| Charting a dynamic DNA methylation landscape of the human genome MJ Ziller, H Gu, F Müller, J Donaghey, LTY Tsai, O Kohlbacher, ... Nature 500 (7463), 477-481, 2013 | 569 | 2013 |
| OpenMS–an open-source software framework for mass spectrometry M Sturm, A Bertsch, C Gröpl, A Hildebrandt, R Hussong, E Lange, ... BMC bioinformatics 9 (1), 163, 2008 | 470 | 2008 |
| Visualization of omics data for systems biology N Gehlenborg, SI O'donoghue, NS Baliga, A Goesmann, MA Hibbs, ... Nature methods 7, S56-S68, 2010 | 437 | 2010 |
| Specificity prediction of adenylation domains in nonribosomal peptide synthetases (NRPS) using transductive support vector machines (TSVMs) C Rausch, T Weber, O Kohlbacher, W Wohlleben, DH Huson Nucleic acids research 33 (18), 5799-5808, 2005 | 369 | 2005 |
| MultiLoc: prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition A Höglund, P Dönnes, T Blum, HW Adolph, O Kohlbacher Bioinformatics 22 (10), 1158-1165, 2006 | 323 | 2006 |
| NRPSpredictor2—a web server for predicting NRPS adenylation domain specificity M Röttig, MH Medema, K Blin, T Weber, C Rausch, O Kohlbacher Nucleic acids research 39 (suppl_2), W362-W367, 2011 | 291 | 2011 |
| TOPP—the OpenMS proteomics pipeline O Kohlbacher, K Reinert, C Gröpl, E Lange, N Pfeifer, O Schulz-Trieglaff, ... Bioinformatics 23 (2), e191-e197, 2007 | 267 | 2007 |
| Transcriptional and epigenetic dynamics during specification of human embryonic stem cells CA Gifford, MJ Ziller, H Gu, C Trapnell, J Donaghey, A Tsankov, ... Cell 153 (5), 1149-1163, 2013 | 225 | 2013 |
| YLoc—an interpretable web server for predicting subcellular localization S Briesemeister, J Rahnenfï¿ ½hrer, O Kohlbacher Nucleic acids research 38 (suppl_2), W497-W502, 2010 | 146 | 2010 |
| MultiLoc2: integrating phylogeny and Gene Ontology terms improves subcellular protein localization prediction T Blum, S Briesemeister, O Kohlbacher BMC bioinformatics 10 (1), 274, 2009 | 141 | 2009 |
| Tools for label-free peptide quantification S Nahnsen, C Bielow, K Reinert, O Kohlbacher Molecular & Cellular Proteomics 12 (3), 549-556, 2013 | 138 | 2013 |
| Simultaneous alignment of short reads against multiple genomes K Schneeberger, J Hagmann, S Ossowski, N Warthmann, S Gesing, ... Genome biology 10 (9), R98, 2009 | 133 | 2009 |
| The mzIdentML data standard for mass spectrometry-based proteomics results AR Jones, M Eisenacher, G Mayer, O Kohlbacher, J Siepen, SJ Hubbard, ... Molecular & Cellular Proteomics 11 (7), M111. 014381, 2012 | 129 | 2012 |
| BALL—rapid software prototyping in computational molecular biology O Kohlbacher, HP Lenhof Bioinformatics 16 (9), 815-824, 2000 | 117 | 2000 |
| SherLoc: high-accuracy prediction of protein subcellular localization by integrating text and protein sequence data H Shatkay, A Höglund, S Brady, T Blum, P Dönnes, O Kohlbacher Bioinformatics 23 (11), 1410-1417, 2007 | 109 | 2007 |
| Sequence co-evolution gives 3D contacts and structures of protein complexes TA Hopf, CPI Schärfe, JP Rodrigues, AG Green, O Kohlbacher, C Sander, ... Elife 3, e03430, 2014 | 107 | 2014 |
| Reentrant condensation of proteins in solution induced by multivalent counterions F Zhang, MWA Skoda, RMJ Jacobs, S Zorn, RA Martin, CM Martin, ... Physical review letters 101 (14), 148101, 2008 | 107 | 2008 |
| Going from where to why—interpretable prediction of protein subcellular localization S Briesemeister, J Rahnenführer, O Kohlbacher Bioinformatics 26 (9), 1232-1238, 2010 | 105 | 2010 |
| A combinatorial approach to protein docking with flexible side chains E Althaus, O Kohlbacher, HP Lenhof, P Müller Journal of Computational Biology 9 (4), 597-612, 2002 | 89 | 2002 |
| An automated pipeline for high-throughput label-free quantitative proteomics H Weisser, S Nahnsen, J Grossmann, L Nilse, A Quandt, H Brauer, ... Journal of proteome research 12 (4), 1628-1644, 2013 | 87 | 2013 |