| MS Amanda, a universal identification algorithm optimized for high accuracy tandem mass spectra V Dorfer, P Pichler, T Stranzl, J Stadlmann, T Taus, S Winkler, K Mechtler Journal of proteome research 13 (8), 3679-3684, 2014 | 451 | 2014 |
| Architecture and design of the heuristiclab optimization environment S Wagner, G Kronberger, A Beham, M Kommenda, A Scheibenpflug, ... Advanced methods and applications in computational intelligence, 197-261, 2014 | 180 | 2014 |
| CharmeRT: Boosting peptide identifications by chimeric spectra identification and retention time prediction V Dorfer, S Maltsev, S Winkler, K Mechtler Journal of proteome research 17 (8), 2581-2589, 2018 | 65 | 2018 |
| Expanding the use of spectral libraries in proteomics EW Deutsch, Y Perez-Riverol, RJ Chalkley, M Wilhelm, S Tate, ... Journal of proteome research 17 (12), 4051-4060, 2018 | 55 | 2018 |
| Advanced Methods and Applications in Computational Intelligence, volume 6 of Topics in Intelligent Engineering and Informatics, chapter Architecture and Design of the … S Wagner, G Kronberger, A Beham, M Kommenda, A Scheibenpflug, ... Springer 53 (55), 197-261, 2014 | 47* | 2014 |
| Data-based prediction of sentiments using heterogeneous model ensembles S Winkler, S Schaller, V Dorfer, M Affenzeller, G Petz, M Karpowicz Soft Computing 19 (12), 3401-3412, 2015 | 30 | 2015 |
| Universal Spectrum Explorer: A standalone (web-) application for cross-resource spectrum comparison T Schmidt, P Samaras, V Dorfer, C Panse, T Kockmann, L Bichmann, ... Journal of Proteome Research, 2021 | 29 | 2021 |
| HeuristicLab 3.3: A unified approach to metaheuristic optimization S Wagner, A Beham, G Kronberger, M Kommenda, E Pitzer, M Kofler, ... Actas del séptimo congreso español sobre Metaheurísticas, Algoritmos …, 2010 | 28 | 2010 |
| MS Annika: A New Cross-Linking Search Engine GJ Pirklbauer, CE Stieger, M Matzinger, S Winkler, K Mechtler, V Dorfer Journal of proteome research 20 (5), 2560-2569, 2021 | 23 | 2021 |
| MS Amanda 2.0: Advancements in the standalone implementation V Dorfer, M Strobl, S Winkler, K Mechtler Rapid Communications in Mass Spectrometry 35 (11), e9088, 2021 | 13 | 2021 |
| PhoStar: Identifying Tandem Mass Spectra of Phosphorylated Peptides before Database Search S Dorl, S Winkler, K Mechtler, V Dorfer Journal of proteome research 17 (1), 290-295, 2017 | 13 | 2017 |
| White Box vs. Black Box Modeling: On the Performance of Deep Learning, Random Forests, and Symbolic Regression in Solving Regression Problems M Affenzeller, B Burlacu, V Dorfer, S Dorl, G Halmerbauer, ... International Conference on Computer Aided Systems Theory, 288-295, 2019 | 11 | 2019 |
| Single Molecule Fluorescence Microscopy and Machine Learning for Rhesus D Antigen Classification DM Borgmann, S Mayr, H Polin, S Schaller, V Dorfer, L Obritzberger, ... Scientific reports 6 (1), 1-12, 2016 | 9 | 2016 |
| On the use of estimated tumour marker classifications in tumour diagnosis prediction–a case study for breast cancer SM Winkler*, M Affenzeller, G Kronberger, M Kommenda, S Wagner, ... International Journal of Simulation and Process Modelling 8 (1), 29-41, 2013 | 9 | 2013 |
| Proceedings of the EuBIC Winter School 2017 S Willems, D Bouyssié, M David, M Locard-Paulet, K Mechtler, ... Journal of proteomics 161, 78-80, 2017 | 8 | 2017 |
| Improved homology-driven computational validation of protein-protein interactions motivated by the evolutionary gene duplication and divergence hypothesis C Frech, M Kommenda, V Dorfer, T Kern, H Hintner, JW Bauer, K Önder BMC bioinformatics 10 (1), 1-13, 2009 | 8 | 2009 |
| Proceedings of the EuBIC-MS 2020 Developers’ Meeting C Ashwood, W Bittremieux, EW Deutsch, NT Doncheva, V Dorfer, ... EuPA Open Proteomics 24, 1-6, 2020 | 6 | 2020 |
| Proceedings of the EuBIC developer's meeting 2018 S Willems, D Bouyssié, D Deforce, V Dorfer, V Gorshkov, D Kopczynski, ... Journal of proteomics 187, 25-27, 2018 | 6 | 2018 |
| The European Bioinformatics Community for Mass Spectrometry (EuBIC‐MS): an open community for bioinformatics training and research W Bittremieux, D Bouyssié, V Dorfer, M Locard‐Paulet, Y Perez‐Riverol, ... Rapid Communications in Mass Spectrometry, e9087, 2021 | 4 | 2021 |
| A symbolic regression based scoring system improving peptide identifications for MS Amanda V Dorfer, S Maltsev, S Dreiseitl, K Mechtler, SM Winkler Proceedings of the Companion Publication of the 2015 Annual Conference on …, 2015 | 3 | 2015 |
