Difference between revisions of "MBV-INFX410"

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== Bioinformatics for Molecular Biology  ==
 
== Bioinformatics for Molecular Biology  ==
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'''''All information for 2018 is found here:''''' '''[[MBV-INFX410 2018|MBV-INFX410 2018 wiki]]. '''''Course responsible is Jon Bråte (e-mail: jon.brate@ibv.uio.no) and course administrator Torill Rørtveit (e-mail: torill.rortveit@ibv.uio.no).''
  
This is the wiki for the courses [http://www.uio.no/studier/emner/matnat/ibv/MBV-INF4410 MBV-INF4410], [http://www.uio.no/studier/emner/matnat/ibv/MBV-INF9410 MBV-INF9410], and [http://www.uio.no/studier/emner/matnat/ibv/MBV-INF9410A MBV-INF9410A] offered by the Department of Molecular Biosciences and Department of Informatics at the University of Oslo (UiO).  
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'''''All information for 2017 is found here:''''' [[MBV-INFX410 2017|'''MBV-INFX410 2017 wiki''']]'''. '''''Course responsible is Jon Bråte (e-mail: jon.brate@ibv.uio.no) and course administrator Torill Rørtveit (e-mail: torill.rortveit@ibv.uio.no).''
  
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. 
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'''''All information for 2016 is found here:''''' [[MBV-INFX410 2016|'''MBV-INFX410 2016 wiki''']]'''. '''''Course responsible is Jon Bråte (e-mail: jon.brate@ibv.uio.no) and course administrator Torill Rørtveit (e-mail: torill.rortveit@ibv.uio.no).''
  
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.
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'''''All information for 2015 is found here:''''' [[MBV-INFX410 2015|'''MBV-INFX410 2015 wiki''']]
  
=== Course description  ===
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This is the wiki for the courses [http://www.uio.no/studier/emner/matnat/ibv/MBV-INF4410 MBV-INF4410] and [http://www.uio.no/studier/emner/matnat/ibv/MBV-INF9410 MBV-INF9410] offered by the Department of Biosciences and Department of Informatics at the University of Oslo (UiO). Both MBV-INF4410 (M.Sc. level) and MBV-INF9410 (Ph.D. level) are 10 study point courses. The 8 study points variant of the course (MBV-INF9410A) will no longer be given after 2013.
  
This two week, 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) at least three weeks before the start of the course.''
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The course consists of five weeks of lectures, exercises, obligatory assignments, and a take-home exam (one week). Obligatory assignments must be completed and approved before the exam and in the same semester. An additional, limited, oral examination may be arranged in cases where this is necessary for the student evaluation. 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.  
  
Links to the web pages for the years 2009-2011 is found [http://bioinformatics.uio.no/wiki/Bioinformatics_course here]. The course will in 2012 have a similar format as previous years, but with some few changes.
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=== Course description  ===
 
 
*New course responsible is [http://folk.uio.no/jonkl Dr. Jon K. Lærdahl] (jonkl@medisin.uio.no) from Centre for Molecular Biology and Neuroscience ([http://www.ous-research.no/rognes CMBN]) and Department of Medical Microbiology, Oslo University Hospital (OUH) - Rikshospitalet. Lærdahl is also employed by the [http://core.rr-research.no/bioinformatics Bioinformatics Core Facility] at OUH and UiO.
 
*There will be some lectures focusing on the Unix shell, scripting and the Python programming language.
 
*Examination (home exam) and written assignment will be in a similar format as previous years.  
 
  
=== Contacts  ===
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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 the course administrator before you sign up for the course.''
  
Jon K. Lærdahl (Course coordinator) - e-mail: jonkl@medisin.uio.no, phone: +47 99 507 335
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'''Course responsible in 2016, 2917, and 2018 is Jon Bråte (e-mail: jon.brate@ibv.uio.no), from the Department of Biology, UiO.'''
  
Torill Rørtveit (Course administrator, registration) - e-mail: torill.rortveit@imbv.uio.no<br>
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Course responsible for the years 2012 to 2015 was [http://folk.uio.no/jonkl Dr. Jon K. Lærdahl] (jonkl@medisin.uio.no) from the Department of Microbiology, Oslo University Hospital (OUH) - Rikshospitalet. Lærdahl was also employed by the [http://www.mn.uio.no/ifi/english/research/networks/clsi CLS initiative] at UiO and is employed by the Bioinformatics Core Facility ([http://core.rr-research.no/bioinformatics CF]) at OUH and UiO.
  
=== Bioinformatics mailing list for the Oslo region  ===
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The wikis for the [[MBV-INFX410 2013|2013]], [[MBV-INFX410 2014|2014]], and [[MBV-INFX410 2015|2015]] versions of the course are found behind these links.
  
The mailing list for computational biology and bioinformatics in the Oslo region is cbo-all@usit.uio.no. The list has approximately 330 members. The list is used to distribute news about seminars, positions, courses, meetings and other topics that might be of interest to students and researchers with an interest in computational life science in south-eastern Norway. If you want to receive e-mails that are sent to the list, sign up here  
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Links to the web pages for the years 2009-2011 is found [http://bioinformatics.uio.no/wiki/Bioinformatics_course here] and for 2012 [https://wiki.uio.no/projects/MBV-INFX410/index.php/Main_Page here].&nbsp;
  
[https://sympa.uio.no/usit.uio.no/info/cbo-all https://sympa.uio.no/usit.uio.no/info/cbo-all]
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=== Contacts ===
 
 
by following the link termed "Subscribe".
 
 
 
=== Useful links ===
 
 
 
Trond Hasle Amundsen's [http://www.uio.no/tjenester/it/maskin/linux/hjelp/tips/guide.html Local guide to Linux and Unix]
 
 
 
EMBnet [http://www.embnet.org/files/WebFM/PPRPC_group/QuickGuides/guideUNIX.pdf Quick guide Unix]
 
 
 
UCSC [http://genome.ucsc.edu Genome browser]
 
 
 
Free [http://www.openhelix.com/ucsc UCSC Genome browser tutorial]&nbsp;&nbsp; from OpenHelix
 
 
 
Portal to [http://galaxyproject.org Galaxy]
 
  
[http://wiki.galaxyproject.org/Learn Galaxy 101 and other Galaxy screencasts/tutorials]
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Jon Bråte (Course coordinator) - e-mail: jon.brate@ibv.uio.no
  
The Genomic [http://hyperbrowser.uio.no/hb HyperBrowser]
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Torill Rørtveit (Course administrator, registration) - e-mail: torill.rortveit@ibv.uio.no

Revision as of 15:21, 14 November 2018

Bioinformatics for Molecular Biology

All information for 2018 is found here: MBV-INFX410 2018 wiki. Course responsible is Jon Bråte (e-mail: jon.brate@ibv.uio.no) and course administrator Torill Rørtveit (e-mail: torill.rortveit@ibv.uio.no).

All information for 2017 is found here: MBV-INFX410 2017 wiki. Course responsible is Jon Bråte (e-mail: jon.brate@ibv.uio.no) and course administrator Torill Rørtveit (e-mail: torill.rortveit@ibv.uio.no).

All information for 2016 is found here: MBV-INFX410 2016 wiki. Course responsible is Jon Bråte (e-mail: jon.brate@ibv.uio.no) and course administrator Torill Rørtveit (e-mail: torill.rortveit@ibv.uio.no).

All information for 2015 is found here: MBV-INFX410 2015 wiki

This is the wiki for the courses MBV-INF4410 and MBV-INF9410 offered by the Department of Biosciences and Department of Informatics at the University of Oslo (UiO). Both MBV-INF4410 (M.Sc. level) and MBV-INF9410 (Ph.D. level) are 10 study point courses. The 8 study points variant of the course (MBV-INF9410A) will no longer be given after 2013.

The course consists of five weeks of lectures, exercises, obligatory assignments, and a take-home exam (one week). Obligatory assignments must be completed and approved before the exam and in the same semester. An additional, limited, oral examination may be arranged in cases where this is necessary for the student evaluation. 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.

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 the course administrator before you sign up for the course.

Course responsible in 2016, 2917, and 2018 is Jon Bråte (e-mail: jon.brate@ibv.uio.no), from the Department of Biology, UiO.

Course responsible for the years 2012 to 2015 was Dr. Jon K. Lærdahl (jonkl@medisin.uio.no) from the Department of Microbiology, Oslo University Hospital (OUH) - Rikshospitalet. Lærdahl was also employed by the CLS initiative at UiO and is employed by the Bioinformatics Core Facility (CF) at OUH and UiO.

The wikis for the 2013, 2014, and 2015 versions of the course are found behind these links.

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

Contacts

Jon Bråte (Course coordinator) - e-mail: jon.brate@ibv.uio.no

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