| Recon 3D enables a three-dimensional view of gene variation in human metabolism E Brunk, S Sahoo, DC Zielinski, A Altunkaya, N Mih, A Prlić, A Sastry, ... Nature Biotechnology 36 (3), 272-281, 2018 | 686 | 2018 |
| iML1515, a knowledgebase that computes Escherichia coli traits J Monk*, C Llyod*, E Brunk*, A Mih, N., Sastry, Z King, R Takeuchi, ... Nature Biotechnology, 2017 | 517 | 2017 |
| Mixed quantum mechanical/molecular mechanical molecular dynamics simulations of biological systems in ground and electronically excited states E Brunk, U Rothlisberger Chemical reviews 115 (12), 6217-6263, 2015 | 466 | 2015 |
| NAD metabolic dependency in cancer is shaped by gene amplification and enhancer remodelling S Chowdhry, C Zanca, U Rajkumar, T Koga, Y Diao, R Raviram, F Liu, ... Nature 569 (7757), 570-575, 2019 | 203 | 2019 |
| Multi-omic data integration enables discovery of hidden biological regularities A Ebrahim*, E Brunk*, J Tan*, EJ O’Brien, K Donghyuk, J Lerman, ... Nature Communications 7 (doi:10.1038/ncomms13091), 2016 | 171 | 2016 |
| Model-driven discovery of underground metabolic functions in Escherichia coli GI Guzmán*, J Utrilla*, S Nurk, E Brunk, JM Monk, A Ebrahim, BO Palsson, ... Proceedings of the National Academy of Sciences 112 (3), 929-934, 2015 | 112 | 2015 |
| Directed Evolution of the Suicide Protein O6-Alkylguanine-DNA Alkyltransferase for Increased Reactivity Results in an Alkylated Protein with Exceptional Stability B Mollwitz, E Brunk, S Schmitt, F Pojer, M Bannwarth, M Schiltz, ... Biochemistry 51 (5), 986-994, 2012 | 110 | 2012 |
| Characterizing Strain Variation in Engineered E. coli Using a Multi-omics Based Workflow E Brunk*, KJ George*, J Alonso-Gutierrez, M Thompson, E Baidoo, ... Cell Systems, 2016 | 99 | 2016 |
| Evolution of gene knockout strains of E. coli reveal regulatory architectures governed by metabolism D McCloskey, S Xu, TE Sandberg, E Brunk, Y Hefner, R Szubin, AM Feist, ... Nature communications 9 (1), 3796, 2018 | 70 | 2018 |
| Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework G Glusman, PW Rose, A Prlić, J Dougherty, JM Duarte, AS Hoffman, ... Genome medicine 9, 1-10, 2017 | 61 | 2017 |
| Systems Biology of the Structural Proteome E Brunk*, J Mih*, N, Monk, K Chen, Z Zhang, S Bliven, E O’Brien, ... BMC Systems Biology, 2016 | 61 | 2016 |
| The Need for Integrated Approaches in Metabolic Engineering A Lechner, E Brunk, JD Keasling Cold Spring Harbor Perspectives, 2016 | 52 | 2016 |
| Characterizing post-translational modifications in prokaryote metabolism using a multi-scale workflow E Brunk, RL Chang, J Xia, H Hefzi, JT Yurkovich, D Kim, E Buckmiller, ... PNAS, 2018 | 48 | 2018 |
| A streamlined ribosome profiling protocol for the characterization of microorganisms H Latif, R Szubin, J Tan, E Brunk, A Lechner, K Zengler, BO Palsson BioTechniques 58 (6), 329–332, 2015 | 48 | 2015 |
| Adaptive laboratory evolution resolves energy depletion to maintain high aromatic metabolite phenotypes in Escherichia coli strains lacking the phosphotransferase system D McCloskey, S Xu, TE Sandberg, E Brunk, Y Hefner, R Szubin, AM Feist, ... Metabolic engineering 48, 233-242, 2018 | 47 | 2018 |
| Adaptation to the coupling of glycolysis to toxic methylglyoxal production in tpiA deletion strains of Escherichia coli requires synchronized and counterintuitive genetic changes D McCloskey, S Xu, TE Sandberg, E Brunk, Y Hefner, R Szubin, AM Feist, ... Metabolic engineering 48, 82-93, 2018 | 41 | 2018 |
| Integrating computational methods to retrofit enzymes to synthetic pathways E Brunk, M Neri, I Tavernelli, V Hatzimanikatis, U Rothlisberger Biotechnology and bioengineering 109 (2), 572-582, 2012 | 38 | 2012 |
| ssbio: a Python framework for structural systems biology N Mih, E Brunk, K Chen, E Catoiu, A Sastry, E Kavvas, JM Monk, Z Zhang, ... Bioinformatics 34 (12), 2155-2157, 2018 | 37 | 2018 |
| Role of environment for catalysis of the DNA repair enzyme MutY E Brunk, JS Arey, U Rothlisberger Journal of the American Chemical Society 134 (20), 8608-8616, 2012 | 34 | 2012 |
| Growth Adaptation of gnd and sdhCB Escherichia coli Deletion Strains Diverges From a Similar Initial Perturbation of the Transcriptome D McCloskey, S Xu, TE Sandberg, E Brunk, Y Hefner, R Szubin, AM Feist, ... Frontiers in microbiology 9, 1793, 2018 | 31 | 2018 |
Ursula RothlisbergerProfessor of Computational Chemistry and BiochemistryVerified email at epfl.ch
