| Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega F Sievers, A Wilm, D Dineen, TJ Gibson, K Karplus, W Li, R Lopez, ... Molecular systems biology 7 (1), 539, 2011 | 16341 | 2011 |
| The HHpred interactive server for protein homology detection and structure prediction J Söding, A Biegert, AN Lupas Nucleic acids research 33 (suppl_2), W244-W248, 2005 | 4047 | 2005 |
| Protein homology detection by HMM–HMM comparison J Söding Bioinformatics 21 (7), 951-960, 2005 | 2959 | 2005 |
| MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets M Steinegger, J Söding Nature biotechnology 35 (11), 1026-1028, 2017 | 2653 | 2017 |
| HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment M Remmert, A Biegert, A Hauser, J Söding Nature methods 9 (2), 173-175, 2012 | 2400 | 2012 |
| A completely reimplemented MPI bioinformatics toolkit with a new HHpred server at its core L Zimmermann, A Stephens, SZ Nam, D Rau, J Kübler, M Lozajic, ... Journal of molecular biology 430 (15), 2237-2243, 2018 | 2299 | 2018 |
| HH-suite3 for fast remote homology detection and deep protein annotation M Steinegger, M Meier, M Mirdita, H Vöhringer, SJ Haunsberger, J Söding BMC bioinformatics 20, 1-15, 2019 | 949 | 2019 |
| Fast and accurate protein structure search with Foldseek M van Kempen, SS Kim, C Tumescheit, M Mirdita, J Lee, CLM Gilchrist, ... Nature Biotechnology, 1-4, 2023 | 796 | 2023 |
| Clustering huge protein sequence sets in linear time M Steinegger, J Söding Nature communications 9 (1), 2542, 2018 | 740 | 2018 |
| Uniclust databases of clustered and deeply annotated protein sequences and alignments M Mirdita, L Von Den Driesch, C Galiez, MJ Martin, J Söding, ... Nucleic acids research 45 (D1), D170-D176, 2017 | 648 | 2017 |
| Protein sequence analysis using the MPI bioinformatics toolkit F Gabler, SZ Nam, S Till, M Mirdita, M Steinegger, J Söding, AN Lupas, ... Current Protocols in Bioinformatics 72 (1), e108, 2020 | 611 | 2020 |
| Uniform transitions of the general RNA polymerase II transcription complex A Mayer, M Lidschreiber, M Siebert, K Leike, J Söding, P Cramer Nature structural & molecular biology 17 (10), 1272-1278, 2010 | 569 | 2010 |
| Fast and accurate automatic structure prediction with HHpred A Hildebrand, M Remmert, A Biegert, J Söding Proteins: Structure, Function, and Bioinformatics 77 (S9), 128-132, 2009 | 539 | 2009 |
| CCMpred—fast and precise prediction of protein residue–residue contacts from correlated mutations S Seemayer, M Gruber, J Söding Bioinformatics 30 (21), 3128-3130, 2014 | 473 | 2014 |
| MMseqs2 desktop and local web server app for fast, interactive sequence searches M Mirdita, M Steinegger, J Söding Bioinformatics 35 (16), 2856-2858, 2019 | 425 | 2019 |
| The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis V Alva, SZ Nam, J Söding, AN Lupas Nucleic acids research 44 (W1), W410-W415, 2016 | 415 | 2016 |
| Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold M Steinegger, M Mirdita, J Söding Nature methods 16 (7), 603-606, 2019 | 382 | 2019 |
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| The MPI Bioinformatics Toolkit for protein sequence analysis A Biegert, C Mayer, M Remmert, J Söding, AN Lupas Nucleic acids research 34 (suppl_2), W335-W339, 2006 | 326 | 2006 |
| More than the sum of their parts: on the evolution of proteins from peptides J Söding, AN Lupas Bioessays 25 (9), 837-846, 2003 | 303 | 2003 |
Andrei LupasDirector of the Department of Protein Evolution, Max-Planck-Institute for BiologyVerified email at tuebingen.mpg.de
