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Course Overview 2007
June 4 to 22, 2007
Lectures and exercises will take place at
CBS, Technical University of Denmark, building 210, room 118 in Lyngby.
Daily schedule:
Lectures will be from 9.30 - 12.00
Lunch from 12.00 - 13.00 and
Exercises from 13.00 - 16.00
EVALUATION FORMS
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 Monday, June 4
- 9.30-10.30
- Introduction to the course and a general overview
Carsten Friis, CBS
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- Gene Discovery and Genome Browsing
Background text
Thomas Nordahl Petersen, CBS
- 12.00-13.00
- Lunch Break
- 13.00-16.00
- Exercises: Genome Browsing
Thomas Nordahl Petersen
Tuesday, June 5
- Grundlovsdag: This is a national holiday
Wednesday, June 6
- 9.30-10.30
- Biological Network Analysis
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Chris Workman, CBS
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- Eukaryotic gene prediction
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Kai Wang, CBS
- 12.00-13.00
- Lunch Break
- 13.00-16.00
- Exercises: Gene Prediction
Answer Form
Kai Wang
Thursday, June 7
- 9.30-10.30
- A systems biology approach to the dissection of patho-biologies in COPD
Ib Groth Clausen, Astra Zeneca AB, Sverige
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- microRNA
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Thomas Litman, BINF, KU + Exiqon
- 12.00-13.00
- Lunch Break
- 13.00-16.00
- Exercise: microRNA
Thomas Litman
Friday, June 8
- 9.30-10.30
- Affymetrix case study VM-story
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Jesper Jørgensen, NsGene
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- Literature mining & systems biology
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Lars Juhl Jensen, EMBL, Germany
- 12.00-13.00
- Lunch Break
- 13.00-14.00
- Exercises: Literature mining
Lars Juhl Jensen
- 14.00-14.30
- Coffee Break
- 14.30-16.00
- Formation of Project Groups
Carsten Friis
Monday, June 11
- 9.30-10.30
- Genetics & Gene Discovery
Niels Tommerup, IMBG, KU
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- Disease gene finding
Background text
Kasper Lage Hansen, CBS
- 12.00-13.00
- Lunch Break
- 13.00-16.00
- Exercises: Disease gene finding
Handout 1;
Handout 2
Kasper Lage Hansen
Tuesday, June 12
- 9.30-10.30
- Genes and IPR
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Jens V. Nørgaard, Symphogen A/S
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- Genes and IPR
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Jens V. Nørgaard
- 12.00-13.00
- Lunch Break
- 13.00-14.00
- Navigating the miRNA world in silico and in vitro
Niels Tolstrup, Exiqon
- 14.00-14.30
- Coffee Break
- 14.30-16.00
- On the Speed of Sequencing Genomes
David W Ussery, CBS
Wednesday, June 13
- 9.30-10.30
- Quantitave PCR
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Claus Hansen, WJC, KU
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- Introduction to Bacterial PanGenomics
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David W Ussery, CBS
- 12.00-13.00
- Lunch Break
- 13.00-16.00
- Exercise: Visualizing genomes
David W Ussery
- CBS atlas pages (use these for the exercises) v3.0 atlas pages (under development) zoom atlases NCBI Exercise Solutions
Thursday, June 14
- 9.30-10.30
- Motif mining and phosphoproteomics
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Martin Miller, CBS
- 10.30-11.00
- Coffee Break
- 11.00-12.00
- Classification Methods; Machine Learning
Michael Kerner, CBS
- 12.00-13.00
- Lunch Break
- 13.00-16.00
- Exercise: Classification using the WEKA Tool
Michael Kerner
Friday, June 15
- 9.30-12.00
- Selection of Project Topics and Collection of Information for Project
Poster Specifications;
Student Groups;
Example Poster
Monday, June 18 – Wednesday, June 20
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- PROJECT WORK – including preparation of Poster for Poster Session
- 10.00-12.00
- Office Hours in Classroom
Thursday, June 21
- 14:00
- Deadline for uploading your poster presentation (Name it Group-X.ppt and upload to this link or mail to )
Deadline for uploading your 2-3 page poster summary (Name it Group-X.doc and upload to this link or mail to )
- 16.00-???
- Poster Session and Party!!
Friday, June 22
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- EXAM: Oral Poster Presentations in Plenum
Censor: Ole Lund
- 9.30-10.00
- Presentation by Group 1
- 10.00-10.30
- Presentation by Group 2
- 10.30-11.00
- Coffee Break
- 11.00-11.30
- Presentation by Group 3
- 11.30-12.00
- Presentation by Group 4
- 12.00-12.30
- Presentation by Group 5
- 12.30-13.00(?)
- Summary, Discussion, Evaluation and Goodbye
Carsten Friis
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