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Introduction to bioinformatics

Proseminar "Introduction to Bioinformatics", SS 2004

Research Group: Algorithmens in Bioinformatics
Lecturer/Tutor: Delgado, Rausch
Amount: 2 SWS
Ranges: recommended for students in the 4th semester of bioinformatics
Test subjects: Vordiplom
 
Start: Tue, 20. April 2004, 9:00 a.m.
Preliminary discussion: Tue, 20. April 2004, 9:00 a.m.
Location:
Lecture Hall A301, Sand 1/13.
Subscription:
By inscrption in a list next to room 324b (2nd floor) in Sand 14.
Consultation hours: by appointment
Homepage: http://www-ab.informatik.uni-tuebingen.de/teaching/ebi/ss04/welcome.html
Rotation: every summer semester
Conditions for admission: none
 
Description

In this seminar some basic algorithms in bioinformatics are addressed. Topics are: Basic Concepts in Molecular Biology, Pairwise Sequence Alignment, Multiple Sequence Alignment, BLAST, Phylogenetic Tree Reconstruction Methods (twin-session), Computer Based Gene Predictions, Genome Rearrangements, Physical Mapping, Fragment Assembly, Microarrays (DNA Chips).
The studends are supposed to work out and perform a approx. 35 min. presentation to a given topic based on the given literature.
In case of problems during the preparation the students should contact their tutor for help. Two weeks before the presentation the student has to hand out a pre-version of the required 10 page report (a summary of the topic in style of a scientific publication) and a pre-version of the slides; one week before the talk the final version is required.
The report should describe and discuss the topic logically, didactically, and structured.

Literature

will be given in the proseminar

General goals of a proseminar: click here (overview in German)
 

Language

German and English are equally admitted languages for report, slides, and the presentations.

Layout

The layout of the report should be geard to the template documents that can be found here. Additionally the first page and the first slide should contain the title of the proseminar and the presentation, the student's name and email address and the tutor's name, and the date.

Citing and quotation

If formulations or whole sentences are taken verbally from the references it has to be marked as a citation; this is also the case if the reference is a www document, there the exact url and the author of the text has to be cited.

Assessment

The quality of the presentaton and the report will be assessed in respect of content and rhetoric, and a total grade will be given by the tutors.
 


Overview on speakers, subjects, advisors and dates of talks (preliminary overview, the order of talks may still be changed)

No.
Speaker
Title
Advisor Date
1
Thomas Schmid
Basic concepts of molecular Biology
C. Rausch
04.05.04
2
Vassilena Gaykova Pairwise sequence alignment
O. Delgado
11.05.04
3
Stefanie Mayer Multiple sequence alignment
O. Delgado 18.05.04
4
Stefan Rink BLAST
O. Delgado 25.05.04
-

- Holiday (Pentecost) -
-
01.06.04
5
Armin Walter Genome rearrangements
O. Delgado 08.06.04
-

Cancelled! - 15.06.04
6
Gabrielle Doan,  Jörg Hagmann Introduction to phylogeny   (2 speakers, 8-10h!)
C. Rausch 22.06.04
7,8
Vipul Patel,  Markus Beck Computer-aided gene prediction,  Physical mapping    (2 talks, 8-10h!)
O. Delgado,  C. Rausch 29.06.04
9,10
Florian Battke,  Benjamin Lenz Micro-arrays (DNA-chips),  DNA Computing    (2 talks, 8-10h!)
C. Rausch 06.07.04
11
Nastasja Trunk RNA structure prediction
C. Rausch 13.07.04
12
Matthias Eckert DNA fragment assembly. After the talk: concluding discussion and handing out of certificates
O. Delgado 20.07.04






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