Virtual Ribosome - a comprehensive DNA translation tool with
support for integration of sequence feature annotation
Rasmus Wernersson.
Nucl. Acids Res. 2006 34: W385-W388
PubMedID: 16845033
Web:
http://www.cbs.dtu.dk/services/VirtualRibosome/
FeatureMap3D - a tool to map protein features and sequence conservation onto homologous structures in the PDB
Rasmus Wernersson, Kristoffer Rapacki, Hans-Henrik Stærfeldt, Peter Wad Sackett, and Anne Mølgaard
Nucl. Acids Res. 2006 34: W84-W88
PubMedID: 16845115
Web:
http://www.cbs.dtu.dk/services/FeatureMap3D/
2005
Pigs in sequence space: A 0.66X coverage pig genome survey based on shotgun sequencing
Rasmus Wernersson*, Mikkel H Schierup*, Frank G Jorgensen, Jan Gorodkin, Frank Panitz, Hans-Henrik Staerfeldt, Ole F Christensen, Thomas Mailund, Henrik Hornshoj, Ami Klein, Jun Wang, Bin Liu, Songnian Hu, Wei Dong, Wei Li, Gane K-S Wong, Jun Yu, Jian Wang, Christian Bendixen, Merete Fredholm, Soren Brunak, Huanming Yang, Lars Bolund
BMC Genomics 2005, 6:70 (10 May 2005)
PubMedID: 15885146
Data download: www.piggenome.dk (moved from www.piggenome.org in 2006)
[Mirror]
[* = equal contributors]
New weakly expressed cell cycle regulated genes in yeast
Ulrik de Lichtenberg*, Rasmus Wernersson*, Thomas Skøt Jensen*,
Henrik Bjørn Nielsen, Anders Fausbøll, Peer Schmidt, Flemming Bryde Hansen,
Steen Knudsen and Søren Brunak
Yeast, 2005, Volume 22, Issue 15 , Pages 1191 - 1201.
PubMedID: 16278933
Web:
http://www.cbs.dtu.dk/cellcycle/ (PDF + data is located here)
[* = equal contributors]
OligoWiz 2.0 - integrating sequence feature annotation into design of microarray probes
Rasmus Wernersson and Henrik Bjørn Nielsen.
Nucleic Acids Research, 2005, Vol. 33, Web Server issue W611-W615
PubMedID: 15980547
Web:
http://www.cbs.dtu.dk/services/OligoWiz2/
FeatureExtract - extraction of sequence annotation made easy.
Rasmus Wernersson.
Nucleic Acids Research, 2005, Vol. 33, Web Server issue W567-W569
PubMedID: 15980537
Web:
http://www.cbs.dtu.dk/services/FeatureExtract/
2003
RevTrans - Constructing alignments of coding DNA from aligned amino acid sequences.
Rasmus Wernersson and Anders Gorm Pedersen.
Nucl. Acids Res., 2003, 31(13), 3537-3539.
PubMedID: 12824361
Web:
http://www.cbs.dtu.dk/services/RevTrans/
Design of oligonucleotides for microarrays and perspectives for design
of multi-transcriptome arrays.
Henrik Bjørn Nielsen, Rasmus Wernersson and Steen Knudsen.
Nucleic Acids Research, 2003, Vol. 31, No. 13 3491-3496
PubMedID: 12824351
Web:
http://www.cbs.dtu.dk/services/OligoWiz/
Presentations
Seminar: Assessment and exams in education (Held at the IT University Oct 21st, 2010)
Invited talk:Presenting our experiences from implementing an online exam with
open internet access for the "Introduction to Bioinformatics" course at DTU.
Links:
Seminar programme |
Abstract to my talk
ISMB 2005
Advanced Micro-array Probe Design Using OligoWiz 2.0 (Software demo)
Links:
Short abstract |
Detailed abstract (pdf)
Pig Genome Sequencing Consortium Yearly Meeting, May 2005
Developments in the Pig Genome Datawarehouse, Aspects of the BMC
paper, and (pig) oligo design.
2nd YSBN workshop, Copenhagen May 14-16, 2004
Presenting the Systems Biology work at the Center for Biological Sequence Analysis
Links: YSBN website
Pig Genome Sequencing Consortium Yearly Meeting, March 2004
The CBS data warehouse and preliminary scientific results
ISMB 2003
OligoWiz: A powerful, flexible yet easy-to-use tool for designing
oligonucleotides for DNA microarrays (Software demo)
Links:
Abstract |
Slides (pdf)
Bioinformatics 2003
OligoWiz - A Flexible Design Tool for Microarray Probes
Teaching
2010
Course 27611: Introduction to Bioinformatics
- Lektionsplan 2010
Role: Course organizer, main teacher.
Course 27622: Introduction to Bioinformatics - Turbo version
- Course programme 2010
Role: Course organizer, main teacher.
Inter-University Course: Bioinformatics for Human Biologists
- Course programme 2010
Role: Course organizer, main teacher.
(Run together with University of Copenhagen - Master-level course for students at the Human Biology study line).
Inter-University Course: Bioinformatik - IT og Sundhed
- Course programme 2010
Role: Teacher.
(Run together with University of Copenhagen - Bachelor-level course for students at the "IT og Sundhed" study line).
Course for high-school teachers:
Efteruddannelseskursus i Bioinformatik til gymnasiet
- Lektionsplan - Hold 1
Role: Course co-organizer and main teacher (both together with Anders Gorm Pedersen)
This couse is a new type of outreach for teaching bioinformatics to high-school (gymnasium) teachers.
The aim is to integrate aspects of bioinformatics in the BioTech/Biology etc. classes taught at the high-schools.
2009
Course 27611: Introduction to Bioinformatics
- Lektionsplan 2009
Role: Course organizer, main teacher.
Course 27622: Introduction to Bioinformatics - Turbo version
- Course programme 2009
Role: Course organizer, main teacher.
(This course was established by me and ran for the first time in 2009).
Inter-University Course: Bioinformatics for Human Biologists
- Course programme 2009
Role: Course organizer, main teacher.
(Run together with University of Copenhagen - Master-level course for students at the Human Biology study line).
Inter-University Course: Bioinformatik - IT og Sundhed
- Course programme 2009
Role: Teacher.
(Run together with University of Copenhagen - Bachelor-level course for students at the "IT og Sundhed" study line).
2008
Course 27612: DNA Microarray Analysis
Teacher: Lecture and exercise on probe design for DNA microarrays.
Course 27611: Introduction to Bioinformatics
- Lektionsplan 2008
Course organizer, main teacher.
Course 27615: Molecular Evolution
Teacher. Author of exercises.
Course 27803: Biological Sequence Analysis (PhD course)
Teacher: Lecture and exercise on probe design for DNA microarrays.
2007
Course 27612: DNA Microarray Analysis
Teacher: Lecture and exercise on probe design for DNA microarrays.
Course 27611: Introduction to Bioinformatics
- Lektionsplan 2007
Course organizer, main teacher.
Course 27615: Molecular Evolution
Teacher. Author of exercises.
Course 27803: Biological Sequence Analysis (PhD course)
Teacher: Lecture and exercise on probe design for DNA microarrays.
2006
Course 27612: DNA Microarray Analysis
Teacher: Lecture and exercise on probe design for DNA microarrays.
Course 27611: Introduction to Bioinformatics
Course organizer, main teacher.
Course 27615: Molecular Evolution
Teacher. Author of exercises.
Course 27803: Biological Sequence Analysis (PhD course)
Teacher: Lecture and exercise on probe design for DNA microarrays.
2005
Course 27611: Introduction to Bioinformatics
Course organizer, teacher.
Course 27615: Molecular Evolution
Teacher. Author of exercises.
Course 27614: Advanced Bioinformatics
Teacher.
Course 27803: Biological Sequence Analysis (PhD course)
Teacher. Session on probe design for DNA microarrays.
2004
Course 27011: Introduction to Bioinformatics
Course organizer, teacher.
Course 27015: Molecular Evolution
Teacher. Author of exercises.
2003
TechTalks: A series of seminars on programming techniques and Unix tools
Organizer and main teacher
Course 27011: Introduction to Bioinformatics
Instructor.
Course 27803: Biological Sequence Analysis (PhD course)
Instructor
2002
TechTalks: A series of seminars on programming techniques and Unix tools
Organizer and main teacher
Course 27011: Introduction to Bioinformatics
Instructor.
Course 27803: Biological Sequence Analysis (PhD course)
Instructor
Doing lab work on the Yeast cell cycle
Flemming Bryde Hansen, Thomas Skøt Jensen, Ulrik de Lichtenberg, Anders Fausbøll and Rasmus Wernersson, 2003
Non-scientific stuff
(Under construction ...)
Games/Program/Demos I have coded for the Commodore 64:
Hägar the Horrible (Game, KingSoft 1992)
T-26 (Game, Unreleased but 98% completed, 1989/1990)
Magic Castle (SEUCK game, modified front-end - rather nice graphics I think, 1991).
Camel Park (Demo, Camelot, 1994)
Revealed, issue 1-4 (Disc-mag, Camelot/Profile Entertainment 1992-1994)
Skyhigh, issue 6-22 (Disc-mag, Oxyron/Camelot, 1992-1995)
