ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context A Margolin, I Nemenman, K Basso, C Wiggins, G Stolovitzky, R Favera, ... BMC bioinformatics 7 (Suppl 1), S7, 2006 | 3192 | 2006 |
Predictability, complexity, and learning W Bialek, I Nemenman, N Tishby Neural Computation 13 (11), 2409-2463, 2001 | 672 | 2001 |
Information Transduction Capacity of Noisy Biochemical Signaling Networks R Cheong, A Rhee, CJ Wang, I Nemenman, A Levchenko Science 334 (6054), 354-358, 2011 | 576 | 2011 |
Reverse engineering cellular networks AA Margolin, K Wang, WK Lim, M Kustagi, I Nemenman, A Califano Nature Protocols 1 (2), 662-671, 2006 | 455 | 2006 |
Entropy and inference, revisited I Nemenman, F Shafee, W Bialek Adv. Neural Inf. Proc. Syst. 14, 2001 | 359* | 2001 |
Entropy and information in neural spike trains: Progress on the sampling problem I Nemenman, W Bialek, RDR Van Steveninck Physical Review E 69 (5), 056111, 2004 | 329 | 2004 |
Genome-wide identification of post-translational modulators of transcription factor activity in human B cells K Wang, M Saito, BC Bisikirska, MJ Alvarez, WK Lim, P Rajbhandari, ... Nature biotechnology 27 (9), 829-837, 2009 | 278 | 2009 |
Automated adaptive inference of phenomenological dynamical models BC Daniels, I Nemenman Nature communications 6 (1), 8133, 2015 | 231 | 2015 |
Neural coding of natural stimuli: information at sub-millisecond resolution I Nemenman, GD Lewen, W Bialek, RRR van Steveninck PLoS computational biology 4 (3), e1000025, 2008 | 177 | 2008 |
The Berry phase and the pump flux in stochastic chemical kinetics NA Sinitsyn, I Nemenman EPL (Europhysics Letters) 77, 58001, 2007 | 162 | 2007 |
Cell–cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis D Ellison, A Mugler, MD Brennan, SH Lee, RJ Huebner, ER Shamir, ... Proceedings of the National Academy of Sciences 113 (6), E679-E688, 2016 | 161 | 2016 |
Optimal signal processing in small stochastic biochemical networks E Ziv, I Nemenman, CH Wiggins PLoS One 2 (10), e1077, 2007 | 153 | 2007 |
Cellular noise and information transmission A Levchenko, I Nemenman Current opinion in biotechnology 28, 156-164, 2014 | 143 | 2014 |
Zipf's law and criticality in multivariate data without fine-tuning DJ Schwab, I Nemenman, P Mehta Physical Review Letters 113, 068102, 2014 | 141 | 2014 |
Motor control by precisely timed spike patterns KH Srivastava, CM Holmes, M Vellema, AR Pack, CPH Elemans, ... Proceedings of the National Academy of Sciences 114 (5), 1171-1176, 2017 | 121 | 2017 |
Universal geometric theory of mesoscopic stochastic pumps and reversible ratchets NA Sinitsyn, I Nemenman Physical review letters 99 (22), 220408, 2007 | 119 | 2007 |
The simplicity of completion time distributions for common complex biochemical processes G Bel, B Munsky, I Nemenman Physical biology 7, 016003, 2010 | 115 | 2010 |
Complexity through nonextensivity W Bialek, I Nemenman, N Tishby Physica A: Statistical Mechanics and its Applications 302 (1-4), 89-99, 2001 | 101 | 2001 |
Efficient inference of parsimonious phenomenological models of cellular dynamics using S-systems and alternating regression BC Daniels, I Nemenman PloS one 10 (3), e0119821, 2015 | 94 | 2015 |
The population dynamics of bacteria in physically structured habitats and the adaptive virtue of random motility Y Wei, X Wang, J Liu, I Nememan, AH Singh, H Weiss, BR Levin Proceedings of the National Academy of Sciences 108 (10), 4047-4052, 2011 | 81 | 2011 |