Difference between revisions of "Bioinformatics"

From irefindex
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<pre>
 
<pre>
 
This page is under construction.
 
This page is under construction.
−
It is intended to collect listings and links to bioinformatics research groups, courses and services at the University of Oslo other institutions in the Oslo region.
+
It is intended to collect listings and links to bioinformatics services, training and courses, email groups and research groups at the University of Oslo and other institutions in the Oslo region.
 
Suggested changes or additions can be sent to ian.donaldson@biotek.uio.no.
 
Suggested changes or additions can be sent to ian.donaldson@biotek.uio.no.
 
</pre>
 
</pre>
  
  
−
==Bioinformatics Research Groups==
 
  
  
 +
 +
 +
==Bioinformatics Services==
  
 
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
 
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
−
|+ '''Bioinformatics Research Groups'''
+
|+ '''Bioinformatics Services'''
−
!width="150"|Group Leader
+
!width="150"|Service
 
!width="150"|Contact
 
!width="150"|Contact
 
!width="250"|Link
 
!width="250"|Link
−
!width="350"|Specialization
+
!width="350"|Description
 +
|-
 +
|style="background:SteelBlue; color:white" colspan="5" align="center"| -
 +
|-
 +
|Bioinformatics core facility
 +
||ehovig at ifi.uio.no
 +
+47 22935416
 +
||http://core.rr-research.no/index.php?section=3
 +
||The Bioinformatics Core Facility established at Rikshospitalet-Radiumhospitalet (RR) will provide its users at RR and the University of Oslo with a range of services within bioinformatics, including analysis of DNA and protein sequences, analysis of microarray data, protein structure analysis and access to useful databases and web services
 
|-
 
|-
−
|style="background:SteelBlue; color:white" colspan="4" align="center"| -
+
|FUGE Bioinformatics Help Desk
 +
||contact@bioinfo.no
 +
 
 +
Ståle Nygård +47 951 29 127
 +
||http://www.bioinfo.no/help-desk
 +
||The platform can assist researchers with bioinformatics analyses and programming tasks.  See the web-site for more details.
 
|-
 
|-
−
|Ian Donaldson
+
|Bioportal
−
||ian.donaldson@biotek.uio.no
+
||Kamran Shalchian-Tabrizi
−
||http://donaldson.uio.no  
+
 
−
||Protein-protein interaction databases,  
+
kamran.shalchian-tabrizi@bio.uio.no
−
biomedical text mining and animation of cellular pathways.
+
||http://www.bioportal.uio.no/about.php
 +
||The Bioportal at University of Oslo is a web-based service platform that provides access to applications and the high-performance computing resources required to run them.  Applications include those for phylogenomic analysis, population genetics and high-throughput sequence analysis. See the web-site for more details.
 
|-
 
|-
−
|
+
|EMBNet Norway
−
||
+
||George Magklaras
−
||
+
 
−
||
+
admin@embnet.uio.no
 +
||http://www.no.embnet.org/
 +
||The Norwegian EMBnet node offers a variety of services to the Bioinformatics community including access to updated biological sequence databases, bioinformatics sequence analysis tools and sata storage capabilities. See the web-site for more details.
 
|-
 
|-
−
|
+
|Research Computing Services group
−
||
+
||Hans Eide
−
||
+
||http://www2.usit.uio.no/suf/vd/
−
||
+
||High-Performance Computing Group 
 
|-
 
|-
 
|}
 
|}
  
  
−
==Bioinformatics Courses and Programmes==
+
==Bioinformatics Training and Courses==
  
 
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
 
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
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−
==Bioinformatics Services==
+
 
 +
 
 +
==Bioinformatics Mailing Lists==
  
 
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
 
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
−
|+ '''Bioinformatics Services'''
+
|+ '''Bioinformatics Mailing Lists'''
−
!width="150"|Service
+
!width="150"|List name
 
!width="150"|Contact
 
!width="150"|Contact
 
!width="250"|Link
 
!width="250"|Link
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|-
 
|-
 
|style="background:SteelBlue; color:white" colspan="5" align="center"| -
 
|style="background:SteelBlue; color:white" colspan="5" align="center"| -
 +
|-
 +
|cbo
 +
||cbo-all@usit.uio.no
 +
||https://sympa.uio.no/usit.uio.no/info/cbo-all
 +
||Future courses, talks and news related to bioinformatics in the Oslo region.
 +
|-
 +
|bioinfo
 +
||bioinfo.users@bioinfo.no
 +
||http://mailman.uib.no/listinfo/bioinfo.users.
 +
||Norwegian-wide bioinformatics email list.
 
|-
 
|-
 
|
 
|
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||
 
||
 
|-
 
|-
−
|
+
|}
 +
 
 +
==Bioinformatics Research Groups==
 +
 
 +
 
 +
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
 +
|+ '''Bioinformatics Research Groups'''
 +
!width="150"|Group Leader
 +
!width="150"|Contact
 +
!width="250"|Link
 +
!width="350"|Specialization
 +
|-
 +
|style="background:SteelBlue; color:white" colspan="4" align="center"| -
 +
|-
 +
|Ian Donaldson
 +
||ian.donaldson@biotek.uio.no
 +
||http://donaldson.uio.no
 +
||Protein-protein interaction databases,
 +
biomedical text mining and animation of cellular pathways.
 +
||
 +
|-
 +
|Ole-Christian Lingjærde
 +
||
 +
||
 +
||
 +
||
 +
|-
 +
|K.S. Jakobsen
 +
||
 +
||
 +
||Metagenomics. Genome analysis. High-throughput sequence assembly, annotation and SNP analysis. Comparative genomics.
 +
||
 +
|-
 +
|K. Shalchian-Tabrizi
 +
||
 +
||
 +
||
 +
||
 +
|-
 +
|A.B. Kolstø
 +
||
 +
||
 +
||
 +
||
 +
|-
 +
|T. Rognes
 +
||
 +
||
 +
||Computational analysis of genome sequences, DNA repair mechanisms, homology search tools, structural bioinformatics, modelling the structure of proteins, predicting the effect of mutations.
 +
||
 +
|-
 +
|H. Osmundsen
 
||
 
||
 
||
 
||
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||
 
||
 
|-
 
|-
−
|
+
|E. Hovig
 +
||
 +
||
 +
||Integrative and inferential genomics. DNA variation. DNA melting. Complex trait networks. Text mining. Chromatin genomics.
 
||
 
||
 +
|-
 +
|R. Skotheim/R. Lothe
 
||
 
||
 
||
 
||
 +
||Integrative cancer genomics, array bioinformatics and high-throughput sequencing.
 
||
 
||
 
|-
 
|-
−
|}
+
|A.L. Børresen-Dale
−
 
+
||
−
==Bioinformatics Mailing Lists==
+
||
−
 
+
||Breast cancer integrative genomics, array bioinformatics.
−
{|class="wikitable" style="text-align:left" border="1" cellpadding="5"
+
||
−
|+ '''Bioinformatics Mailing Lists'''
 
−
!width="150"|List name
 
−
!width="150"|Contact
 
−
!width="250"|Link
 
−
!width="350"|Description
 
 
|-
 
|-
−
|style="background:SteelBlue; color:white" colspan="5" align="center"| -
+
|H. Danielsen
 +
||
 +
||
 +
||Imaging
 +
||
 
|-
 
|-
−
|cbo
+
|J. Bjaalie
 +
||
 
||
 
||
 +
||Brain imaging, databases
 
||
 
||
−
||http://usit-lists.uio.no/mailman/listinfo/cbo-all@usit.uio.no/
 
−
||Future courses, talks and news related to bioinformatics in the Oslo region.
 
 
|-
 
|-
−
|bioinfo
+
|O. Andreassen
 +
||
 
||
 
||
 +
||GWAS
 
||
 
||
−
||http://mailman.uib.no/listinfo/bioinfo.users.
 
−
||Norwegian-wide bioinformatics email list.
 
 
|-
 
|-
 
|
 
|
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||
 
||
 
||
 
||
 +
|-
 +
|G. Christensen
 +
||
 +
||
 +
||Bayesian networks
 +
||
 +
|-
 +
|D. Undlien
 +
||
 +
||
 +
||Genetics, deep sequencing
 +
||
 +
|-
 +
|V. Kristensen
 +
||
 +
||
 +
||Breast cancer integrative genomics, array bioinformatics.
 
||
 
||
 
|-
 
|-
 
|}
 
|}

Revision as of 10:35, 7 January 2010

This page is under construction.
It is intended to collect listings and links to bioinformatics services, training and courses, email groups and research groups at the University of Oslo and other institutions in the Oslo region.
Suggested changes or additions can be sent to ian.donaldson@biotek.uio.no.




Bioinformatics Services

Bioinformatics Services
Service Contact Link Description
-
Bioinformatics core facility ehovig at ifi.uio.no

+47 22935416

http://core.rr-research.no/index.php?section=3 The Bioinformatics Core Facility established at Rikshospitalet-Radiumhospitalet (RR) will provide its users at RR and the University of Oslo with a range of services within bioinformatics, including analysis of DNA and protein sequences, analysis of microarray data, protein structure analysis and access to useful databases and web services
FUGE Bioinformatics Help Desk contact@bioinfo.no

Ståle Nygård +47 951 29 127

http://www.bioinfo.no/help-desk The platform can assist researchers with bioinformatics analyses and programming tasks. See the web-site for more details.
Bioportal Kamran Shalchian-Tabrizi

kamran.shalchian-tabrizi@bio.uio.no

http://www.bioportal.uio.no/about.php The Bioportal at University of Oslo is a web-based service platform that provides access to applications and the high-performance computing resources required to run them. Applications include those for phylogenomic analysis, population genetics and high-throughput sequence analysis. See the web-site for more details.
EMBNet Norway George Magklaras

admin@embnet.uio.no

http://www.no.embnet.org/ The Norwegian EMBnet node offers a variety of services to the Bioinformatics community including access to updated biological sequence databases, bioinformatics sequence analysis tools and sata storage capabilities. See the web-site for more details.
Research Computing Services group Hans Eide http://www2.usit.uio.no/suf/vd/ High-Performance Computing Group


Bioinformatics Training and Courses

Bioinformatics Courses and Programmes
Course Name and Code Contact Link Description
-
Bioinformatics for Molecular Biology

MBV-INF4410

MBV-INF9410

ian.donaldson@biotek.uio.no http://bioinformatics.uio.no/wiki/Bioinformatics_course

http://www.uio.no/studier/emner/matnat/molbio/MBV-INF4410/

http://www.uio.no/studier/emner/matnat/molbio/MBV-INF9410/

This two week, intensive course will introduce students to bioinformatics resources and tools for molecular biology research. Some of the best researchers in Norway will talk about their fields in general as well as their own work. Students are encouraged to bring a lap-top for in-course demonstrations as well as practical lab exercises. The course is intended for biology students as well as computer science students wishing to extend their knowledge of informatics problems in the biological domain. No prior background in bioinformatics or computer science is required.



Bioinformatics Mailing Lists

Bioinformatics Mailing Lists
List name Contact Link Description
-
cbo cbo-all@usit.uio.no https://sympa.uio.no/usit.uio.no/info/cbo-all Future courses, talks and news related to bioinformatics in the Oslo region.
bioinfo bioinfo.users@bioinfo.no http://mailman.uib.no/listinfo/bioinfo.users. Norwegian-wide bioinformatics email list.

Bioinformatics Research Groups

Bioinformatics Research Groups
Group Leader Contact Link Specialization
-
Ian Donaldson ian.donaldson@biotek.uio.no http://donaldson.uio.no Protein-protein interaction databases,

biomedical text mining and animation of cellular pathways.

Ole-Christian Lingjærde
K.S. Jakobsen Metagenomics. Genome analysis. High-throughput sequence assembly, annotation and SNP analysis. Comparative genomics.
K. Shalchian-Tabrizi
A.B. Kolstø
T. Rognes Computational analysis of genome sequences, DNA repair mechanisms, homology search tools, structural bioinformatics, modelling the structure of proteins, predicting the effect of mutations.
H. Osmundsen
E. Hovig Integrative and inferential genomics. DNA variation. DNA melting. Complex trait networks. Text mining. Chromatin genomics.
R. Skotheim/R. Lothe Integrative cancer genomics, array bioinformatics and high-throughput sequencing.
A.L. Børresen-Dale Breast cancer integrative genomics, array bioinformatics.
H. Danielsen Imaging
J. Bjaalie Brain imaging, databases
O. Andreassen GWAS
G. Christensen Bayesian networks
D. Undlien Genetics, deep sequencing
V. Kristensen Breast cancer integrative genomics, array bioinformatics.
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