Ilya Nemenman
Cited by
Cited by
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
Predictability, complexity, and learning
W Bialek, I Nemenman, N Tishby
Neural Computation 13 (11), 2409-2463, 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
Reverse engineering cellular networks
AA Margolin, K Wang, WK Lim, M Kustagi, I Nemenman, A Califano
Nature Protocols 1 (2), 662-671, 2006
Entropy and inference, revisited
I Nemenman, F Shafee, W Bialek
Adv. Neural Inf. Proc. Syst. 14, 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
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
Automated adaptive inference of phenomenological dynamical models
BC Daniels, I Nemenman
Nature communications 6 (1), 8133, 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
The Berry phase and the pump flux in stochastic chemical kinetics
NA Sinitsyn, I Nemenman
EPL (Europhysics Letters) 77, 58001, 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
Optimal signal processing in small stochastic biochemical networks
E Ziv, I Nemenman, CH Wiggins
PLoS One 2 (10), e1077, 2007
Zipf's law and criticality in multivariate data without fine-tuning
DJ Schwab, I Nemenman, P Mehta
Physical Review Letters 113, 068102, 2014
Cellular noise and information transmission
A Levchenko, I Nemenman
Current opinion in biotechnology 28, 156-164, 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
Universal geometric theory of mesoscopic stochastic pumps and reversible ratchets
NA Sinitsyn, I Nemenman
Physical review letters 99 (22), 220408, 2007
The simplicity of completion time distributions for common complex biochemical processes
G Bel, B Munsky, I Nemenman
Physical biology 7, 016003, 2010
Complexity through nonextensivity
W Bialek, I Nemenman, N Tishby
Physica A: Statistical Mechanics and its Applications 302 (1-4), 89-99, 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
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
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