Richard Bonneau
TitleCited byYear
Wisdom of crowds for robust gene network inference
D Marbach, JC Costello, R Küffner, NM Vega, RJ Prill, DM Camacho, ...
Nature methods 9 (8), 796, 2012
11262012
The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts
AG Baltz, M Munschauer, B Schwanhäusser, A Vasile, Y Murakawa, ...
Molecular cell 46 (5), 674-690, 2012
7972012
A validated regulatory network for Th17 cell specification
M Ciofani, A Madar, C Galan, ML Sellars, K Mace, F Pauli, A Agarwal, ...
Cell 151 (2), 289-303, 2012
7562012
Innate immune detection of the type III secretion apparatus through the NLRC4 inflammasome
EA Miao, DP Mao, N Yudkovsky, R Bonneau, CG Lorang, SE Warren, ...
Proceedings of the National Academy of Sciences 107 (7), 3076-3080, 2010
6512010
Tweeting from left to right: Is online political communication more than an echo chamber?
P Barberá, JT Jost, J Nagler, JA Tucker, R Bonneau
Psychological science 26 (10), 1531-1542, 2015
6242015
Ab initio protein structure prediction of CASP III targets using ROSETTA
KT Simons, R Bonneau, I Ruczinski, D Baker
Proteins: Structure, Function, and Bioinformatics 37 (S3), 171-176, 1999
5891999
The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo
R Bonneau, DJ Reiss, P Shannon, M Facciotti, L Hood, NS Baliga, ...
Genome biology 7 (5), R36, 2006
5262006
Structural bioinformatics
J Gu, PE Bourne
John Wiley & Sons, 2009
4312009
Ab initio protein structure prediction: progress and prospects
R Bonneau, D Baker
Annual review of biophysics and biomolecular structure 30 (1), 173-189, 2001
3862001
Genome sequence of Haloarcula marismortui: a halophilic archaeon from the Dead Sea
NS Baliga, R Bonneau, MT Facciotti, M Pan, G Glusman, EW Deutsch, ...
Genome research 14 (11), 2221-2234, 2004
3462004
Rosetta in CASP4: progress in ab initio protein structure prediction
R Bonneau, J Tsai, I Ruczinski, D Chivian, C Rohl, CEM Strauss, D Baker
Proteins: Structure, Function, and Bioinformatics 45 (S5), 119-126, 2001
3372001
Sparse and compositionally robust inference of microbial ecological networks
ZD Kurtz, CL Müller, ER Miraldi, DR Littman, MJ Blaser, RA Bonneau
PLoS computational biology 11 (5), 2015
3322015
Automated prediction of CASP‐5 structures using the Robetta server
D Chivian, DE Kim, L Malmström, P Bradley, T Robertson, P Murphy, ...
Proteins: Structure, Function, and Bioinformatics 53 (S6), 524-533, 2003
3192003
De novo prediction of three-dimensional structures for major protein families
R Bonneau, CEM Strauss, CA Rohl, D Chivian, P Bradley, L Malmström, ...
Journal of molecular biology 322 (1), 65-78, 2002
3022002
A predictive model for transcriptional control of physiology in a free living cell
R Bonneau, MT Facciotti, DJ Reiss, AK Schmid, M Pan, A Kaur, ...
Cell 131 (7), 1354-1365, 2007
3002007
Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks
DJ Reiss, NS Baliga, R Bonneau
BMC bioinformatics 7 (1), 280, 2006
2792006
An IL-23R/IL-22 circuit regulates epithelial serum amyloid A to promote local effector Th17 responses
T Sano, W Huang, JA Hall, Y Yang, A Chen, SJ Gavzy, JY Lee, JW Ziel, ...
Cell 163 (2), 381-393, 2015
2602015
CX3CR1+ mononuclear phagocytes support colitis-associated innate lymphoid cell production of IL-22
RS Longman, GE Diehl, DA Victorio, JR Huh, C Galan, ER Miraldi, ...
Journal of Experimental Medicine 211 (8), 1571-1583, 2014
2132014
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), 184, 2016
2112016
The Rosetta all-atom energy function for macromolecular modeling and design
RF Alford, A Leaver-Fay, JR Jeliazkov, MJ O’Meara, FP DiMaio, H Park, ...
Journal of chemical theory and computation 13 (6), 3031-3048, 2017
2102017
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