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Research Articles

Collection of Research Articles
Verification of systems biology research in the age of collaborative competition
Nature Biotechnology 29, 811–815 (2011)
OpenFreezer: a reagent information management software system
Nature Methods 8, 612–613 (2011)
Response to Comment on “Positive Selection of Tyrosine Loss in Metazoan Evolution”
Science 20 May 2011: Vol. 332 no. 6032 p. 917
Kinome-wide Decoding of Network-Attacking Mutations Rewiring Cancer Signaling.
Cell. 2015 Sep 16. pii: S0092-8674(15)01108-3. doi: 10.1016/j.cell.2015.08.056.
Unmasking Determinants of Specificity in the Human Kinome.
Cell. 2015 Sep 16. pii: S0092-8674(15)01109-5. doi: 10.1016/j.cell.2015.08.057.
Pathway and network analysis of cancer genomes.
Nature Methods. 2015 Jun 30;12(7):615-21.
The hypoxic cancer secretome induces pre-metastatic bone lesions through lysyl oxidase
Nature. 2015 Jun 4;522(7554):106-10.
Integrative analysis of kinase networks in TRAIL-induced apoptosis provides a source of potential targets for combination therapy
Science Signaling, 7 April 2015 Vol. 8, Issue 371, p. rs3
PhD thesis (Rune Linding)
EMBL April 2004.
Cell-Specific Information Processing in Segregating Cell Populations
In this Research Article published in Science, we provide the first systems- and cell-specific network models of contact-initiated signaling between two distinct cell types.
Systematic discovery of in vivo phosphorylation networks.
Cell. 2007 Jun 29;129(7):1415-26. Epub 2007 Jun 14.
NetworKIN: a resource for exploring cellular phosphorylation networks.
Nucleic Acids Res. 2008 Jan;36(Database issue):D695-9. Epub 2007 Nov 2.
Linear motif atlas for phosphorylation-dependent signaling.
Sci Signal. 2008 Sep 2;1(35):ra2.
Phosphorylation networks regulating JNK activity in diverse genetic backgrounds.
Science. 2008 Oct 17;322(5900):453-6.
Dynamic modularity in protein interaction networks predicts breast cancer outcome.
Nat Biotechnol. 2009 Feb;27(2):199-204. Epub 2009 Feb 1.
Dissecting the interface between signaling and transcriptional regulation in human B cells.
Pac Symp Biocomput. 2009:264-75.
Positive selection of tyrosine loss in metazoan evolution.
Science. 2009 Sep 25;325(5948):1686-8. Epub 2009 Jul 9.
Comparative analysis reveals conserved protein phosphorylation networks implicated in multiple diseases.
Sci Signal. 2009 Jul 28;2(81):ra39.
Phosphorylation dynamics during early differentiation of human embryonic stem cells.
Cell Stem Cell. 2009 Aug 7;5(2):214-26.
ELM: the status of the 2010 eukaryotic linear motif resource.
Nucleic Acids Res. 2009 Nov 17. [Epub ahead of print]

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