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| Nykter M, Lähdesmäki H, Rust A, et al. (2009) A data integration framework for prediction of transcription factor targets. Annals of the New York Academy of Sciences. 1158: 205-14 |
| Thuong NT, Dunstan SJ, Chau TT, et al. (2008) Identification of tuberculosis susceptibility genes with human macrophage gene expression profiles. Plos Pathogens. 4: e1000229 |
| Ramsey SA, Klemm SL, Zak DE, et al. (2008) Uncovering a macrophage transcriptional program by integrating evidence from motif scanning and expression dynamics. Plos Computational Biology. 4: e1000021 |
| Korb M, Rust AG, Thorsson V, et al. (2008) The Innate Immune Database (IIDB). Bmc Immunology. 9: 7 |
| Bonneau R, Facciotti MT, Reiss DJ, et al. (2007) A predictive model for transcriptional control of physiology in a free living cell. Cell. 131: 1354-65 |
| Carter GW, Prinz S, Neou C, et al. (2007) Prediction of phenotype and gene expression for combinations of mutations. Molecular Systems Biology. 3: 96 |
| Gilchrist M, Thorsson V, Li B, et al. (2006) Systems biology approaches identify ATF3 as a negative regulator of Toll-like receptor 4. Nature. 441: 173-8 |
| Bonneau R, Reiss DJ, Shannon P, et al. (2006) The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo. Genome Biology. 7: R36 |
| Thorsson V, Hörnquist M, Siegel AF, et al. (2005) Reverse engineering galactose regulation in yeast through model selection. Statistical Applications in Genetics and Molecular Biology. 4: Article28 |
| Reiss DJ, Avila-Campillo I, Thorsson V, et al. (2005) Tools enabling the elucidation of molecular pathways active in human disease: application to Hepatitis C virus infection. Bmc Bioinformatics. 6: 154 |