| ElliPro: a new structure-based tool for the prediction of antibody epitopes J Ponomarenko, HH Bui, W Li, N Fusseder, PE Bourne, A Sette, B Peters BMC bioinformatics 9, 1-8, 2008 | 1468 | 2008 |
| The immune epitope database (IEDB) 3.0 R Vita, JA Overton, JA Greenbaum, J Ponomarenko, JD Clark, JR Cantrell, ... Nucleic acids research 43 (D1), D405-D412, 2015 | 1209 | 2015 |
| Immune epitope database analysis resource Y Kim, J Ponomarenko, Z Zhu, D Tamang, P Wang, J Greenbaum, ... Nucleic acids research 40 (W1), W525-W530, 2012 | 542 | 2012 |
| The immune epitope database and analysis resource: from vision to blueprint B Peters, J Sidney, P Bourne, HH Bui, S Buus, G Doh, W Fleri, ... PLoS biology 3 (3), e91, 2005 | 486 | 2005 |
| Immune epitope database analysis resource (IEDB-AR) Q Zhang, P Wang, Y Kim, P Haste-Andersen, J Beaver, PE Bourne, ... Nucleic acids research 36 (suppl_2), W513-W518, 2008 | 419 | 2008 |
| An atlas of alternative splicing profiles and functional associations reveals new regulatory programs and genes that simultaneously express multiple major isoforms J Tapial, KCH Ha, T Sterne-Weiler, A Gohr, U Braunschweig, ... Genome research 27 (10), 1759-1768, 2017 | 401 | 2017 |
| Pre-existing immunity against swine-origin H1N1 influenza viruses in the general human population JA Greenbaum, MF Kotturi, Y Kim, C Oseroff, K Vaughan, N Salimi, R Vita, ... Proceedings of the National Academy of Sciences 106 (48), 20365-20370, 2009 | 399 | 2009 |
| Towards a consensus on datasets and evaluation metrics for developing B‐cell epitope prediction tools JA Greenbaum, PH Andersen, M Blythe, HH Bui, RE Cachau, J Crowe, ... Journal of Molecular Recognition: An Interdisciplinary Journal 20 (2), 75-82, 2007 | 298 | 2007 |
| Antibody-protein interactions: benchmark datasets and prediction tools evaluation JV Ponomarenko, PE Bourne BMC structural biology 7, 1-19, 2007 | 297 | 2007 |
| The microbiome in respiratory medicine: current challenges and future perspectives R Faner, O Sibila, A Agustí, E Bernasconi, JD Chalmers, GB Huffnagle, ... European Respiratory Journal 49 (4), 2017 | 262 | 2017 |
| Control of RelB during dendritic cell activation integrates canonical and noncanonical NF-κB pathways VFS Shih, J Davis-Turak, M Macal, JQ Huang, J Ponomarenko, JD Kearns, ... Nature immunology 13 (12), 1162-1170, 2012 | 209 | 2012 |
| The design and implementation of the immune epitope database and analysis resource B Peters, J Sidney, P Bourne, HH Bui, S Buus, G Doh, W Fleri, ... Immunogenetics 57, 326-336, 2005 | 131 | 2005 |
| The specificity of innate immune responses is enforced by repression of interferon response elements by NF-κB p50 CS Cheng, KE Feldman, J Lee, S Verma, DB Huang, K Huynh, M Chang, ... Science signaling 4 (161), ra11-ra11, 2011 | 110 | 2011 |
| Conformational and physicochemical DNA features specific for transcription factor binding sites. JV Ponomarenko, MP Ponomarenko, AS Frolov, DG Vorobyev, ... Bioinformatics (Oxford, England) 15 (7), 654-668, 1999 | 110 | 1999 |
| Citizen science charts two major “stomatotypes” in the oral microbiome of adolescents and reveals links with habits and drinking water composition JR Willis, P González-Torres, AA Pittis, LA Bejarano, L Cozzuto, ... Microbiome 6, 1-17, 2018 | 109 | 2018 |
| B cell epitope prediction JV Ponomarenko, MHV Van Regenmortel Structural bioinformatics 2, 849-879, 2009 | 106 | 2009 |
| Scalable design of paired CRISPR guide RNAs for genomic deletion C Pulido-Quetglas, E Aparicio-Prat, C Arnan, T Polidori, T Hermoso, ... PLoS computational biology 13 (3), e1005341, 2017 | 96 | 2017 |
| IκBε is a key regulator of B cell expansion by providing negative feedback on cRel and RelA in a stimulus-specific manner BN Alves, R Tsui, J Almaden, MN Shokhirev, J Davis-Turak, J Fujimoto, ... The Journal of Immunology 192 (7), 3121-3132, 2014 | 77 | 2014 |
| IEDB-3D: structural data within the immune epitope database J Ponomarenko, N Papangelopoulos, DM Zajonc, B Peters, A Sette, ... Nucleic acids research 39 (suppl_1), D1164-D1170, 2010 | 77 | 2010 |
| Identification of sequence-dependent DNA features correlating to activity of DNA sites interacting with proteins. MP Ponomarenko, JV Ponomarenko, AS Frolov, NL Podkolodny, ... Bioinformatics (Oxford, England) 15 (7), 687-703, 1999 | 76 | 1999 |
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