| Global landscape of protein complexes in the yeast Saccharomyces cerevisiae NJ Krogan, G Cagney, H Yu, G Zhong, X Guo, A Ignatchenko, J Li, S Pu, ... Nature 440 (7084), 637-643, 2006 | 3482 | 2006 |
| Detecting overlapping protein complexes in protein-protein interaction networks T Nepusz, H Yu, A Paccanaro Nature methods 9 (5), 471-472, 2012 | 1335 | 2012 |
| A large-scale evaluation of computational protein function prediction P Radivojac, WT Clark, TR Oron, AM Schnoes, T Wittkop, A Sokolov, ... Nature methods 10 (3), 221-227, 2013 | 1089 | 2013 |
| A census of human soluble protein complexes PC Havugimana, GT Hart, T Nepusz, H Yang, AL Turinsky, Z Li, PI Wang, ... Cell 150 (5), 1068-1081, 2012 | 954 | 2012 |
| Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins P Hu, SC Janga, M Babu, JJ Díaz-Mejía, G Butland, W Yang, O Pogoutse, ... PLoS biology 7 (4), e1000096, 2009 | 444 | 2009 |
| An expanded evaluation of protein function prediction methods shows an improvement in accuracy Y Jiang, TR Oron, WT Clark, AR Bankapur, D D’Andrea, R Lepore, ... Genome biology 17, 1-19, 2016 | 426 | 2016 |
| The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens N Zhou, Y Jiang, TR Bergquist, AJ Lee, BZ Kacsoh, AW Crocker, ... Genome biology 20, 1-23, 2019 | 389 | 2019 |
| Assessing the limits of genomic data integration for predicting protein networks LJ Lu, Y Xia, A Paccanaro, H Yu, M Gerstein Genome research 15 (7), 945-953, 2005 | 267 | 2005 |
| Quantifying environmental adaptation of metabolic pathways in metagenomics TA Gianoulis, J Raes, PV Patel, R Bjornson, JO Korbel, I Letunic, ... Proceedings of the National Academy of Sciences 106 (5), 1374-1379, 2009 | 236 | 2009 |
| Spectral clustering of protein sequences A Paccanaro, JA Casbon, MAS Saqi Nucleic acids research 34 (5), 1571-1580, 2006 | 229 | 2006 |
| Predicting interactions in protein networks by completing defective cliques H Yu, A Paccanaro, V Trifonov, M Gerstein Bioinformatics 22 (7), 823-829, 2006 | 226 | 2006 |
| Clustering of Pseudomonas aeruginosa transcriptomes from planktonic cultures, developing and mature biofilms reveals distinct expression profiles RD Waite, A Paccanaro, A Papakonstantinopoulou, JM Hurst, M Saqi, ... BMC genomics 7, 1-14, 2006 | 188 | 2006 |
| Learning distributed representations of concepts using linear relational embedding A Paccanaro, GE Hinton IEEE Transactions on Knowledge and Data Engineering 13 (2), 232-244, 2001 | 148 | 2001 |
| Predicting essential genes in fungal genomes M Seringhaus, A Paccanaro, A Borneman, M Snyder, M Gerstein Genome research 16 (9), 1126-1135, 2006 | 144 | 2006 |
| mutation3D: cancer gene prediction through atomic clustering of coding variants in the structural proteome MJ Meyer, R Lapcevic, AE Romero, M Yoon, J Das, JF Beltrán, M Mort, ... Human mutation 37 (5), 447-456, 2016 | 113 | 2016 |
| Improving GO semantic similarity measures by exploring the ontology beneath the terms and modelling uncertainty H Yang, T Nepusz, A Paccanaro Bioinformatics 28 (10), 1383-1389, 2012 | 105 | 2012 |
| OsWRKY22, a monocot WRKY gene, plays a role in the resistance response to blast P Abbruscato, T Nepusz, L Mizzi, M Del Corvo, P Morandini, I Fumasoni, ... Molecular plant pathology 13 (8), 828-841, 2012 | 103 | 2012 |
| Exploring the evolutionary path of plant MAPK networks R Dóczi, L Ökrész, AE Romero, A Paccanaro, L Bögre Trends in plant science 17 (9), 518-525, 2012 | 98 | 2012 |
| Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions ZD Zhang, A Paccanaro, Y Fu, S Weissman, Z Weng, J Chang, M Snyder, ... Genome research 17 (6), 787-797, 2007 | 97 | 2007 |
| Predicting the frequencies of drug side effects D Galeano, S Li, M Gerstein, A Paccanaro Nature communications 11 (1), 4575, 2020 | 93 | 2020 |
