| pROC: an open-source package for R and S+ to analyze and compare ROC curves X Robin, N Turck, A Hainard, N Tiberti, F Lisacek, JC Sanchez, M Müller BMC bioinformatics 12, 1-8, 2011 | 10946 | 2011 |
| SuperHirn – a novel tool for high resolution LC‐MS‐based peptide/protein profiling LN Mueller, O Rinner, A Schmidt, S Letarte, B Bodenmiller, MY Brusniak, ... Proteomics 7 (19), 3470-3480, 2007 | 1100 | 2007 |
| Reproducible isolation of distinct, overlapping segments of the phosphoproteome B Bodenmiller, LN Mueller, M Mueller, B Domon, R Aebersold Nature methods 4 (3), 231-237, 2007 | 649 | 2007 |
| Identification of cross-linked peptides from large sequence databases O Rinner, J Seebacher, T Walzthoeni, LN Mueller, M Beck, A Schmidt, ... Nature methods 5 (4), 315-318, 2008 | 517 | 2008 |
| Key parameters of tumor epitope immunogenicity revealed through a consortium approach improve neoantigen prediction DK Wells, MM van Buuren, KK Dang, VM Hubbard-Lucey, KCF Sheehan, ... Cell 183 (3), 818-834. e13, 2020 | 380 | 2020 |
| Integrated proteogenomic deep sequencing and analytics accurately identify non-canonical peptides in tumor immunopeptidomes C Chong, M Müller, HS Pak, D Harnett, F Huber, D Grun, M Leleu, ... Nature communications 11 (1), 1293, 2020 | 254 | 2020 |
| Processing and classification of protein mass spectra M Hilario, A Kalousis, C Pellegrini, M Mueller Mass spectrometry reviews 25 (3), 409-449, 2006 | 247 | 2006 |
| Automated protein identification by tandem mass spectrometry: issues and strategies P Hernandez, M Müller, RD Appel Mass spectrometry reviews 25 (2), 235-254, 2006 | 240 | 2006 |
| An integrated mass spectrometric and computational framework for the analysis of protein interaction networks O Rinner, LN Mueller, M Hubálek, M Müller, M Gstaiger, R Aebersold Nature biotechnology 25 (3), 345-352, 2007 | 214 | 2007 |
| Processing strategies and software solutions for data‐independent acquisition in mass spectrometry A Bilbao, E Varesio, J Luban, C Strambio‐De‐Castillia, G Hopfgartner, ... Proteomics 15 (5-6), 964-980, 2015 | 212 | 2015 |
| Improving protein identification from peptide mass fingerprinting through a parameterized multi‐level scoring algorithm and an optimized peak detection R Gras, M Müller, E Gasteiger, S Gay, PA Binz, W Bienvenut, C Hoogland, ... ELECTROPHORESIS: An International Journal 20 (18), 3535-3550, 1999 | 202 | 1999 |
| High-throughput and sensitive immunopeptidomics platform reveals profound interferonγ-mediated remodeling of the human leukocyte antigen (HLA) ligandome C Chong, F Marino, HS Pak, J Racle, RT Daniel, M Müller, D Gfeller, ... Molecular & Cellular Proteomics 17 (3), 533-548, 2018 | 199 | 2018 |
| A molecular scanner to automate proteomic research and to display proteome images PA Binz, M Müller, D Walther, WV Bienvenut, R Gras, C Hoogland, ... Analytical chemistry 71 (21), 4981-4988, 1999 | 185 | 1999 |
| An integrated, directed mass spectrometric approach for in-depth characterization of complex peptide mixtures A Schmidt, N Gehlenborg, B Bodenmiller, LN Mueller, D Campbell, ... Molecular & Cellular Proteomics 7 (11), 2138-2150, 2008 | 171 | 2008 |
| Quantitative proteomic analysis of protein complexes: concurrent identification of interactors and their state of phosphorylation D Pflieger, MA Jünger, M Müller, O Rinner, H Lee, PM Gehrig, M Gstaiger, ... Molecular & cellular proteomics 7 (2), 326-346, 2008 | 133 | 2008 |
| Estimating the contribution of proteasomal spliced peptides to the HLA-I ligandome R Mylonas, I Beer, C Iseli, C Chong, HS Pak, D Gfeller, G Coukos, ... Molecular & Cellular Proteomics 17 (12), 2347-2357, 2018 | 108 | 2018 |
| Analysis of Cell Surface Proteome Changes via Label-free, Quantitative Mass Spectrometry* S R Schiess, LN Mueller, A Schmidt, M Mueller, B Wollscheid, R Aebersold Molecular & cellular proteomics 8 (4), 624-638, 2009 | 108 | 2009 |
| Unrestricted identification of modified proteins using MS/MS E Ahrné, M Müller, F Lisacek Proteomics 10 (4), 671-686, 2010 | 101 | 2010 |
| Open source libraries and frameworks for mass spectrometry based proteomics: a developer's perspective Y Perez-Riverol, R Wang, H Hermjakob, M Müller, V Vesada, JA Vizcaíno Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics 1844 (1), 63-76, 2014 | 100 | 2014 |
| Machine learning approaches to lung cancer prediction from mass spectra M Hilario, A Kalousis, M Müller, C Pellegrini Proteomics 3 (9), 1716-1719, 2003 | 94 | 2003 |
frederique lisacekSIB Swiss Institute of Bioinformatics / University of GenevaVerified email at isb-sib.ch
