Research Group:	Algorithms in Bioinformatics
Lecturer/Tutor:	Auch, Richter, Klöpper
Amount:	2 SWS
Ranges:	recommended for students in the 4th semester of bioinformatics
Test subjects:	Vordiplom

Start:	Tue, 25. April 2006, 9:00st.
Preliminary discussion:	Tue, 25. April 2006, 9:00st
Location:	A302, Sand 13.
Subscription:	Write an email with the preferred subject of your talk to A. Auch (restricted to 12 participants) The course is full! No more subscriptions are possible.
Consultation hours:	by appointment
Homepage:	http://www-ab.informatik.uni-tuebingen.de/teaching/ss06/proseminar/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, Computer Based Gene Predictions, Genome Rearrangements, Physical Mapping, DNA Fragment Assembly, Microarrays (DNA Chips). The studends are supposed to work out and perform a approx. 35-45 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. Important Dates: 2-3 weeks before the presentation, the student has to contact the tutor. One week before the presentation the student has to hand out a final version of the required 10-15 page report (a summary of the topic in style of a scientific publication). The report should describe and discuss the topic logically, didactically, and structured. One week before the presentation the student has to hand out a pre-version of the slides On friday before the talk, the final version of the slides are required. General goals of a proseminar: click here (overview in German)
Literature
will be given in the proseminar

Language German and English are equally admitted languages for report, slides, and the presentations. Layout The layout of the report should be geared 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 figures, 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	Carina Walter	Basic concepts of molecular Biology	A. Auch	09.05.2006
2	Roland Keller	Pairwise sequence alignment	T. Kloepper	16.05.2006
3	Daniel Lehle	Multiple sequence alignment	A. Auch	23.05.2006
4	Johannes Stephan	BLAST	A. Auch	30.05.2006
5	Stephan Körner	Phylogeny 1	A. Auch	13.06.2006 08:00
6	Martina Krause	Phylogeny 2	T. Kloepper	13.06.2006 09:00
7	Benjamin Albrecht	Genome rearrangements	D. Richter	20.06.2006
8	Thomas Bonfert	Computer-aided gene prediction	A. Auch	27.06.2006
9	Stefan Raue	Micro-arrays (DNA-chips)	A. Auch	04.07.2006
10	Christoph Schmidt	Physical mapping	D. Richter	11.07.2006
11	Johannes Wollnik	RNA structure prediction	D. Richter	18.07.2006
12	Philipp Gaiser	DNA fragment assembly. After the talk: concluding discussion and handing out of certificates	D. Richter	25.07.2006

Personal Pages: A. Auch, D. Richter, T. Kloepper