Major scientific news related to the Computational Medicine team

2007

  • Congratulations - Roland Nilsson PhD, now a postdoc fellow at the Broad Institute, Department of Systems Biology, Harvard University, received a 5 year postdoctoral scholarship from the Knut and Alice Wallenberg Foundation, December 2007
  • The CompMed team received strong external grant support from VR (1 junior research position and 3 project grants) and VINNOVA (1 senior research position including a project grant). November 2007
  • Major medical paper [paper 56] on CRP protein and its role in Atherosclerosis. [press release] August, 2007
  • Clinical Gene Network participates in the third Swedish-American Life Science Summit, June, 2007
  • Clinical Gene Network lecture on systems biology tools for drug development Pharmaceutical Meeting, Copenhagen, June, 2007
  • Lecturing at the first workshop on Clinical Systems Biology, Italy, May 2007
  • Roland Nilsson defends his PhD thesis. May 2007
  • Clinical Gene Network lecture on systems biology tools for drug development April, 2007
  • Major mathematical paper [paper 49] in Journal of Machine Learning Research (highest ranked journal in computer science) on feature selection. The proofs for algorithms are relevant for a wide range of problems in medicine. February2007
  • Lecturing at the Winter School on systems biology. Puerto de la Cruz, Tenerife, Canary Islands, February 2007
  • Two reviews in Journal of Lipid Research and Trends in Genetics [papers 44 & 43] on networks in aherosclerosis and computational algorithms for identifying networks. January 2007
  • Our paper on reconstruction on the macrophage LPS gene network [paper 34] has been one of the most downloaded papers at Science Direct. January 2007
  • Added an internal lab web page (passwd protected) and updated the publication list. January 2007

2006

 

2005

  • September 2005 - The Computational Medicine team has participated as network experts in the international Phantom3 consortium and co-authored a Science article on non-coding RNA.
  • May 2005 - The Computational Medicine team has developed four novel algorithms. M.Sc. Nilsson developed theory for machine learning detection of biomarkers from high-dimensional data. M.Sc. Hallén designed an algorithm which enables rational compound evaluation from gene expression data. Dr. Peña developed a probabilistic algorithm for identification of local networks from seed genes. Dr. Peña also developed an algorithm for learning bayesian network models using cross-validation.
  • April 2005 - The Computational Medicine team (Dr. Skogsberg, M.Sc. Nilsson, and Professor Tegnér) under the leadership of Ass. Professor Björkegren has together with the Arner team discovered a novel function for a gene involved in processing of lipids.
  • March 2005 - The paper "Scalable, Efficient and Correct Learning of Markov Boundaries under the Faithfulness Assumption" by Dr Peña as a lead author was selected among the the top ten contributions at the Eighth European Conference on Symbolic and Quantitative Approaches to Reasoning under Uncertainty (ECSQARU 2005),
  • February 2005 - AtheroCode database version 1 has been completed. This has been a true team effort. Peri Noori, our Affymetrix laboratory chief was in charge of the laboratory experiments. Dr. Skogsberg, Peri Noori, M.Sc. Marina and M.Sc. Idha Kurtsdotter processed more than 400 GeneChips in less than 6 months. This is an awesome achievement. On the computational side, M.Sc. Hägg, M.Sc. Nilsson and M.Sc. Lundström designed the AtheroCode database system. More than 750 million data points ranging from clinical characteristics to human and mouse gene expression data related to atherosclerosis has been stored in this database. The AtheroCode database will serve as the backbone to dismantle the gene network in atherosclerosis.

2004

  • September 2004 - The Computational Medicine team with Peri Noori’s leadership completes 200 GeneChip Human Genome U133 Plus 2.0 Array measurements of total RNA isolated from tissues relevant to atherosclerosis.
  • March 2004 - Professor Tegnér publishes a paper in Proceedings of the National Academy of Sciences on computational modeling of dynamical biological networks.
  • Ass. Professor Björkegren publishes in the Eurupean Journal of Human Genetics.

 

2003

  • December 2003 - Ass. Professor Björkegren is a nominee to the "Young Investigator Award" at the International Symposium on Atherosclerosis, Kyoto, Japan.
  • November 2003 - Professor Tegnér, coauthors a paper "Systemsbiology is taking off" in Genome Research.
  • 2003 - The Karotis Sös STAGE study is initiated by Ass. Professor Björkegren - Clinical characterization and biopsy sampling of up to 200 patients undergoing carotid surgery at the Sös hospital. Collaborators: Drs. Rabbe and Tackolander.
  • May 2003 - Professor Tegnér publishes a paper in Proceeding of the National Academy of Sciences on a novel network identification algorithm using genetic perturbations.
  • 2002 - The Stockholm Atherosclerosis Gene Expression (STAGE) Study is initiated by Ass. Professor Björkegren - Clinical characterization and biopsy sampling of up to 300 patients undergoing coronary by-pass operation in the Stockholm county (Dns 02-004). Collaborators: Drs. Torbjörn Ivert, Jan Liska, Anders Franco-Cereceda and Ulf Lockowandt.