Difference between revisions of "MBV-INFX410 2013"

Revision as of 15:13, 6 June 2013

Bioinformatics for Molecular Biology - 2013

Please bookmark this page. All future changes or announcements for the 2013 course will be posted on this page.

This is the wiki for the courses MBV-INF4410, MBV-INF9410, and MBV-INF9410A offered by the Department of Molecular Biosciences and Department of Informatics at the University of Oslo (UiO).

The course consists of five weeks of lectures, exercises, a take-home exam (one week), and a partial take-home exam/assignment (rougly 20 pages). The course is open also for non-UiO students. It is only necessary to be physically present in Oslo for certain parts of the course. 

Ph.D. level students may opt to take the course without the partial take-home exam/assignment for only 8 study points (MBV-INF9410A). Both MBV-INF4410 (M.Sc. level) and MBV-INF9410 (Ph.D. level) are 10 study point courses.

Course description

This intensive course will introduce students to bioinformatics resources and tools for molecular biology research. All the lecturers are among the top researchers working within the fields of bioinformatics and computational biology in the Oslo region. Students must bring their own lap-top for in-course demonstrations as well as for practical lab exercises. The course is mainly intended for biology students, but also for computer science students or students from other fields of science with an interest for and some experience with molecular biology. No prior background in bioinformatics or computer science is required. All students should have a basic understanding of molecular biology, at least roughly corresponding to 5-10 university study points in molecular biology, biochemistry, or similar. If you are uncertain if your biology background is strong enough, please contact Jon (See contact details below) before you sign up for the course.

Course responsible is Dr. Jon K. Lærdahl (jonkl@medisin.uio.no) from the Department of Microbiology, Oslo University Hospital (OUH) - Rikshospitalet. Lærdahl is also employed by the CLS initiative at UiO and the Bioinformatics Core Facility (CF) at OUH and UiO.

The wiki for the 2013 version of the course is found here.

Links to the web pages for the years 2009-2011 is found here and for 2012 here. 

Notes on the course format: The course has previously been given as an intensive course over two weeks with a take-home exam in the 3rd to 4th week. A take-home assignment was also a compulsory part of the 10 study points versions of the course. The compact format was ideal for students coming from outside Oslo, but it was also exhausting for students and lecturers. It also gave little time to digest and dive more deeply into the various topics presented in the course. In 2013, the course will be given in weeks 46-51. However, for students coming from outside Oslo it will only be necessary to be physically present in Oslo for parts of the course, i.e. the lectures/exercises and, if practically possible, the strudents presentation day. The schedule presented below is preliminary and tentative. There might be small adjustments to this schedule.   

Contacts

Jon K. Lærdahl (Course coordinator) - e-mail: jonkl@medisin.uio.no, phone: +47 99 507 335

Torill Rørtveit (Course administrator, registration) - e-mail: torill.rortveit@ibv.uio.no

Useful links

Trond Hasle Amundsen's Local guide to Linux and Unix

EMBnet Quick guide Unix

UCSC Genome browser

Free UCSC Genome browser tutorial   from OpenHelix

Portal to Galaxy

Galaxy 101 and other Galaxy screencasts/tutorials

The Genomic HyperBrowser