (Javascript, Python) and data analysis (e.g. R) is helpful.

Besides participating in the discussions in the course, students complete several programming and data analysis tasks, as well as a final project as an executable visualization tool. Students are expected to document and present the results of the tasks and the project.

Please note that the course focuses on how data is visually coded, presented and analyzed once the structure of the data and its content is known. Explorative analytical methods for discovering insights in data are not the focus of the course.

References

Text Book

Munzner, Tamara. Visualization analysis and design. AK Peters/CRC Press, 2014.

Additional Literature

Interactive Data Visualization for the Web, 2nd Edition. Scott Murray, O'Reilly Press. 2017.

Yau, Nathan: Visualize This: The FlowingData Guide to Design, Visualization, and Statistics. Wiley Publishing, Inc. 2011.

Spence, Robert: Information Visualization: Design for Interaction. Pearson. 2007.

Additional information

https://www.mi.fu-berlin.de/en/inf/groups/hcc/teaching/winter_term_2020_21/course_data_visualization.html

Additional appointments

Data Visualization

Virtueller Raum 01

Claudia Müller-Birn

Christoph Kinkeldey

17.09.2020 11:00 - 12:00

Appointment series

Data Visualization

LV: 19328302

a.SAP verarbeitet

2 SWS

Claudia Müller-Birn

Christoph Kinkeldey

Practice seminar

Submod: 0262cB2.10.2

Akt: 23.10.2020 12:00

Additional appointments

Übung zu Data Visualization

T9/SR 005 Übungsraum

Claudia Müller-Birn

Christoph Kinkeldey

07.10.2020 13:00 - 15:00

Übung zu Data Visualization

A3/Hs 001 Hörsaal

Claudia Müller-Birn

Christoph Kinkeldey

14.10.2020 13:00 - 15:00

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221a

a.SAP verarbeitet

2 SWS

No lecturers

Lecture

Submod: 0262bB3.1.1

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221b

a.SAP verarbeitet

1 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Module: Advanced Biometrical Methods (0262cB2.18)

Resampling techniques and their application

LV: 60102501

a.SAP verarbeitet

2 SWS

Frank Konietschke

Lecture

Submod: 0262bB3.1.1

Akt: 14.10.2020 10:00

Wed, 14:00 - 16:00 (Virtueller Raum 33)

Description

Additional appointments

Appointment series

Virtueller Raum 33

Frank Konietschke

einmal, ab 04.11.2020, 14:00 - 16:00 (15 Termine)

Practice Seminar for Resampling techniques and their application

LV: 60102502

a.SAP verarbeitet

2 SWS

Frank Konietschke

Practice seminar

Submod: 0262bB3.1.3

Akt: 14.10.2020 10:00

Wed, 16:00 - 18:00 (Virtueller Raum 36)

Module: Methods in Life Sciences (0262cB3.2)

Methods in Life Sciences

LV: 21697a

a.SAP verarbeitet

1 SWS

Florian Heyd

Lecture

Submod: 0262cB3.2.1

Akt: 15.03.2021 14:00

Fri, 15:00 - 16:30 ()

Description

Current molecular and cell biological methods will be presented and discussed to enable students to relate algorithmic problems to specific biological questions. Koordination der LV: Florian Heyd: florian.heyd@fu-berlin.de Marco Preußner: mpreussner@zedat.fu-berlin.de

Additional appointments

Klausur: 21697 - Methods of Life Science

Florian Heyd

26.02.2021 15:00 - 17:15

Appointment series

Florian Heyd

einmal, ab 06.11.2020, 15:00 - 16:30 (14 Termine)

Methods in Life Sciences

LV: 21697b

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2 SWS

Florian Heyd

Seminar

Submod: 0262cB3.2.2

Akt: 28.10.2020 18:00

Fri, 16:30 - 17:15 (Online - zeitABhängig)

Module: Current research topics in Advanced Algorithms (0262cB3.7)

Journal Club Computational Biology

LV: 19402911

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2 SWS

Knut Reinert

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Mon, 14:00 - 16:00 (Virtueller Raum 34)

Description

Content:

Please sign up on the KVV pages (open "Site Browser" and look forJournal Club).

References

aktuelle Publikationen aus der Forschung

Additional information

Open for:

Master and PhD students

Additional appointments

Appointment series

Virtueller Raum 34

Knut Reinert

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221c

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2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

This module comprises lectures (216221a), exercises (216221b) and a seminar (216221c) which have to be booked in conjunction.
Note that registrations for this module open on 1.10.2020 and close on 30.10.2020. You will need to register via Campus Management and KVV. https://mycampus.imp.fu-berlin.de/portal You will receive an email confirming your registration within a week of the registration deadline. N.B.: For now, Master students in Computer Science can only register for the lectures and exercises (216221a and 216221b). This restriction, however, does not apply to Master students in Bioinformatics and Master students in Biochemistry.

Additional appointments

Appointment series

S Evolutionary Bioinformatics and Next-Generation Sequencing Applications

LV: 23781

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2 SWS

Michael Thomas Monaghan

Camila Mazzoni

Seminar

Submod: 0262bB3.1.5

Akt: 28.09.2020 00:00

Fri, 11:00 - 12:00 (Online - zeitABhängig)

Description

Additional appointments

Appointment series

Online - zeitABhängig

Michael Thomas Monaghan

Camila Mazzoni

einmal, ab 06.11.2020, 11:00 - 12:00 (15 Termine)

Module: Special aspects of Advanced Algorithms (0262cB3.9)

Phylogeny Inference and Application

LV: 19405501

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2 SWS

Prabhav Kalaghatgi

Lecture

Submod: 0262bB3.1.1

Akt: 29.10.2020 12:00

Tue, 14:00 - 16:00 (Virtueller Raum 08)

Description

Course content:

The course is thematically divided into two parts:

Inferring evolutionary relationships:

Methods for inferring phylogenetic trees will be introduced using the following topics

Mechanisms of genome evolution
Combinatorial optimization problems in phylogenetic tree inference
Using minimum spanning trees to infer large phylogenetic trees
Methods for rooting phylogenetic trees
Limitations of phylogenetic trees, and alternate network-based models

Learning evolutionary dynamics using trees:

Additionally, we will cover applications of phylogenetic trees such as

Time-calibrated trees using molecular clocks
Identifying genomic regions under selection
Inferring migration history
Virus epidemiology
Tumor heterogeneity

Prerequisites:

The course is designed for bioinformaticians, and computer scientists interested in biology.

Students will be using current software for their tutorials (Uebungen). Programming assignments are expected to be submitted as jupyter notebooks.

A familiarity with python is helpful but not necessary as it will be covered in the initial tutorials.

Additional appointments

Appointment series

Virtueller Raum 08

Prabhav Kalaghatgi

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Phylogeny Inference and Application

LV: 19405502

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2 SWS

Prabhav Kalaghatgi

Practice seminar

Submod: 0262bB3.1.3

Akt: 29.10.2020 12:00

Tue, 16:00 - 18:00 (Virtueller Raum 08)

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221a

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2 SWS

No lecturers

Lecture

Submod: 0262bB3.1.1

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Methods for investigating the RNA structurome and RNA-RNA interactome

LV: 216221b

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1 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 11.11.2020 00:00

References

C.K. Kwok (2016): Dawn of the in vivo RNA structurome and interactome J.G. Aw (2016): In Vivo Mapping of Eukaryotic RNA Interactomes Reveals Principles of Higher-Order Organization and Regulation

Additional information for students

Additional appointments

Appointment series

Module: Environmental metagenomics (0262cB3.11)

S Umweltmetagenomik (S)

LV: 23780

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.5.1

Akt: 09.09.2020 16:00

Description

References

Optional: Taberlet, Bonin, Zinger, Coissac. 2018. Environmental DNA for Biodiversity Research and Monitoring. Oxford University Press. https://git.metabarcoding.org/obitools/obitools/wikis/home

Additional information

Registration in Campus Management only for participants

Additional information for students

The course starts 17 August 2020, 10:00; interested students should contact Camila Mazzoni (mazzoni@izw-berlin.de) and Michael Monaghan (m.monaghan@fu-berlin.de)

Additional appointments

Appointment series

Module: Current topics in structural bioinformatics (0262cB3.15)

Current questions of structural Bioinformatics

LV: 60101113

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.7.1

Akt: 12.09.2020 06:00

Description

Welcome to the practical course, please look into the link for the theory module for the basic idea about the course.

Structure of the course:

Topic for practical lectures are:

Introductory session
Homology modeling
3D molecular superimposition of small molecules
In silico screening, molecular fingerprints and chemical similarity
Natural products and fragments based drug discovery
In silico toxicity prediction
Personalized medicine

Website: http://bioinf-apache.charite.de/main/course_practical.php

Additional information

Max.no of particpants: 12

Language of instructtion: English

Practical course: 11.03. - 22.04.2019, 7 days during 2 weeks, daily 10 am - 5 pm

Preliminary meeting:

Date: 11.03.2019
Time: 11.00 am
Place: Campus Mitte, Philippstr. 12, 10115 Berlin

website : http://bioinf-apache.charite.de/main/course_practical.php

Additional appointments

Appointment series

Module: Foundations in Computer Science (0262cA1.1)

Foundations in Computer Science

LV: 19404901

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2 SWS

Knut Reinert

Svenja Mehringer

Sven Bönigk

Lecture

Submod: 0262cA1.1.1

Akt: 09.03.2021 14:08

Tue, 10:00 - 12:00 ()

Tue, 10:00 - 12:00 (Virtueller Raum 35)

Description

In this lecture we will introduce concepts and methods of advanced algorithmics relevant to current reseach in bioinformatics. We will discuss Methods for the development and analysis of deterministic and randomised algorithms and foundations of compact data structures. Finally, the lecture will encompass concepts for parallel and vectorized computing. In more detail we will cover:

- Introduction into different kinds of algorithms and analysis methods
- Foundations of compact data structures
- Graph theiry and graph algorithms
- Analysis of randomized algorithms and data structures
- Introduction into parallel and vectorized computing
- Concepts, paradigms and frameworks for distributed computing

Additional appointments

Foundations in Computer Science

A3/Hs 001 Hörsaal

Knut Reinert

Svenja Mehringer

Sven Bönigk

23.02.2021 12:00 - 14:00

Klausur

Gr. Hörsaal (Raum B.001)

Knut Reinert

Svenja Mehringer

Sven Bönigk

23.02.2021 16:00 - 18:00

Nachklausur

T9/Gr. Hörsaal

Knut Reinert

Svenja Mehringer

Sven Bönigk

06.04.2021 10:00 - 12:00

Appointment series

Knut Reinert

Svenja Mehringer

Sven Bönigk

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Svenja Mehringer

Sven Bönigk

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Practice seminar: Foundations in Computer Science

LV: 19404902

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2 SWS

Knut Reinert

Practice seminar

Submod: 0262cA1.1.2

Akt: 20.04.2021 14:00

Tue, 12:00 - 14:00 (Virtueller Raum 30)

Module: Foundations in Mathematics and Statistics (0262cA1.2)

Foundations in Mathematics and Statistics

LV: 19405001

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2 SWS

Alexander Bockmayr

Lecture

Submod: 0262cA1.2.1

Akt: 06.11.2020 12:00

Thu, 10:00 - 12:00 (Virtueller Raum 30)

Description

In this course we introduce advanced mathematical concepts and methods from optimization, numerics and statistics relevant to current reseach in bioinformatics and systems biology. Topics of interest include:

- Linear optimization (Simplex algorithm, duality)
- Integer linear optimization (branch-and-bound, cutting planes, branch-and-cut)
- Local search and metaheuristics
- Ordinary differential equations (modeling, analysis, sensitivity)
- Linear models and test theory
- Classification
- Bootstrap and model evaluation
- Markov models (EM, HMM, MCMC)

Additional appointments

Appointment series

Virtueller Raum 30

Alexander Bockmayr

einmal, ab 05.11.2020, 10:00 - 12:00 (15 Termine)

Practice seminar for Foundations in Mathematics and Statistics

LV: 19405002

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2 SWS

Alexander Bockmayr

Therese Lorenz

Practice seminar

Submod: 0262cA1.2.2

Akt: 20.04.2021 14:00

Thu, 14:00 - 16:00 (Virtueller Raum 31)

Thu, 12:00 - 14:00 (Virtueller Raum 30)

Module: Foundations in Bio-Medicine (0262cA1.3)

Foundations in Bio-Medicine

LV: 60102401

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2 SWS

Dominik Seelow

Martin Atta Mensah

Lecture

Submod: 0262cA1.3.1

Akt: 12.09.2020 06:00

Wed, 10:00 - 12:00 (Virtueller Raum 33)

Description

This series of seminars and tutorials gives an introduction into how information is stored in the genome, how this information replicated and passed on to daughter cells and within the germline, and how it is read out to give rise to the living organism. The origin and consequences of germline and somatic genomic variability on the cellular and phenotypic level will be discussed as well as the methods for genome analysis including aspects of data processing and safety. Using different human hereditary disorders as examples pathological changes in cellular compartments and in the 3D structure of the genome and the consequences on gene regulation will be explained. The aim is a broad overview over the use of genomic data in clinical medicine.

Additional appointments

Appointment series

Virtueller Raum 33

Dominik Seelow

Martin Atta Mensah

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Practice Seminar for Foundations in Bio-Medicine

LV: 60102402

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2 SWS

Dominik Seelow

Martin Atta Mensah

Practice seminar

Submod: 0262cA1.3.2

Akt: 12.09.2020 06:00

Wed, 12:00 - 14:00 (Virtueller Raum 33)

Module: Introduction to Focus-Areas (0262cA1.4)

SU: Introduction to Focus Areas

LV: 19405106

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2 SWS

Tim Conrad

Seminar-style instruction

Submod: 0262cA1.4.2

Akt: 28.09.2020 12:00

Mon, 12:00 - 14:00 (T9/Gr. Hörsaal)

Introduction to Focus Areas

LV: 19405152

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2 SWS

Tim Conrad

Submod: 0262cA1.4.1

Akt: 10.03.2021 18:00

Mon, 10:00 - 12:00 (T9/Gr. Hörsaal)

General Professional Skills

ABV Bioinformatik (0261a_m30)

Module: Planning, Implementing and Analysing a Tutorial in Computer Science (0159cA2.5)

Planning, Realisation and Analysis of a Tutorial

LV: 19302613

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2 SWS

No lecturers

Lab Seminar

Submod: 0159cA2.5.1

Akt: 14.10.2020 11:28

Description

Content

In a preparatory colloquium, current teaching methods and advising for tutors are presented and discussed. This colloquium is specifically for students, which particularly want to guide exercise sessions as a tutor for the mathematics and computer science students. An interview with the selection committee will take place even during the holidays, in which will be decided about the suitability as a tutor.

After successful aptitude assessment a tutorial about a subjects of a lecture of the first four semesters bachelor study, should be prepare, expose, documented and analyzed.

References

Seifert, J. W.: Visualisieren Präsentieren Moderieren. GABAL Verlag, 16. Auflage 2001

Additional information

Time and location by appointment.

Additional appointments

Appointment series

Module: Principles of IT Project Management (0159cA2.6)

Project Management - Basics

LV: 19304506

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2 SWS

Matthias Horn

Seminar-style instruction

Submod: 0159cA2.6.1

Akt: 27.01.2021 06:00

Mon, 08:00 - 10:00 (Virtueller Raum 12)

Fri, 16:00 - 18:00 (Virtueller Raum 12)

Description

The professional life of almost each graduate of computer science will be comprised of software development or other computer technology related work organized in projects. Leading and being responsible for more or less big projects are important milestones in many career paths of computer scientists.

There is a number of widely accepted methodologies, tools and practices which can be applied to the variety of routine tasks and challenges within projects. The Project Management Institute has collected and systematized knowledge about project management and published it in the “Guide to the Project Management Body of Knowledge (PMBoK Guide)” as an ANSI standard.

Based on the PMBOK as a systematic blueprint this lecture covers the most important processes of project management throughout the typical lifecycle of a project. An accompanying case study as well as sample real life cases help understanding theoretical concepts.

There is a wide variety of software tools supporting project work. The lecture also covers typical tools one would use during a project. We will look more deeply at Microsoft Project as one of the most widespread project management tools.

The lecture series is split into two parts:

In winter term we cover basics of project management. The lecture shall enable participants to become a qualified project management assistant

Project setup, -definition, scope planning
Project time and cost planning
Project controlling and monitoring
Project status collection and reporting
Procurement
Project organization
Project closure
Usage of MS Project for these areas

The lecture during winter term is feasible for bachelor (Modul: Grundlagen des Managements von IT-Projekten) as well as master students (Modul: Projektmanagement).

References

A Guide to the Project Management Body of Knowledge - Fourth Edition (Project Management Institute), 2008

Additional information

Homepage

https://www.mi.fu-berlin.de/w/SE/VorlesungGrundlagenProjektmanagement2020

Additional appointments

Klausur

Virtueller Raum 01

Matthias Horn

19.02.2021 16:00 - 17:30

Appointment series

Virtueller Raum 12

Matthias Horn

einmal, ab 02.11.2020, 08:00 - 10:00 (15 Termine)

Virtueller Raum 12

Matthias Horn

einmal, ab 06.11.2020, 16:00 - 18:00 (14 Termine)

Module: General Professional Skills I (subject-related) (5 CP) (0261aA1.21)

Introduction to C++

LV: 19403720

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4 SWS

Sandro Andreotti

Chris Bielow

Course

Submod: 0261aA1.21.1

Akt: 29.10.2020 12:00

Tue, 10:00 - 12:00 (Virtueller Raum 08)

Tue, 13:00 - 15:00 (Virtueller Raum 08)

Tue, 15:00 - 17:00 (Virtueller Raum 08)

Mon, 13:00 - 15:00 (Virtueller Raum 07)

Tue, 13:00 - 15:00 (Virtueller Raum 07)

Tue, 15:00 - 17:00 (Virtueller Raum 07)

Mon, 15:00 - 17:00 (Virtueller Raum 07)

Mon, 10:00 - 12:00 (Virtueller Raum 08)

Mon, 13:00 - 15:00 (Virtueller Raum 08)

Mon, 15:00 - 17:00 (Virtueller Raum 08)

Description

Schedule

First Block: 26.10. - 30.10.2020 (before semester period)

Second Block: 08.03. - 19.03.2021 (after semester period)

The course is held as a two-part block course over a total of three weeks. One week takes place before the lecture period and two weeks after the lecture period. Every day there is a two-hour theoretical introduction. Afterwards, the theory is put into practice in a two-hour exercise (in the form of programming tasks). The course is aimed at students with little or no previous knowledge of C++. Previous knowledge of object-oriented programming is required.
Contents (preliminary planning)
1st week: Basics

    Basic language elements
    Creation of simple programs
    Compiler / Linker
    data types
    STL
     IO
    ...

2nd week: Deepening

object orientation
templates

Week 3: Mixed topics

    parallelization
    lambda expressions
    rValue References
    ....

Additional information

This course is primarily aimed at students of bioinformatics (in preparation for the module "Algorithms and Data Structures" in the third semester). Students of computer science are also allowed to participate, provided that places are available.

Additional appointments

Appointment series

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 10:00 - 12:00 (9 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 13:00 - 15:00 (9 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 15:00 - 17:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 13:00 - 15:00 (5 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 13:00 - 15:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 15:00 - 17:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 15:00 - 17:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 10:00 - 12:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 13:00 - 15:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 15:00 - 17:00 (5 Termine)

Module: General Professional Skills II (subject-related) (5 CP) (0261aA1.22)

Scientific Work in Bioinformatics

LV: 19403910

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2 SWS

Jochen Kruppa

Proseminar

Submod: 0261aA1.22.1

Akt: 29.10.2020 12:00

Tue, 10:00 - 12:00 (Virtueller Raum 34)

Module: Berufspraktikum (0261aA2.1)

Bioinformatics Internship

LV: 19402433

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0 SWS

No lecturers

Professional Internship

Submod: 0261aA2.1.1

Akt: 14.10.2020 11:36

Module: Principles of Business Administration (0105cA4.1)

Betriebswirtschaftliche Grundlagen (ABV)

LV: 10120611

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4 SWS

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

Seminar

Submod: 0105cA4.1.1

Akt: 13.11.2020 14:00

Tue, 14:00 - 16:00 (Online - zeitABhängig)

Tue, 12:00 - 14:00 (Online - zeitABhängig)

Tue, 10:00 - 12:00 (Online - zeitABhängig)

Description

Zu den Kommentaren der Veranstaltung

Additional appointments

Appointment series

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Module: Principles of Business Administration (0105dA4.1)

Betriebswirtschaftliche Grundlagen (ABV)

LV: 10120611

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4 SWS

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

Seminar

Submod: 0105cA4.1.1

Akt: 13.11.2020 14:00

Tue, 14:00 - 16:00 (Online - zeitABhängig)

Tue, 12:00 - 14:00 (Online - zeitABhängig)

Tue, 10:00 - 12:00 (Online - zeitABhängig)

Description

Zu den Kommentaren der Veranstaltung

Additional appointments

Appointment series

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Module: Net Economy - Case Studies in the International Learning Network (GPP) (0105dA4.4)

Fallstudien im Internationalen Lernnetzwerk (ABV)

LV: 10120912

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4 SWS

Martin Gersch

Catharina Werner

Lars Stegemann

Project Seminar

Submod: 0105dA4.4.1

Akt: 02.11.2020 12:00

Wed, 10:00 - 11:30 (Online - zeitABhängig)

Module: BusinessplanLab - Creating a Business Plan (0105dA4.5)

BusinessplanLab (PS)

LV: 10113812

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2 SWS

Martin Gersch

Natalie Mahlert

Project Seminar

Submod: 0105dA4.5.1

Akt: 06.11.2020 18:00

Fri, 09:00 - 16:00 (Online - zeitABhängig)

Module: Funpreneur Competition - Launching a Student Company (0105dA4.6)

Gründung eines studentischen Unternehmens - Funpreneur-Wettbewerb

LV: 10123312

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2 SWS

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

Project Seminar

Submod: 0105dA4.6.1

Akt: 15.10.2020 18:00

Mon, 12:00 - 14:00 (Online - zeitABhängig)

Description

Weiterführende Informationen

Additional appointments

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

04.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

05.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

18.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

25.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

01.02.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

15.02.2021 12:00 - 14:00

Appointment series

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

einmal, ab 09.11.2020, 12:00 - 14:00 (5 Termine)

ABV Bioinformatik (für Studierende, die nach der BSc STO/PO 2012 studieren) (0261b_m30)

Module: Principles of Business Administration (0105dA4.1)

Betriebswirtschaftliche Grundlagen (ABV)

LV: 10120611

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4 SWS

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

Seminar

Submod: 0105cA4.1.1

Akt: 13.11.2020 14:00

Tue, 14:00 - 16:00 (Online - zeitABhängig)

Tue, 12:00 - 14:00 (Online - zeitABhängig)

Tue, 10:00 - 12:00 (Online - zeitABhängig)

Description

Zu den Kommentaren der Veranstaltung

Additional appointments

Appointment series

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

Online - zeitABhängig

Martin Gersch

Catharina Werner

Moritz Kleinaltenkamp

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Module: Net Economy - Case Studies in the International Learning Network (GPP) (0105dA4.4)

Fallstudien im Internationalen Lernnetzwerk (ABV)

LV: 10120912

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4 SWS

Martin Gersch

Catharina Werner

Lars Stegemann

Project Seminar

Submod: 0105dA4.4.1

Akt: 02.11.2020 12:00

Wed, 10:00 - 11:30 (Online - zeitABhängig)

Module: BusinessplanLab - Creating a Business Plan (0105dA4.5)

BusinessplanLab (PS)

LV: 10113812

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2 SWS

Martin Gersch

Natalie Mahlert

Project Seminar

Submod: 0105dA4.5.1

Akt: 06.11.2020 18:00

Fri, 09:00 - 16:00 (Online - zeitABhängig)

Module: Funpreneur Competition - Launching a Student Company (0105dA4.6)

Gründung eines studentischen Unternehmens - Funpreneur-Wettbewerb

LV: 10123312

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2 SWS

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

Project Seminar

Submod: 0105dA4.6.1

Akt: 15.10.2020 18:00

Mon, 12:00 - 14:00 (Online - zeitABhängig)

Description

Weiterführende Informationen

Additional appointments

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

04.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

05.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

18.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

25.01.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

01.02.2021 12:00 - 14:00

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

15.02.2021 12:00 - 14:00

Appointment series

Online - zeitABhängig

Martin Gersch

Janina Sundermeier

Catharina Werner

Natalie Mahlert

einmal, ab 09.11.2020, 12:00 - 14:00 (5 Termine)

Module: Planning, Implementing and Analysing a Tutorial in Computer Science (0159cA2.5)

Planning, Realisation and Analysis of a Tutorial

LV: 19302613

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2 SWS

No lecturers

Lab Seminar

Submod: 0159cA2.5.1

Akt: 14.10.2020 11:28

Description

Content

After successful aptitude assessment a tutorial about a subjects of a lecture of the first four semesters bachelor study, should be prepare, expose, documented and analyzed.

References

Seifert, J. W.: Visualisieren Präsentieren Moderieren. GABAL Verlag, 16. Auflage 2001

Additional information

Time and location by appointment.

Additional appointments

Appointment series

Module: Principles of IT Project Management (0159cA2.6)

Project Management - Basics

LV: 19304506

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2 SWS

Matthias Horn

Seminar-style instruction

Submod: 0159cA2.6.1

Akt: 27.01.2021 06:00

Mon, 08:00 - 10:00 (Virtueller Raum 12)

Fri, 16:00 - 18:00 (Virtueller Raum 12)

Description

The lecture series is split into two parts:

In winter term we cover basics of project management. The lecture shall enable participants to become a qualified project management assistant

Project setup, -definition, scope planning
Project time and cost planning
Project controlling and monitoring
Project status collection and reporting
Procurement
Project organization
Project closure
Usage of MS Project for these areas

The lecture during winter term is feasible for bachelor (Modul: Grundlagen des Managements von IT-Projekten) as well as master students (Modul: Projektmanagement).

References

A Guide to the Project Management Body of Knowledge - Fourth Edition (Project Management Institute), 2008

Additional information

Homepage

https://www.mi.fu-berlin.de/w/SE/VorlesungGrundlagenProjektmanagement2020

Additional appointments

Klausur

Virtueller Raum 01

Matthias Horn

19.02.2021 16:00 - 17:30

Appointment series

Virtueller Raum 12

Matthias Horn

einmal, ab 02.11.2020, 08:00 - 10:00 (15 Termine)

Virtueller Raum 12

Matthias Horn

einmal, ab 06.11.2020, 16:00 - 18:00 (14 Termine)

Module: General Professional Skills I (subject-related) (5 CP) (0261bA2.8)

Introduction to C++

LV: 19403720

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4 SWS

Sandro Andreotti

Chris Bielow

Course

Submod: 0261aA1.21.1

Akt: 29.10.2020 12:00

Tue, 10:00 - 12:00 (Virtueller Raum 08)

Tue, 13:00 - 15:00 (Virtueller Raum 08)

Tue, 15:00 - 17:00 (Virtueller Raum 08)

Mon, 13:00 - 15:00 (Virtueller Raum 07)

Tue, 13:00 - 15:00 (Virtueller Raum 07)

Tue, 15:00 - 17:00 (Virtueller Raum 07)

Mon, 15:00 - 17:00 (Virtueller Raum 07)

Mon, 10:00 - 12:00 (Virtueller Raum 08)

Mon, 13:00 - 15:00 (Virtueller Raum 08)

Mon, 15:00 - 17:00 (Virtueller Raum 08)

Description

Schedule

First Block: 26.10. - 30.10.2020 (before semester period)

Second Block: 08.03. - 19.03.2021 (after semester period)

    Basic language elements
    Creation of simple programs
    Compiler / Linker
    data types
    STL
     IO
    ...

2nd week: Deepening

object orientation
templates

Week 3: Mixed topics

    parallelization
    lambda expressions
    rValue References
    ....

Additional information

Additional appointments

Appointment series

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 10:00 - 12:00 (9 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 13:00 - 15:00 (9 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 15:00 - 17:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 13:00 - 15:00 (5 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 13:00 - 15:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 15:00 - 17:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 15:00 - 17:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 10:00 - 12:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 13:00 - 15:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 15:00 - 17:00 (5 Termine)

Module: General Professional Skills II (subject-related) (5 CP) (0261bA2.9)

Scientific Work in Bioinformatics

LV: 19403910

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2 SWS

Jochen Kruppa

Proseminar

Submod: 0261aA1.22.1

Akt: 29.10.2020 12:00

Tue, 10:00 - 12:00 (Virtueller Raum 34)

Module: Professional Internship (0261bA3.1)

Bioinformatics Internship

LV: 19402433

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0 SWS

No lecturers

Professional Internship

Submod: 0261aA2.1.1

Akt: 14.10.2020 11:36

Gesamtes Lehrangebot der Bioinformatik

Gesamtes Lehrangebot der Bioinformatik (E61a)

Module: Gesamtes Lehrangebot der Bioinformatik (E61aA1.1)

Mentoring for International Students

LV: 19000246

a.Publiziert

2 SWS

N.N.

Mentoring

Submod: E61aA1.1.1

Akt: 27.10.2020 17:36

Description

This course offers information and support for all incoming exchange students and regular students from foreign countries in the department of mathematics and computer science. Feel free to join our course in the KVV or visit our web pages.

All information sessions are voluntary, there is no compulsory attendance. Topics and dates of all information sessions can be changed according to your needs. Don't hesitate asking and suggesting topics you are interested in!

Additional appointments

Mentoring für Internationale Studierende

T9/SR 005 Übungsraum

N.N.

30.10.2020 11:00 - 14:00

Appointment series

Welcome for Undergraduate Students of Computer Sciences and Bioinformatics

LV: 19000370

a.Publiziert

0 SWS

No lecturers

Begrüßungs- und Abschlussveranstaltung

Submod: E61aA1.1.1

Akt: 27.10.2020 17:36

Mentoring

LV: 19000546

a.Publiziert

0 SWS

No lecturers

Mentoring

Submod: E61aA1.1.1

Akt: 27.10.2020 17:36

Computerorientated Mathematics I (5 LP)

LV: 19200501

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2 SWS

Ralf Kornhuber

Christof Schütte

Lecture

Submod: 0260cA2.3.1

Akt: 16.11.2020 16:00

Fri, 12:00 - 14:00 (T9/Gr. Hörsaal)

Description

Homepage: All current information on lectures and lectures

References

Literatur: R. Kornhuber, C. Schuette, A. Fest: Mit Zahlen Rechnen (Skript zur Vorlesung)

Additional appointments

Appointment series

T9/Gr. Hörsaal

Ralf Kornhuber

Christof Schütte

einmal, ab 06.11.2020, 12:00 - 14:00 (15 Termine)

Practice seminar for Computerorientated Mathematics I (5 LP)

LV: 19200502

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2 SWS

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

Practice seminar

Submod: 0260cA2.3.2

Akt: 12.02.2021 18:00

Mon, 12:00 - 14:00 (A6/SR 032 Seminarraum)

Wed, 16:00 - 18:00 (A6/SR 025/026 Seminarraum)

Mon, 14:00 - 16:00 (A6/SR 032 Seminarraum)

Fri, 14:00 - 16:00 (A6/SR 031 Seminarraum)

Wed, 14:00 - 16:00 (T9/SR 005 Übungsraum)

Mon, 14:00 - 16:00 (A6/SR 025/026 Seminarraum)

Tue, 14:00 - 16:00 (A3/ 024 Seminarraum )

Mon, 16:00 - 18:00 (A6/SR 025/026 Seminarraum)

Wed, 14:00 - 16:00 (T9/SR 006 Seminarraum)

Mon, 12:00 - 14:00 (A6/SR 025/026 Seminarraum)

Mon, 16:00 - 18:00 (A6/SR 032 Seminarraum)

Fri, 16:00 - 18:00 (T9/046 Seminarraum)

Fri, 16:00 - 18:00 (T9/049 Seminarraum)

Tue, 14:00 - 16:00 (A3/019 Seminarraum)

Fri, 14:00 - 16:00 (A6/SR 032 Seminarraum)

Wed, 16:00 - 18:00 (A6/SR 031 Seminarraum)

Additional appointments

Appointment series

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 031 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 14:00 - 16:00 (15 Termine)

T9/SR 005 Übungsraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

A3/ 024 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 16:00 - 18:00 (15 Termine)

T9/SR 006 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 025/026 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 02.11.2020, 16:00 - 18:00 (15 Termine)

T9/046 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 16:00 - 18:00 (15 Termine)

T9/049 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 16:00 - 18:00 (15 Termine)

A3/019 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 032 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 06.11.2020, 14:00 - 16:00 (15 Termine)

A6/SR 031 Seminarraum

Ralf Kornhuber

N.N.

Lasse Hinrichsen-Bischoff

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

Computer Science A

LV: 19305601

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4 SWS

Max Willert

Lecture

Submod: 0260cA1.1.1

Akt: 20.01.2021 11:45

Wed, 08:00 - 10:00 (Virtueller Raum 03)

Fri, 08:00 - 10:00 (Virtueller Raum 03)

Description

References

S. Thompson; Haskell: The Craft of Functional Programming; Addison-Wesley
F. Rabhi, G. Lapalme; Algorithms: A Functional Proramming Approach; Addison-Wesley
G. Hutton; Programming in Haskell; Cambridge University Press
A. Tanenbaum, J. Goodman; Computerarchitektur; Pearson Studium

Additional appointments

Klausur

Virtueller Raum 01

Max Willert

03.03.2021 08:00 - 10:00

Nachklausur

Virtueller Raum 01

Max Willert

01.04.2021 08:00 - 10:00

Appointment series

Virtueller Raum 03

Max Willert

einmal, ab 04.11.2020, 08:00 - 10:00 (15 Termine)

Virtueller Raum 03

Max Willert

einmal, ab 06.11.2020, 08:00 - 10:00 (15 Termine)

Practice seminar for Computer Science A

LV: 19305602

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2 SWS

Max Willert

Practice seminar

Submod: 0260cA1.1.2

Akt: 20.10.2020 12:00

Fri, 14:00 - 16:00 (T9/SR 005 Übungsraum)

Wed, 16:00 - 18:00 (T9/SR 005 Übungsraum)

Tue, 12:00 - 14:00 (T9/SR 005 Übungsraum)

Tue, 14:00 - 16:00 (T9/SR 005 Übungsraum)

Wed, 08:00 - 10:00 (Virtueller Raum 02)

Wed, 12:00 - 14:00 (T9/SR 005 Übungsraum)

Additional appointments

Appointment series

T9/SR 005 Übungsraum

Max Willert

einmal, ab 06.11.2020, 14:00 - 16:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Virtueller Raum 02

Max Willert

einmal, ab 04.11.2020, 08:00 - 10:00 (15 Termine)

T9/SR 005 Übungsraum

Max Willert

einmal, ab 04.11.2020, 12:00 - 14:00 (15 Termine)

Data Visualization

LV: 19328301

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2 SWS

Claudia Müller-Birn

Christoph Kinkeldey

Lecture

Submod: 0262cB2.10.1

Akt: 23.10.2020 12:00

Description

This course teaches students the fundamentals of data visualization with current content from research and practice. At the end of the course the students will:

1. know essential theoretical basics of visualization for graphical perception and cognition,

2. know and be able to apply methods for the visual coding of data, as well as methods of interactive visualisation

3. understand and be able to apply algorithms and techniques for visualising data (diagrams, graphs, maps), including methods of interaction

4. be able to critically evaluate visualization solutions, and

5. have practical skills in the design of visualisations and their implementation.

References

Text Book

Munzner, Tamara. Visualization analysis and design. AK Peters/CRC Press, 2014.

Additional Literature

Interactive Data Visualization for the Web, 2nd Edition. Scott Murray, O'Reilly Press. 2017.

Yau, Nathan: Visualize This: The FlowingData Guide to Design, Visualization, and Statistics. Wiley Publishing, Inc. 2011.

Spence, Robert: Information Visualization: Design for Interaction. Pearson. 2007.

Additional information

https://www.mi.fu-berlin.de/en/inf/groups/hcc/teaching/winter_term_2020_21/course_data_visualization.html

Additional appointments

Data Visualization

Virtueller Raum 01

Claudia Müller-Birn

Christoph Kinkeldey

17.09.2020 11:00 - 12:00

Appointment series

Data Visualization

LV: 19328302

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2 SWS

Claudia Müller-Birn

Christoph Kinkeldey

Practice seminar

Submod: 0262cB2.10.2

Akt: 23.10.2020 12:00

Additional appointments

Übung zu Data Visualization

T9/SR 005 Übungsraum

Claudia Müller-Birn

Christoph Kinkeldey

07.10.2020 13:00 - 15:00

Übung zu Data Visualization

A3/Hs 001 Hörsaal

Claudia Müller-Birn

Christoph Kinkeldey

14.10.2020 13:00 - 15:00

Appointment series

AlDaBi

LV: 19400001

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2 SWS

Knut Reinert

Lecture

Submod: 0260cA1.3.1

Akt: 09.03.2021 14:09

Thu, 14:00 - 16:00 (Virtueller Raum 30)

Description

In the exercises the above topics will be deepened, and techniques of analysis and evidence will be practised.

There is an associated practical course "Algorithmen und Datenstrukturen" (19401330). Please check there for further information!

References

Generelle Bücher/Basic reading:

Neil C. Jones, Pavel A. Pevzner: An Introduction to Bioinformatics Algorithms. MIT Press, Cambridge, MA, 2004. ISBN 0-262-10106-8
R. Durbin, S. Eddy, A. Krogh, G. Mitchison: Biological sequence analysis. Cambridge University Press, 1998. ISBN 0-521-62971-3
David B. Mount: Bioinformatics. Sequence and Genome Analysis. Cold Spring Harbor Laboratory Press, New York, 2001. ISBN 0-87969-608-7
Chao, Zhang: Sequence comparison, Theory and Methods: Springer, ISBN: 978-1-85800-319-4

Additional appointments

Algorithmen und Datenstrukturen

Knut Reinert

25.02.2021 12:00 - 14:00

Nachklausur

T9/Gr. Hörsaal

Knut Reinert

08.04.2021 10:00 - 12:00

Appointment series

Virtueller Raum 30

Knut Reinert

einmal, ab 05.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for AlDaBi

LV: 19400002

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2 SWS

Knut Reinert

Practice seminar

Submod: 0260cA1.3.2

Akt: 29.10.2020 12:00

Tue, 12:00 - 14:00 (Virtueller Raum 07)

Wed, 12:00 - 14:00 (Virtueller Raum 07)

Thu, 12:00 - 14:00 (Virtueller Raum 07)

Tue, 08:00 - 10:00 (Virtueller Raum 08)

Additional appointments

Appointment series

Virtueller Raum 07

Knut Reinert

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 07

Knut Reinert

einmal, ab 04.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 07

Knut Reinert

einmal, ab 05.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 08

Knut Reinert

einmal, ab 03.11.2020, 08:00 - 10:00 (15 Termine)

Mathematics for Bioinformaticians I

LV: 19400201

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4 SWS

Heike Siebert

Lecture

Submod: 0260cA2.1.1

Akt: 16.03.2021 12:00

Wed, 10:00 - 12:00 (Virtueller Raum 32)

Tue, 14:00 - 16:00 (Virtueller Raum 32)

Description

See German text.

Additional appointments

Klausur Mathe I (Bioinf)

Gr. Hörsaal (Raum B.001)

Heike Siebert

25.02.2021 16:00 - 18:00

Mathematik für Bioinformatiker I

T9/SR 005 Übungsraum

Heike Siebert

08.04.2021 14:00 - 16:00

Appointment series

Virtueller Raum 32

Heike Siebert

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 32

Heike Siebert

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Mathematics for Bioinformaticians I

LV: 19400202

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2 SWS

Heike Siebert

Frederik Laszlo Wieder

Practice seminar

Submod: 0260cA2.1.2

Akt: 03.11.2020 20:00

Wed, 16:00 - 18:00 (T9/Gr. Hörsaal)

Thu, 08:00 - 10:00 (Virtueller Raum 10)

Thu, 16:00 - 18:00 (T9/Gr. Hörsaal)

Fri, 12:00 - 14:00 (Virtueller Raum 01)

Additional appointments

Appointment series

T9/Gr. Hörsaal

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 04.11.2020, 16:00 - 18:00 (15 Termine)

Virtueller Raum 10

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 05.11.2020, 08:00 - 10:00 (15 Termine)

T9/Gr. Hörsaal

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 05.11.2020, 16:00 - 18:00 (15 Termine)

Virtueller Raum 01

Heike Siebert

Frederik Laszlo Wieder

einmal, ab 06.11.2020, 12:00 - 14:00 (15 Termine)

Bioinformatics Research Internship

LV: 19400432

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0 SWS

No lecturers

Research Internship

Submod: 0262bA1.6.1

Akt: 14.10.2020 11:35

Algorithmic Bioinformatics

LV: 19401201

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4 SWS

Knut Reinert

Martin Vingron

Lecture

Submod: 0260cA1.5.1

Akt: 09.03.2021 14:09

Mon, 12:00 - 14:00 ()

Wed, 10:00 - 12:00 ()

Wed, 10:00 - 12:00 (Virtueller Raum 35)

Mon, 12:00 - 14:00 (Virtueller Raum 35)

Description

Please see German description.

Additional appointments

Algorithmische Bioinformatik

Knut Reinert

Martin Vingron

24.02.2021 10:00 - 12:00

Klausur

Gr. Hörsaal (Raum B.001)

Knut Reinert

Martin Vingron

24.02.2021 16:00 - 18:00

Nachklausur

T9/Gr. Hörsaal

Knut Reinert

Martin Vingron

07.04.2021 10:00 - 12:00

Appointment series

Knut Reinert

Martin Vingron

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

Knut Reinert

Martin Vingron

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Martin Vingron

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Martin Vingron

einmal, ab 02.11.2020, 12:00 - 14:00 (15 Termine)

Ü: Algorithmic Bioinformatics

LV: 19401202

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2 SWS

Knut Reinert

Martin Vingron

Practice seminar

Submod: 0260cA1.5.2

Akt: 18.06.2021 14:00

Tue, 14:00 - 16:00 (Virtueller Raum 30)

Tue, 12:00 - 14:00 (Virtueller Raum 31)

Tue, 16:00 - 18:00 (Virtueller Raum 35)

Additional appointments

Appointment series

Virtueller Raum 30

Knut Reinert

Martin Vingron

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Virtueller Raum 31

Knut Reinert

Martin Vingron

einmal, ab 03.11.2020, 12:00 - 14:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Martin Vingron

einmal, ab 03.11.2020, 16:00 - 18:00 (15 Termine)

Prak: Algorithmic Bioinformatics

LV: 19401230

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2 SWS

No lecturers

Internship

Submod: 0260cA1.5.3

Akt: 14.10.2020 11:35

P: Algorithms and Data Structures

LV: 19401330

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4 SWS

Chris Bielow

Internship

Submod: 0260cA1.6.1

Akt: 29.10.2020 12:00

Tue, 08:00 - 10:00 (Virtueller Raum 07)

Mon, 12:00 - 14:00 (Virtueller Raum 07)

Mon, 14:00 - 16:00 (Virtueller Raum 07)

Mon, 10:00 - 12:00 (Virtueller Raum 07)

Description

Additional appointments

Praktikum: Algorithmen und Datenstrukturen

Virtueller Raum 17

Chris Bielow

02.11.2020 14:00 - 16:00

Appointment series

Virtueller Raum 07

Chris Bielow

einmal, ab 10.11.2020, 08:00 - 10:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 09.11.2020, 12:00 - 14:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 09.11.2020, 14:00 - 16:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 16.11.2020, 10:00 - 12:00 (7 Termine)

Virtueller Raum 07

Chris Bielow

einmal, ab 09.11.2020, 10:00 - 12:00 (7 Termine)

Molecular Networks

LV: 19401801

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2 SWS

Alexander Bockmayr

Lecture

Submod: 0262bB3.1.1

Akt: 03.11.2020 14:00

Mon, 10:00 - 14:00 (Virtueller Raum 08)

Description

Additional appointments

Appointment series

Virtueller Raum 08

Alexander Bockmayr

einmal, ab 02.11.2020, 10:00 - 14:00 (15 Termine)

Practice seminar for Molecular Networks

LV: 19401802

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2 SWS

No lecturers

Practice seminar

Submod: 0262bB3.1.3

Akt: 03.11.2020 14:00

Bioinformatics Internship

LV: 19402433

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0 SWS

No lecturers

Professional Internship

Submod: 0261aA2.1.1

Akt: 14.10.2020 11:36

Journal Club Computational Biology

LV: 19402911

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2 SWS

Knut Reinert

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Mon, 14:00 - 16:00 (Virtueller Raum 34)

Description

Content:

Please sign up on the KVV pages (open "Site Browser" and look forJournal Club).

References

aktuelle Publikationen aus der Forschung

Additional information

Open for:

Master and PhD students

Additional appointments

Appointment series

Virtueller Raum 34

Knut Reinert

einmal, ab 02.11.2020, 14:00 - 16:00 (15 Termine)

Introduction to C++

LV: 19403720

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4 SWS

Sandro Andreotti

Chris Bielow

Course

Submod: 0261aA1.21.1

Akt: 29.10.2020 12:00

Tue, 10:00 - 12:00 (Virtueller Raum 08)

Tue, 13:00 - 15:00 (Virtueller Raum 08)

Tue, 15:00 - 17:00 (Virtueller Raum 08)

Mon, 13:00 - 15:00 (Virtueller Raum 07)

Tue, 13:00 - 15:00 (Virtueller Raum 07)

Tue, 15:00 - 17:00 (Virtueller Raum 07)

Mon, 15:00 - 17:00 (Virtueller Raum 07)

Mon, 10:00 - 12:00 (Virtueller Raum 08)

Mon, 13:00 - 15:00 (Virtueller Raum 08)

Mon, 15:00 - 17:00 (Virtueller Raum 08)

Description

Schedule

First Block: 26.10. - 30.10.2020 (before semester period)

Second Block: 08.03. - 19.03.2021 (after semester period)

    Basic language elements
    Creation of simple programs
    Compiler / Linker
    data types
    STL
     IO
    ...

2nd week: Deepening

object orientation
templates

Week 3: Mixed topics

    parallelization
    lambda expressions
    rValue References
    ....

Additional information

Additional appointments

Appointment series

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 10:00 - 12:00 (9 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 13:00 - 15:00 (9 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 15:00 - 17:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 13:00 - 15:00 (5 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 13:00 - 15:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 09.03.2021, 15:00 - 17:00 (9 Termine)

Virtueller Raum 07

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 15:00 - 17:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 10:00 - 12:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 13:00 - 15:00 (5 Termine)

Virtueller Raum 08

Sandro Andreotti

Chris Bielow

einmal, ab 26.10.2020, 15:00 - 17:00 (5 Termine)

Scientific Work in Bioinformatics

LV: 19403910

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2 SWS

Jochen Kruppa

Proseminar

Submod: 0261aA1.22.1

Akt: 29.10.2020 12:00

Tue, 10:00 - 12:00 (Virtueller Raum 34)

Welcome event MSc Bioinformatics

LV: 19404070

a.Publiziert

0 SWS

No lecturers

Begrüßungs- und Abschlussveranstaltung

Submod: E61aA1.1.1

Akt: 21.10.2020 17:12

Open science, data handling and ethical aspects in bioinformatics

LV: 19404611

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2 SWS

Thilo Muth

Seminar

Submod: 0262bB3.1.5

Akt: 04.11.2020 16:00

Wed, 10:00 - 12:00 (Virtueller Raum 08)

Description

Planned topics are as follows:

Open vs. closed Science: chances and risks of open science. Open access and traditional publishing.
Sustainable software development and reproducible research: open data and open source, code repositories, maintainability of software and code in the sciences
Laboratory information management systems: sample management, integration of instruments and application, data exchange
Bioinformatic workflows: Galaxy, Snakemake and KNIME
Containerized frameworks: Advantages of using Docker, Bioconda etc.
Information security and data protection: securing personalized data, relevance for data analyses in research, efficient handling guidelines of data security, potential issues with open science
Ethical issues, chances and risks of omics research: immense opportunities when manipulating genome information, novel ethical questions need to be asked, „right not to know“, danger of discrimination against individuals or groups based on genetic differences

Additional appointments

Appointment series

Virtueller Raum 08

Thilo Muth

einmal, ab 04.11.2020, 10:00 - 12:00 (15 Termine)

Foundations in Computer Science

LV: 19404901

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2 SWS

Knut Reinert

Svenja Mehringer

Sven Bönigk

Lecture

Submod: 0262cA1.1.1

Akt: 09.03.2021 14:08

Tue, 10:00 - 12:00 ()

Tue, 10:00 - 12:00 (Virtueller Raum 35)

Description

Additional appointments

Foundations in Computer Science

A3/Hs 001 Hörsaal

Knut Reinert

Svenja Mehringer

Sven Bönigk

23.02.2021 12:00 - 14:00

Klausur

Gr. Hörsaal (Raum B.001)

Knut Reinert

Svenja Mehringer

Sven Bönigk

23.02.2021 16:00 - 18:00

Nachklausur

T9/Gr. Hörsaal

Knut Reinert

Svenja Mehringer

Sven Bönigk

06.04.2021 10:00 - 12:00

Appointment series

Knut Reinert

Svenja Mehringer

Sven Bönigk

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Virtueller Raum 35

Knut Reinert

Svenja Mehringer

Sven Bönigk

einmal, ab 03.11.2020, 10:00 - 12:00 (15 Termine)

Practice seminar: Foundations in Computer Science

LV: 19404902

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2 SWS

Knut Reinert

Practice seminar

Submod: 0262cA1.1.2

Akt: 20.04.2021 14:00

Tue, 12:00 - 14:00 (Virtueller Raum 30)

Foundations in Mathematics and Statistics

LV: 19405001

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2 SWS

Alexander Bockmayr

Lecture

Submod: 0262cA1.2.1

Akt: 06.11.2020 12:00

Thu, 10:00 - 12:00 (Virtueller Raum 30)

Description

Additional appointments

Appointment series

Virtueller Raum 30

Alexander Bockmayr

einmal, ab 05.11.2020, 10:00 - 12:00 (15 Termine)

Practice seminar for Foundations in Mathematics and Statistics

LV: 19405002

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2 SWS

Alexander Bockmayr

Therese Lorenz

Practice seminar

Submod: 0262cA1.2.2

Akt: 20.04.2021 14:00

Thu, 14:00 - 16:00 (Virtueller Raum 31)

Thu, 12:00 - 14:00 (Virtueller Raum 30)

SU: Introduction to Focus Areas

LV: 19405106

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2 SWS

Tim Conrad

Seminar-style instruction

Submod: 0262cA1.4.2

Akt: 28.09.2020 12:00

Mon, 12:00 - 14:00 (T9/Gr. Hörsaal)

Introduction to Focus Areas

LV: 19405152

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2 SWS

Tim Conrad

Submod: 0262cA1.4.1

Akt: 10.03.2021 18:00

Mon, 10:00 - 12:00 (T9/Gr. Hörsaal)

Phylogeny Inference and Application

LV: 19405501

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2 SWS

Prabhav Kalaghatgi

Lecture

Submod: 0262bB3.1.1

Akt: 29.10.2020 12:00

Tue, 14:00 - 16:00 (Virtueller Raum 08)

Description

Course content:

The course is thematically divided into two parts:

Inferring evolutionary relationships:

Methods for inferring phylogenetic trees will be introduced using the following topics

Mechanisms of genome evolution
Combinatorial optimization problems in phylogenetic tree inference
Using minimum spanning trees to infer large phylogenetic trees
Methods for rooting phylogenetic trees
Limitations of phylogenetic trees, and alternate network-based models

Learning evolutionary dynamics using trees:

Additionally, we will cover applications of phylogenetic trees such as

Time-calibrated trees using molecular clocks
Identifying genomic regions under selection
Inferring migration history
Virus epidemiology
Tumor heterogeneity

Prerequisites:

The course is designed for bioinformaticians, and computer scientists interested in biology.

Students will be using current software for their tutorials (Uebungen). Programming assignments are expected to be submitted as jupyter notebooks.

A familiarity with python is helpful but not necessary as it will be covered in the initial tutorials.

Additional appointments

Appointment series

Virtueller Raum 08

Prabhav Kalaghatgi

einmal, ab 03.11.2020, 14:00 - 16:00 (15 Termine)

Practice seminar for Phylogeny Inference and Application

LV: 19405502

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2 SWS

Prabhav Kalaghatgi

Practice seminar

Submod: 0262bB3.1.3

Akt: 29.10.2020 12:00

Tue, 16:00 - 18:00 (Virtueller Raum 08)

Biochemical networks and disease

LV: 19405911

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2 SWS

Jana Wolf

Seminar

Submod: 0262bB3.1.5

Akt: 29.10.2020 12:00

Thu, 10:00 - 12:00 (Virtueller Raum 08)

S Umweltmetagenomik (S)

LV: 23780

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.5.1

Akt: 09.09.2020 16:00

Description

References

Optional: Taberlet, Bonin, Zinger, Coissac. 2018. Environmental DNA for Biodiversity Research and Monitoring. Oxford University Press. https://git.metabarcoding.org/obitools/obitools/wikis/home

Additional information

Registration in Campus Management only for participants

Additional information for students

The course starts 17 August 2020, 10:00; interested students should contact Camila Mazzoni (mazzoni@izw-berlin.de) and Michael Monaghan (m.monaghan@fu-berlin.de)

Additional appointments

Appointment series

Statistics I for biosciences

LV: 60100001

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2 SWS

Jochen Kruppa

Lecture

Submod: 0260cA2.5.1

Akt: 12.09.2020 06:00

Mon, 16:00 - 18:00 (Virtueller Raum 09)

Practice seminar for Statistics I for biosciences

LV: 60100002

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2 SWS

Jochen Kruppa

Practice seminar

Submod: 0260cA2.5.2

Akt: 01.10.2020 14:00

Wed, 14:00 - 16:00 (Virtueller Raum 35)

Current topics in cell physiology

LV: 60100613

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.1.1

Akt: 12.09.2020 06:00

Description

Block course during the semester break. The exact time will be determined by doodle (Duration: 2 weeks; all day)

Location: Charité Campus Benjamin Franklin (Steglitz, Hindenburgdamm 30), Institut für Klinische Physiologie

For further information: http://klinphys.charite.de/bioinfo/

or mail to Dorothee Günzel

These cells will be analyzed in the confocal laser scanning microscope and by other techniques. The results will be evaluated and interpreted in the context of the original hypitheses.

The experimental part will be flanked by seminars introducing the theoretical background and the various techniques.

The exact program of this course depends on the actual research of the institute and is tightly connected to our actual projects.

References

Additional information

Please bring lab coat, if available!

Additional appointments

Appointment series

Current questions of structural Bioinformatics

LV: 60101113

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4 SWS

No lecturers

Lab Seminar

Submod: 0262bB2.7.1

Akt: 12.09.2020 06:00

Description

Welcome to the practical course, please look into the link for the theory module for the basic idea about the course.

Structure of the course:

Topic for practical lectures are:

Introductory session
Homology modeling
3D molecular superimposition of small molecules
In silico screening, molecular fingerprints and chemical similarity
Natural products and fragments based drug discovery
In silico toxicity prediction
Personalized medicine

Website: http://bioinf-apache.charite.de/main/course_practical.php

Additional information

Max.no of particpants: 12

Language of instructtion: English

Practical course: 11.03. - 22.04.2019, 7 days during 2 weeks, daily 10 am - 5 pm

Preliminary meeting:

Date: 11.03.2019
Time: 11.00 am
Place: Campus Mitte, Philippstr. 12, 10115 Berlin

website : http://bioinf-apache.charite.de/main/course_practical.php

Additional appointments

Appointment series

Pathophysiology: methods and findings

LV: 60101311

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2 SWS

No lecturers

Seminar

Submod: 0262bB3.1.5

Akt: 12.09.2020 06:00