| Rewiring of genetic networks in response to DNA damage S Bandyopadhyay, M Mehta, D Kuo, MK Sung, R Chuang, EJ Jaehnig, ... Science 330 (6009), 1385-1389, 2010 | 536 | 2010 |
| A global network of transcription factors, involving E2A, EBF1 and Foxo1, that orchestrates B cell fate YC Lin, S Jhunjhunwala, C Benner, S Heinz, E Welinder, R Mansson, ... Nature immunology 11 (7), 635-643, 2010 | 535 | 2010 |
| A gene ontology inferred from molecular networks J Dutkowski, M Kramer, MA Surma, R Balakrishnan, JM Cherry, ... Nature biotechnology 31 (1), 38-45, 2013 | 217 | 2013 |
| Boosting signal-to-noise in complex biology: prior knowledge is power T Ideker, J Dutkowski, L Hood Cell 144 (6), 860-863, 2011 | 215 | 2011 |
| Multilineage priming of enhancer repertoires precedes commitment to the B and myeloid cell lineages in hematopoietic progenitors EM Mercer, YC Lin, C Benner, S Jhunjhunwala, J Dutkowski, M Flores, ... Immunity 35 (3), 413-425, 2011 | 150 | 2011 |
| Identification of functional modules from conserved ancestral protein–protein interactions J Dutkowski, J Tiuryn Bioinformatics 23 (13), i149-i158, 2007 | 133 | 2007 |
| Rac2 controls tumor growth, metastasis and M1-M2 macrophage differentiation in vivo S Joshi, AR Singh, M Zulcic, L Bao, K Messer, T Ideker, J Dutkowski, ... PloS one 9 (4), e95893, 2014 | 124 | 2014 |
| Protein networks as logic functions in development and cancer J Dutkowski, T Ideker PLoS computational biology 7 (9), e1002180, 2011 | 124 | 2011 |
| Improving breast cancer survival analysis through competition-based multidimensional modeling E Bilal, J Dutkowski, J Guinney, IS Jang, BA Logsdon, G Pandey, ... PLoS computational biology 9 (5), e1003047, 2013 | 97 | 2013 |
| Inferring gene ontologies from pairwise similarity data M Kramer, J Dutkowski, M Yu, V Bafna, T Ideker Bioinformatics 30 (12), i34-i42, 2014 | 94 | 2014 |
| Translation of genotype to phenotype by a hierarchy of cell subsystems MK Yu, M Kramer, J Dutkowski, R Srivas, K Licon, JF Kreisberg, CT Ng, ... Cell systems 2 (2), 77-88, 2016 | 78 | 2016 |
| On consensus biomarker selection J Dutkowski, A Gambin BMC bioinformatics 8, 1-13, 2007 | 52 | 2007 |
| A method and system for ontology-based dynamic learning and knowledge integration from measurement data and text JJ Dutkowski US Patent App. 16/060,400, 2019 | 28 | 2019 |
| A distributed network for intensive longitudinal monitoring in metastatic triple-negative breast cancer CA Blau, AB Ramirez, S Blau, CC Pritchard, MO Dorschner, ... Journal of the National Comprehensive Cancer Network 14 (1), 8-17, 2016 | 26 | 2016 |
| Novel data-mining approach identifies biomarkers for diagnosis of Kawasaki disease AH Tremoulet, J Dutkowski, Y Sato, JT Kanegaye, XB Ling, JC Burns Pediatric research 78 (5), 547-553, 2015 | 25 | 2015 |
| Phylogeny-guided interaction mapping in seven eukaryotes J Dutkowski, J Tiuryn BMC bioinformatics 10, 1-19, 2009 | 23 | 2009 |
| NeXO Web: the NeXO ontology database and visualization platform J Dutkowski, K Ono, M Kramer, M Yu, D Pratt, B Demchak, T Ideker Nucleic acids research 42 (D1), D1269-D1274, 2014 | 21 | 2014 |
| MODEVO: exploring modularity and evolution of protein interaction networks M Woźniak, J Tiuryn, J Dutkowski Bioinformatics 26 (14), 1790-1791, 2010 | 20 | 2010 |
| Automated reduction and interpretation of multidimensional mass spectra for analysis of complex peptide mixtures A Gambin, J Dutkowski, J Karczmarski, B Kluge, K Kowalczyk, J Ostrowski, ... International Journal of Mass Spectrometry 260 (1), 20-30, 2007 | 19 | 2007 |
| Classification of peptide mass fingerprint data by novel no-regret boosting method A Gambin, E Szczurek, J Dutkowski, M Bakun, M Dadlez Computers in Biology and Medicine 39 (5), 460-473, 2009 | 7 | 2009 |
