Contact Information: Project Coordinator:

Jussi Taipale, Ph.D. Professor of Medical Systems Biology

Molecular Cancer Biology Program / Biomedicum Helsinki
PO Box 63 (Haartmaninkatu 8)
FI-00014 University of Helsinki, Finland
Tel. +358 9 191 25556
Fax +358 9 191 25554

e-mail :
firstname.surname@helsinki.fi

Participants:

Taipale Lab Ukkonen Lab Aaltonen Lab Hoheisel Lab febit biotech gmbh Ørntoft Lab Lubinski Lab

LINKS:

Participants:

• Taipale Lab
• Ukkonen Lab
• Aaltonen Lab
• Hoheisel Lab
• febit biotech gmbh
• Ørntoft Lab
• Lubinski Lab

Publications:

1. Tuupanen S, Turunen M, Lehtonen R, Hallikas O, Vanharanta S, Kivioja T, Björklund M, Wei G, Yan J, Niittymäki I, Mecklin JP, Järvinen H, Ristimäki A, Di-Bernardo M, East P, Carvajal-Carmona L, Houlston RS, Tomlinson I, Palin K, Ukkonen E, Karhu A, Taipale J, Aaltonen LA. The common colorectal cancer predisposition SNP rs6983267 at chromosome 8q24 confers potential to enhanced Wnt signaling. Nat Genet. 2009 Aug;41(8):885-90.

2. Hallikas O, Palin K, Sinjushina N, Rautiainen R, Partanen J, Ukkonen E, Taipale J. Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity . Cell 124 : 47-59, 2006.

3. Hallikas O., and Taipale J. High-throughput assay for determining specificity and affinity of protein-DNA binding interactions . Nature Protocols 1 :215-222, 2006

4. Palin K., Taipale J., and Ukkonen E. Locating potential enhancer elements by comparative genomics using the EEL software . Nature Protocols 1 :368-374, 2006.

5. Sari Tuupanen, Iina Niittymäki, Kari Nousiainen, Sakari Vanharanta, Jukka-Pekka Mecklin, Heikki Järvinen, Sampsa Hautaniemi, Auli Karhu and Lauri A. Aaltonen. Allelic imbalance at rs6983267 suggests selection of the risk allele in somatic colorectal tumor evolution . Cancer Res 68: (1) 14-17, 2008

6. Pizzi C., Rastas P., and Ukkonen E. Fast search algorithms for position specific scoring matrices. In Proceedings of First International Conference on Bioinformatics Research and Development - BIRD 2007, LNCS 4414, pages 239-250, Springer-Verlag, 2007.

7. Christensen LL, Madsen BE, Wikman FP, Wiuf C, Koed K, Tjønneland A, Olsen A, Syvänen AC, Andersen CL, Ørntoft TF. The association between genetic variants in hMLH1 and hMSH2 and the development of sporadic colorectal cancer in the Danish population . BMC Med Genet . 2008 Jun 11;9:52.

8. Andersen CL, Christensen LL, Thorsen K, Schepeler T, Sørensen FB, Verspaget HW, Simon R, Kruhøffer M, Aaltonen LA, Laurberg S, Ørntoft TF. Dysregulation of the transcription factors SOX4, CBFB and SMARCC1 correlates with outcome of colorectal cancer. Br J Cancer. 2009 Feb 10;100(3):511-23. Epub 2009 Jan 20.

9. Thorsen K, Sørensen KD, Brems-Eskildsen AS, Modin C, Gaustadnes M, Hein AM, Kruhøffer M, Laurberg S, Borre M, Wang K, Brunak S, Krainer AR, Tørring N, Dyrskjøt L, Andersen CL, Orntoft TF. Alternative splicing in colon, bladder, and prostate cancer identified by exon array analysis . Mol Cell Proteomics . 2008 Jul;7(7):1214-24. Epub 2008 Mar 18.

10. Suchy J, Klujszo-Grabowska E, Kladny J, Cybulski C, Wokolorczyk D, Szymanska-Pasternak J, Kurzawski G, Scott RJ, Lubinski J. Inflammatory response gene polymorphisms and their relationship with colorectal cancer risk . BMC Cancer . 2008 Apr 23;8:112.

11. Hoheisel, J.D. Microarray technology: beyond transcript profiling and genotype analysis . Nature Rev. Genet. 7 , 200-210, 2006.

Other publications by the participants:

• Jussi Taipale
• Esko Ukkonen
• Lauri A. Aaltonen
• Joerg Hoheisel
• Torben Orntoft
• Jan Lubinski

Others:

• University of Helsinki High Throughput Center
• Nordic Center of Excellence in Disease Genetics

Page updated August 17, 2009

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