| Genome-wide RNAi screen identifies genes involved in intestinal pathogenic bacterial infection SJF Cronin, NT Nehme, S Limmer, S Liegeois, JA Pospisilik, D Schramek, ... Science 325 (5938), 340-343, 2009 | 360 | 2009 |
| A Mek1–Mek2 heterodimer determines the strength and duration of the Erk signal F Catalanotti, G Reyes, V Jesenberger, G Galabova-Kovacs, ... Nature structural & molecular biology 16 (3), 294-303, 2009 | 218 | 2009 |
| An embryonic diapause-like adaptation with suppressed Myc activity enables tumor treatment persistence E Dhimolea, R de Matos Simoes, D Kansara, A Al’Khafaji, J Bouyssou, ... Cancer cell 39 (2), 240-256. e11, 2021 | 178 | 2021 |
| Statistical inference and reverse engineering of gene regulatory networks from observational expression data F Emmert-Streib, GV Glazko, G Altay, R de Matos Simoes Frontiers in genetics 3, 8, 2012 | 154 | 2012 |
| A consistent phylogenetic backbone for the fungi I Ebersberger, R de Matos Simoes, A Kupczok, M Gube, E Kothe, K Voigt, ... Molecular Biology and Evolution 29 (5), 1319-1334, 2012 | 150 | 2012 |
| Bagging statistical network inference from large-scale gene expression data R de Matos Simoes, F Emmert-Streib PloS one 7 (3), e33624, 2012 | 139 | 2012 |
| The gene regulatory network for breast cancer: integrated regulatory landscape of cancer hallmarks F Emmert-Streib, R de Matos Simoes, P Mullan, B Haibe-Kains, ... Frontiers in genetics 5, 77923, 2014 | 83 | 2014 |
| Functional genomics identify distinct and overlapping genes mediating resistance to different classes of heterobifunctional degraders of oncoproteins R Shirasaki, GM Matthews, S Gandolfi, R de Matos Simoes, DL Buckley, ... Cell Reports 34 (1), 2021 | 70 | 2021 |
| Genome-scale screens identify factors regulating tumor cell responses to natural killer cells M Sheffer, E Lowry, N Beelen, M Borah, SNA Amara, CC Mader, JA Roth, ... Nature Genetics 53 (8), 1196-1206, 2021 | 61 | 2021 |
| NF-κB dysregulation in multiple myeloma GM Matthews, R de Matos Simoes, E Dhimolea, M Sheffer, S Gandolfi, ... Seminars in cancer biology 39, 68-76, 2016 | 56 | 2016 |
| The human disease network: Opportunities for classification, diagnosis, and prediction of disorders and disease genes F Emmert-Streib, S Tripathi, RM Simoes, AF Hawwa, M Dehmer Systems Biomedicine 1 (1), 20-28, 2013 | 48 | 2013 |
| Autophagy suppresses Ras-driven epithelial tumourigenesis by limiting the accumulation of reactive oxygen species J Manent, S Banerjee, R de Matos Simoes, T Zoranovic, C Mitsiades, ... Oncogene 36 (40), 5576-5592, 2017 | 47 | 2017 |
| Functional and genetic analysis of the colon cancer network F Emmert-Streib, R de Matos Simoes, G Glazko, S McDade, ... BMC bioinformatics 15, 1-15, 2014 | 45 | 2014 |
| Influence of statistical estimators of mutual information and data heterogeneity on the inference of gene regulatory networks R de Matos Simoes, F Emmert-Streib PLoS One 6 (12), e29279, 2011 | 44 | 2011 |
| Interfacing cellular networks of S. cerevisiae and E. coli: Connecting dynamic and genetic information R Matos Simoes, M Dehmer, F Emmert-Streib BMC genomics 14, 1-23, 2013 | 40 | 2013 |
| A BRCA1 deficient, NFκB driven immune signal predicts good outcome in triple negative breast cancer NE Buckley, P Haddock, RDM Simoes, E Parkes, G Irwin, F Emmert-Streib, ... Oncotarget 7 (15), 19884, 2016 | 34 | 2016 |
| Assessment of Nuclear ZEB2 as a Biomarker for Colorectal Cancer Outcome and TNM Risk Stratification R Sreekumar, S Harris, K Moutasim, R de Matos Simoes, A Patel, K Emo, ... JAMA Network Open 1 ((6), e183115), 2018 | 32 | 2018 |
| Urothelial cancer gene regulatory networks inferred from large-scale RNAseq, Bead and Oligo gene expression data R Matos Simoes, S Dalleau, KE Williamson, F Emmert-Streib BMC systems biology 9, 1-19, 2015 | 30 | 2015 |
| Harnessing the complexity of gene expression data from cancer: from single gene to structural pathway methods F Emmert-Streib, S Tripathi, R Matos Simoes Biology direct 7, 1-25, 2012 | 28 | 2012 |
| B-cell lymphoma gene regulatory networks: biological consistency among inference methods R de Matos Simoes, M Dehmer, F Emmert-Streib Frontiers in genetics 4, 70657, 2013 | 27 | 2013 |
