SCRATCH: a protein structure and structural feature prediction server J Cheng, AZ Randall, MJ Sweredoski, P Baldi Nucleic acids research 33 (suppl_2), W72-W76, 2005 | 1186 | 2005 |
The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3 CA McHugh, CK Chen, A Chow, CF Surka, C Tran, P McDonel, ... Nature 521 (7551), 232-236, 2015 | 1141 | 2015 |
Broad activation of the ubiquitin–proteasome system by Parkin is critical for mitophagy NC Chan, AM Salazar, AH Pham, MJ Sweredoski, NJ Kolawa, ... Human molecular genetics 20 (9), 1726-1737, 2011 | 1083 | 2011 |
Human gut microbiota from autism spectrum disorder promote behavioral symptoms in mice G Sharon, NJ Cruz, DW Kang, MJ Gandal, B Wang, YM Kim, EM Zink, ... Cell 177 (6), 1600-1618. e17, 2019 | 982 | 2019 |
Cand1 promotes assembly of new SCF complexes through dynamic exchange of F box proteins NW Pierce, JE Lee, X Liu, MJ Sweredoski, RLJ Graham, EA Larimore, ... Cell 153 (1), 206-215, 2013 | 308 | 2013 |
PEPITO: improved discontinuous B-cell epitope prediction using multiple distance thresholds and half sphere exposure MJ Sweredoski, P Baldi Bioinformatics 24 (12), 1459-1460, 2008 | 278 | 2008 |
Accurate prediction of protein disordered regions by mining protein structure data J Cheng, MJ Sweredoski, P Baldi Data mining and knowledge discovery 11, 213-222, 2005 | 268 | 2005 |
COBEpro: a novel system for predicting continuous B-cell epitopes MJ Sweredoski, P Baldi Protein Engineering, Design & Selection 22 (3), 113-120, 2009 | 246 | 2009 |
Evaluation and optimization of mass spectrometric settings during data-dependent acquisition mode: focus on LTQ-Orbitrap mass analyzers A Kalli, GT Smith, MJ Sweredoski, S Hess Journal of proteome research 12 (7), 3071-3086, 2013 | 229 | 2013 |
The top‐down, middle‐down, and bottom‐up mass spectrometry approaches for characterization of histone variants and their post‐translational modifications A Moradian, A Kalli, MJ Sweredoski, S Hess Proteomics 14 (4-5), 489-497, 2014 | 197 | 2014 |
A conserved quality-control pathway that mediates degradation of unassembled ribosomal proteins MK Sung, TR Porras-Yakushi, JM Reitsma, FM Huber, MJ Sweredoski, ... Elife 5, e19105, 2016 | 188 | 2016 |
Glutamine triggers acetylation-dependent degradation of glutamine synthetase via the thalidomide receptor cereblon T Van Nguyen, JE Lee, MJ Sweredoski, SJ Yang, SJ Jeon, JS Harrison, ... Molecular cell 61 (6), 809-820, 2016 | 168 | 2016 |
Composition and regulation of the cellular repertoire of SCF ubiquitin ligases JM Reitsma, X Liu, KM Reichermeier, A Moradian, MJ Sweredoski, ... Cell 171 (6), 1326-1339. e14, 2017 | 142 | 2017 |
Ribosomal proteins produced in excess are degraded by the ubiquitin–proteasome system MK Sung, JM Reitsma, MJ Sweredoski, S Hess, RJ Deshaies Molecular biology of the cell 27 (17), 2642-2652, 2016 | 134 | 2016 |
DOMpro: protein domain prediction using profiles, secondary structure, relative solvent accessibility, and recursive neural networks J Cheng, MJ Sweredoski, P Baldi Data mining and knowledge discovery 13, 1-10, 2006 | 129 | 2006 |
Systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria NM Belliveau, SL Barnes, WT Ireland, DL Jones, MJ Sweredoski, ... Proceedings of the National Academy of Sciences 115 (21), E4796-E4805, 2018 | 103 | 2018 |
Quantitative, time-resolved proteomic analysis by combining bioorthogonal noncanonical amino acid tagging and pulsed stable isotope labeling by amino acids in cell culture JD Bagert, YJ Xie, MJ Sweredoski, Y Qi, S Hess, EM Schuman, DA Tirrell Molecular & Cellular Proteomics 13 (5), 1352-1358, 2014 | 103 | 2014 |
Structural and kinetic analysis of the COP9-Signalosome activation and the cullin-RING ubiquitin ligase deneddylation cycle R Mosadeghi, KM Reichermeier, M Winkler, A Schreiber, JM Reitsma, ... Elife 5, e12102, 2016 | 101 | 2016 |
Cell-specific proteomic analysis in Caenorhabditis elegans KP Yuet, MK Doma, JT Ngo, MJ Sweredoski, RLJ Graham, A Moradian, ... Proceedings of the National Academy of Sciences 112 (9), 2705-2710, 2015 | 99 | 2015 |
Identification of secreted bacterial proteins by noncanonical amino acid tagging A Mahdavi, J Szychowski, JT Ngo, MJ Sweredoski, RLJ Graham, S Hess, ... Proceedings of the National Academy of Sciences 111 (1), 433-438, 2014 | 97 | 2014 |