| SignalP 5.0 improves signal peptide predictions using deep neural networks JJ Almagro Armenteros, KD Tsirigos, CK Sønderby, TN Petersen, ... Nature biotechnology 37 (4), 420-423, 2019 | 2649 | 2019 |
| The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides KD Tsirigos, C Peters, N Shu, L Käll, A Elofsson Nucleic acids research 43 (W1), W401-W407, 2015 | 745 | 2015 |
| DisProt 7.0: a major update of the database of disordered proteins D Piovesan, F Tabaro, I Mičetić, M Necci, F Quaglia, CJ Oldfield, ... Nucleic acids research 45 (D1), D219-D227, 2017 | 280 | 2017 |
| SignalP 6.0 predicts all five types of signal peptides using protein language models F Teufel, JJ Almagro Armenteros, AR Johansen, MH Gíslason, SI Pihl, ... Nature biotechnology 40 (7), 1023-1025, 2022 | 249 | 2022 |
| Combined prediction of Tat and Sec signal peptides with hidden Markov models PG Bagos, EP Nikolaou, TD Liakopoulos, KD Tsirigos Bioinformatics 26 (22), 2811-2817, 2010 | 241 | 2010 |
| A reference map of potential determinants for the human serum metabolome N Bar, T Korem, O Weissbrod, D Zeevi, D Rothschild, S Leviatan, ... Nature 588 (7836), 135-140, 2020 | 172 | 2020 |
| Prediction of lipoprotein signal peptides in Gram-positive bacteria with a Hidden Markov Model PG Bagos, KD Tsirigos, TD Liakopoulos, SJ Hamodrakas Journal of proteome research 7 (12), 5082-5093, 2008 | 127 | 2008 |
| A brief history of protein sorting prediction H Nielsen, KD Tsirigos, S Brunak, G von Heijne The protein journal 38, 200-216, 2019 | 125 | 2019 |
| Prediction of signal peptides in archaea PG Bagos, KD Tsirigos, SK Plessas, TD Liakopoulos, SJ Hamodrakas Protein Engineering, Design & Selection 22 (1), 27-35, 2009 | 98 | 2009 |
| PRED-TMBB2: improved topology prediction and detection of beta-barrel outer membrane proteins KD Tsirigos, A Elofsson, PG Bagos Bioinformatics 32 (17), i665-i671, 2016 | 76 | 2016 |
| Inclusion of dyad-repeat pattern improves topology prediction of transmembrane β-barrel proteins S Hayat, C Peters, N Shu, KD Tsirigos, A Elofsson Bioinformatics 32 (10), 1571-1573, 2016 | 76 | 2016 |
| OMPdb: a database of β-barrel outer membrane proteins from Gram-negative bacteria KD Tsirigos, PG Bagos, SJ Hamodrakas Nucleic acids research 39 (suppl_1), D324-D331, 2010 | 62 | 2010 |
| DeepTMHMM predicts alpha and beta transmembrane proteins using deep neural networks J Hallgren, KD Tsirigos, MD Pedersen, JJ Almagro Armenteros, ... BioRxiv, 2022.04. 08.487609, 2022 | 61 | 2022 |
| DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation F Quaglia, B Mészáros, E Salladini, A Hatos, R Pancsa, LB Chemes, ... Nucleic Acids Research 50 (D1), D480-D487, 2022 | 52 | 2022 |
| Improved topology prediction using the terminal hydrophobic helices rule C Peters, KD Tsirigos, N Shu, A Elofsson Bioinformatics 32 (8), 1158-1162, 2016 | 43 | 2016 |
| A guideline to proteome‐wide α‐helical membrane protein topology predictions KD Tsirigos, A Hennerdal, L Käll, A Elofsson Proteomics 12 (14), 2282-2294, 2012 | 36 | 2012 |
| Prediction of cell wall sorting signals in gram-positive bacteria with a hidden markov model: application to complete genomes ZI Litou, PG Bagos, KD Tsirigos, TD Liakopoulos, SJ Hamodrakas Journal of bioinformatics and computational biology 6 (02), 387-401, 2008 | 35 | 2008 |
| CW-PRED: a HMM-based method for the classification of cell wall-anchored proteins of Gram-positive bacteria DK Fimereli, KD Tsirigos, ZI Litou, TD Liakopoulos, PG Bagos, ... Artificial Intelligence: Theories and Applications: 7th Hellenic Conference …, 2012 | 30 | 2012 |
| ExTopoDB: a database of experimentally derived topological models of transmembrane proteins GN Tsaousis, KD Tsirigos, XD Andrianou, TD Liakopoulos, PG Bagos, ... Bioinformatics 26 (19), 2490-2492, 2010 | 23 | 2010 |
| Semi-supervised learning of Hidden Markov Models for biological sequence analysis IA Tamposis, KD Tsirigos, MC Theodoropoulou, PI Kontou, PG Bagos Bioinformatics 35 (13), 2208-2215, 2019 | 22 | 2019 |
