Workshop 2003, 15-16 December, in Norrköping
Practical details
The location of the workshop is
Campus
Norrköping, building
Kåkenhus,
room K23. (Enter the main entrance, walk down the stairs and then
proceed
to the right until the corridor ends (
Campus
Norrköping, Kåkenhus, plan 2, hus 1).)
Campus Norrköping is easily reachable within walking distance
from
the railway station, and a map can be found here.
We will start with lunch at 12 (the organizers will be at the site
from
11.30), Monday 15 December, and continue until lunch Tuesday 16
December.
A detailed programme will be announced later.
List of participants
Participant
|
Affiliation
|
Contact information
|
| Jan Komorowski |
Linneaus center |
jan.komorowski@lcb.uu.se |
Torgeir R Hvidsten
|
Linneaus center |
Torgeir.Hvidsten@lcb.uu.se |
Anna Johansson
|
Linneaus center |
Anna.Johansson@lcb.uu.se |
Herman Midelfart
|
Linneaus center |
herman.midelfart@lcb.uu.se |
Jakub Orzechowski Westholm
|
Linneaus center |
jacke_orzechowski@hotmail.com
|
Martin Eklund
|
Linneaus center |
martin.eklund@lcb.uu.se
|
| Per Kraulis |
Stockholm Bioinformatic Center |
per.kraulis@biovitrum.com |
| Sara Light |
Stockholm Bioinformatic Center |
sara@sbc.su.se |
Olivia Eriksson
|
Stockholm Bioinformatic Center |
olivia@sbc.su.se
|
Jan Lindqvist
|
Stockholm Bioinformatic Center |
Jan.Lindqvist@sbc.su.se
|
Jens Lagergren
|
Kungliga Tekniska Högkolan,
NADA
|
jensl@nada.kth.se
|
Sara Hägg
|
Kungliga Tekniska Högkolan,
NADA |
md99-sha@nada.kth.se
|
Erik Aurell
|
Swedish Institute of Computer
Science, ISL
|
erik.aurell@sics.se
|
| Mats Jirstrand |
Fraunhofer-Chalmers Centre |
matsj@fcc.chalmers.se |
| Johan Gunnarsson |
InNetics |
johan@innetics.com |
| Kasper Astrup Eriksen |
Lund |
kasper@thep.lu.se |
| Mattias Wahde |
Chalmers |
mattias.wahde@me.chalmers.se |
| Thomas S Jensen |
Center for Biological Sequence
Analysis |
skot@cbs.dtu.dk |
| Ulrik N de Lichtenberg |
Center for Biological Sequence
Analysis |
ulrik@cbs.dtu.dk |
| Anders Fausbøll |
Center for Biological Sequence
Analysis |
fausboll@cbs.dtu.dk |
| John Hertz |
Nordita |
hertz@nordita.dk |
| Olle Nerman |
Chalmers |
nerman@math.chalmers.se |
Peter Gennemark
|
Chalmers
|
peterg@cs.chalmers.se
|
| Bernt Wennberg |
Chalmers |
wennberg@math.chalmers.se
|
| Jesper Tegnér |
Linköping, IFM |
jespert@ifm.liu.se |
| Roland Nilsson |
Linköping, IFM |
rolle@ifm.liu.se |
| Kristofer Hallén |
Linköping, IFM |
hallen@ifm.liu.se |
Jose M. Peña
|
Linköping, IFM
|
jmp@ifm.liu.se
|
Guiyuan Lei
|
Linköping, IFM
|
guiyuan@ifm.liu.se |
| Gunnar Cedersund |
Linköping, ISY |
gunnar@isy.liu.se |
Jacob Roll
|
Linköping, ISY
|
roll@isy.liu.se
|
Martin Fransson
|
Linköping, ISY |
marfr232@student.liu.se
|
Björn Larsson
|
Linköping, MAI
|
bjlar@mai.liu.se
|
Svante Linusson
|
Linköping, MAI
|
linusson@mai.liu.se
|
| Anna Lombardi |
Norrköping, ITN |
annlo@itn.liu.se |
| Mika Gustafsson |
Norrköping, ITN |
mikgu@itn.liu.se |
| Aida
Vitória |
Norrköping, ITN |
aidvi@itn.liu.se |
| Michael Hörnquist |
Norrköping, ITN |
micho@itn.liu. |
The participation is by invitation, only. If you would like to be
invited,
contact Michael Hörnquist.
There
is hopefully room for more people, but we cannot pay for your expenses.
Contributed work
- Mattias Wahde and John Hertz: Genetic
Network
Inference: Using Joint Weight Distributions
- Jose M Peña: Learning
and
Validating Bayesian Network Models of Genetic Regulatory Networks
- Johan Gunnarsson and Mats Jirstrand: PathwayLab
- Biochemical Systems Modeling and Analysis
- Kasper Astrup Eriksen: My
Research Interests for the Workshop in Norrköping 15-16 december
2003
- Aida Vitória: A
Step Forward in Data Mining: A Language Integrating Rough sets and
Domain Knowledge
- Ulrik de Lichtenberg, Thomas S Jensen (Lars J Jensen and
Søren Brunak): Protein
Feature Based Identification of Cell Cycle Regulated Proteins in yeast
- Anders Fausbøll, Ulrik de Lichtenberg (and Søren
Brunak): Using
Feature Plots to Visualize Proteome-wide Dynamics of Post-translational
Modifications
- Peter Gennemark (and Dag Wedelin): An
Efficient Model Identification Algorithm of Cell Signaling Pathways
- Mika Gustafsson, Michael Hörnquist and Anna Lombardi: Large-scale
Reverse Engineering by the LASSO
- Jacob Roll and Mats Jirstrand: Applicability
of Non-linear System Identification Techniques to Biochemical Networks
- Erik Aurell, Jakub Orzechowski Westholm (and Adam Ameur): GENKOMB
project report
- Gunnar Cedersund (Carsten Knudsen, Hanna Karlsson, Lars Folke
Olsen, Kirsten Riper Philipsen and Anetta Claussen): Towards
Quantitative System Identification of Intracellular Spatiodynamics -
The Neutrophil Wave Phenomena
- Per Kraulis: GeneCV:
Towards Knowledge representation of molecular events in biological
systems
- Jan Komorowski , Torgeir R Hvidtsen, Herman
Midelfart (Astrid Lægreid and Arne K Sandvik): Predicting
Gene Ontology Biological Process from Temporal Gene Expression Patterns
- Jesper Tegnér (M K Stephen Yeung, Jeff Hasty and James J
Collins): Reverse
engineering gene networks: Integrating perturbations with dynamical
modeling
- Jan Lindqvist: Work
in progress: Comparing database network information and real deletion
experiments
- Bernt Wennberg (Milena Anguelova, Carl Johan Franzen and Mikael
Johansson) A
note on the use of conserved moieties in the modelling of intracellular
metabolic dynamics in Sacharomyces
cerevisae based on identifiability studies
The contributed work suggested for discussion will be downloadable here
(userid and password can be obtained from
Mika
Gustafsson).
Program
|
Monday 15 December
==================
12.00
Gathering
K23
12.10
Lunch
Canteen
13.00 Thematic
session: K23
Inference and analysis of networks
13.00 Wahde and Hertz
13.20 Gennemark
13.40 Tegnér
14.00 Roll and Jirstrand
14:20 Gustafsson et al.
14.40 Pena
15.00 Discussion
15.30
Coffee
Canteen
16.00 Thematic sessions: K23
Data
bases and rough sets
16.00 Orzechowski-Westholm
16.20 Kraulis
16.40 Vitória
17.00 Hvidsten
17.30 Discussion
18.00 End of working day.
Common walk to the hotel (Tunnbindaregatan 19)
for the external guests.
19.00
Dinner.
Gathering outside the hotel.
|
Tuesday 16 December
===================
8.15 Coffee for those who
need K23
8.30 Thematic
session: K23
The
use of visualization, etc
8.30 Gunnarsson and Jirstrand
8.50 Lichtenberg et al
9.10 Fausboell et al
9.30 Discussion
9.50
Coffee
canteen
10.20 Thematic
session: K23
Various aspects
of modelling
10.20 Eriksen
10.40 Cedersund
11.00 Lindqvist
11.20 Eklund
11.40 Wennberg
12.00 Discussion
12.20 General discussion
K23
Where
do we go from here? What can we hope for?
12.40 Closing
12.45 Lunch
|
These times are to be interpreted as guidelines, but nothing we should
be too strict about. We are not
more people gathered than we can allow
us some spontaneity.
Location of
Workshop:
Department of Science and Technology
Linköpings universitet, Campus Norrköping
S-601 74 Norrköping
Sweden
Contact
persons:
Michael Hörnquist and Jesper
Tegner.
Comments on this
page
should be sent to Mika Gustafsson.