nemenman>Ilya at 18:21, 23 August 2017

2017-08-23T18:21:11Z

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{{RES_OVERVIEW}}

Updated by [[User:Ilya|Ilya]] Jan 29, 2017.

Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].

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==Refereed Articles==
#C Holmes, M Ghafari, A Anzar, V Saravanan, I Nemenman. Luria-Delbruck, revisited: The classic experiment does not rule out Lamarckian evolution. Submitted, 2017. [[media:holmes-etal-17.pdf|PDF]], [[Holmes et al., 2017|Abstract]], [http://arxiv.org/abs/1701.05627 arXiv].
#X Shao, BR Levin, I Nemenman. Single variant bottleneck in the early dynamics of H. influenzae bacteremia in neonatal rats questions the theory of independent action. Submitted, 2016. [http://arxiv.org/abs/1609.04856 arXiv].
#X Shao, A Mugler, J Kim, HJ Jeong, B Levin, I Nemenman. Growth of bacteria in 3-d colonies. Submitted, 2016. [http://arxiv.org/abs/arXiv:1605.01098 arXiv].
#V Singh and I Nemenman. Accurate sensing of multiple ligands with a single receptor. Submitted, 2015. [[media:nemenman-singh-15.pdf |PDF]], [[Nemenman and Singh, 2015| Abstract]], [http://arXiv.org/abs/1506.00288 arXiv].
#K Srivastava, C Holmes, M Vellema, A Pack, C Elemans, I Nemenman, and S Sober. Motor control by precisely timed spike patterns. ''PNAS'', 2017, 10.1073/pnas.1611734114. [[media:srivastava-etal-17.pdf|PDF]], [[Srivastava et al., 2017 |Abstract]], [http://arxiv.org/abs/1605.09023 arXiv].
#K Leung, A Mohammadi, W Ryu, and I Nemenman, Stereotypical escape behavior in Caenorhabditis elegans allows quantification of nociceptive stimuli levels. ''PLOS Comp Biol'' '''12''' (12): e1005262. 2016. [[media:leung-etal-16.pdf|PDF]], [[Leung et al., 2016|Abstract]], [http://arxiv.org/abs/1601.04685 arXiv].
#V Singh, M Tchernookov, I Nemenman. Effects of receptor correlations on molecular information transmission. ''Physical Review E'' '''94''' (2), 022425, 2016.
#T Smith, S Fancher, A Levchenko, I Nemenman, and Andrew Mugler. Role of spatial averaging in multicellular gradient sensing. Submitted, 2016. [[media:smith-etal-16.pdf|PDF]], [[Smith et al., 2016|Abstract]], [http://arxiv.org/abs/1512.08328 arXiv].
#I Nemenman, ME Wall and CE Strauss. Of fishes and birthdays: Efficient estimation of polymer configurational entropies. Submitted, 2015. [[media:nemenman-etal-15.pdf|PDF]], [[Nemenman et al., 2015|Abstract]], [http://arXiv.org/abs/1502.02364 arXiv].
#L Merchan and I Nemenman. On the sufficiency of pairwise interactions in maximum entropy models of biological networks. ''J Stat Phys'' '''162''' (5), 1294-1308, 2016. [[media:merchan-nemenman-15.pdf|PDF]], [[Merchan and Nemenman, 2015|Abstract]], [http://arXiv.org/abs/1505.02831 arXiv].
#A Mugler and A Levchenko and I Nemenman. Limits to the precision of gradient sensing with spatial communication and temporal integration. ''PNAS'', 2016. doi/10.1073/pnas.1509597112 [[media:mugler-etal-16a.pdf| PDF]], [[Mugler et al., 2015|Abstract]], [http://arXiv.org/abs/1505.04346 arXiv].
#D Ellison, A Mugler, M Brennan, S H Lee, R Huebner, E Shamir, L A Woo, J Kim, P Amar, I Nemenman, A J Ewald, A Levchenko. Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis. ''PNAS'', 2016. doi/10.1073/pnas.1516503113 [[media:ellison-etal-16.pdf| PDF]], [[Ellison et al., 2016|Abstract]], [http://arxiv.org/abs/1508.04692 arXiv].
#I Nemenman. A mathematical framework for falsifiability. ''Physics Today'' '''68'''(10), 11, 2015. [[media:Nemenman-2015.pdf|PDF]], [[Nemenman, 2015| Abstract]], [http://arxiv.org/abs/1506.00914 arXiv].
#B Daniels and I Nemenman. Automated adaptive inference of phenomenological dynamical models. ''Nature Communications'' '''6''', 8133, 2015. [[media:daniels-nemenman-15.pdf| PDF]], [[Daniels and Nemenman, 2015a | Abstract]], [http://arxiv.org/abs/1404.6283 arXiv].
#B Daniels and I Nemenman. Efficient inference of parsimonious phenomenological models of cellular dynamics using S-systems and alternating regression. ''PLoS ONE'' '''10''': e0119821, 2015. [[media:daniels-nemenman-14a.pdf| PDF]], [[Daniels and Nemenman, 2015 | Abstract]], [http://arxiv.org/abs/1406.4069 arXiv].
#C Tang, D Chehayeb, K Srivastava, I Nemenman, and S Sober. Millisecond-scale motor encoding in a cortical vocal area. ''PLoS Biol'' '''12''', e1002018, 2014. [[media:tang-etal-14.pdf | PDF]], [[Tang et al., 2014 | Abstract]], [http://arxiv.org/abs/1404.0669 arXiv].
#V Singh, M Tchernookov, R Butterfield, and I Nemenman. Director field model of the primary visual cortex for contour detection. ''PLoS ONE'' '''9''', e108991, 2014. [[media:singh-etal-14.pdf | PDF]], [http://arxiv.org/abs/1310.1341 arXiv], [[Singh et al., 2014 | Abstract]].
#D Schwab, I Nemenman, and P Mehta. Zipf’s law and criticality in multivariate data without fine-tuning. ''Phys Rev Lett'' '''113''', 068102, 2014. [[media:schwab-etal-14.pdf |PDF]], [http://arxiv.org/abs/1310.0448 arXiv]. [[Schwab et al., 2014 | Abstract]].
#A Levchenko and I Nemenman. Cellular noise and information transmission. ''Current Opinion Biotech'' '''28''', 156, 2014. [[media:levchenko-nemenman-14.pdf | PDF]], [[Levchenko and Nemenman, 2014 | Abstract]].
#M Tchernookov and I Nemenman, Predictive information in a nonequilibrium critical model. ''J Stat Phys'' '''153''', 442, 2013. [[media:tchernookov-nemenman-2013.pdf|PDF]], [http://arxiv.org/abs/1212.3896 arXiv], [[Tchernookov and Nemenman, 2013 | Abstract]].
#X Cheng, L Merchan, M Tchernookov, and I Nemenman. Large number of receptors may reduce cellular response time variation. ''Physical Biology'' '''10''', 035008, 2013. [[media:cheng-2012.pdf|PDF]], [http://arxiv.org/abs/1212.1229 arXiv], [[Cheng et al., 2013 | Abstract]].
#S Stromberg, R Antia, and I Nemenman. Population-expression models of immune response. ''Physical Biology'' '''10''', 035010, 2013. [[media:stromberg-2012.pdf | PDF]], [http://arxiv.org/abs/1209.3820 arXiv], [[Stromberg et al., 2013 | Abstract]].
#[[image:f100prime.gif]] [http://f1000.com/prime/718109089?bd=1&ui=21821 '''Recommended'''] J Otwinowski and I Nemenman. Genotype to phenotype mapping and the fitness landscape of the ''E. coli'' lac promoter. ''PLoS ONE'' '''8''', e61570, 2013. [[media:otwinowski-2012.pdf | PDF]], [http://arXiv.org/abs/physics/1206.4209 arXiv], [[Otwinowski and Nemenman, 2013 | Abstract]].
#I Nemenman, Information theory and adaptation. In ''Quantitative biology: From molecules to Cellular Systems'', ME Wall, ed. (Taylor and Francis, 2012). [[media:nemenman-2011.pdf|PDF]], [http://arxiv.org/abs/1011.5466 arXiv], [[Nemenman, 2012a|Abstract]].
#I Nemenman. Gain control in molecular information processing: Lessons from neuroscience. ''Physical Biology'' '''9''', 026003, 2012. [[media:nemenman-2012.pdf|PDF]], [http://arxiv.org/abs/1108.0736 arXiv], [[Nemenman, 2012|Abstract]].
#I Nemenman. Coincidences and estimation of entropies of random variables with large cardinalities. ''Entropy'' '''13''', 2013-2023, 2011. [[media:nemenman_2011b.pdf | PDF]], [http://arXiv.org/abs/physics/0207009 arXiv], [[Nemenman, 2011b | Abstract]].
#S Tanase-Nicola and I Nemenman. Fitness in time-dependent environments includes a geometric phase contribution. ''J Roy Soc Interface'' doi:10.1098/rsif.2011.0695, 2011. [[media:tanase-nicola-2011.pdf|PDF]], [http://arxiv.org/abs/1106.0079 arXiv], [[Tanase-Nicola and Nemenman, 2011|Abstract]].
#R Cheong, A Rhee, CJ Wang, I Nemenman, and A Levchenko. Information transduction capacity of noisy biochemical signaling networks. ''Science'' '''334''', 354–358, 2011. [[media:cheong-etal-2011.pdf|PDF]], [[Cheong et al., 2011|Abstract]], [[media:cheong-etal-2011-supp.pdf |Supplements]].
#V Gintautas, M Ham, B Kunsberg, S Barr, S Brumby, C Rasmussen, J George, I Nemenman, L Bettencourt, G Kenyon. Model cortical association fields account for the time course and dependence on target complexity of human contour perception. ''PLoS Comput Biol'' '''7''', e1002162, 2011. [[media:gintautas-etal-11.pdf|PDF]], [http://arxiv.org/abs/1102.0566 arXiv], [[Gintautas et al., 2011|Abstract]].
#J Otwinowski, S Tanase-Nicola, and I Nemenman. Speeding up evolutionary search by small fitness fluctuations. ''J Stat Phys'' '''144''', 367-378, 2011. [[media:otwinowski-2011.pdf|PDF]], [http://arxiv.org/abs/1012.5343 arXiv], [[Otwinowski et al., 2011|Abstract]].
#Y Wei, X Wang, J Liu, I Nemenman, A Singh, H Weiss, and B Levin. The population and evolutionary dynamics of bacteria in physically structured habitats and the adaptive virtues of random motility. ''Proc Natl Acad Sci (USA)'' '''108''', 4047, 2011. [[media:wei-etal-2011.pdf|PDF]], [[Wei et al., 2011|Abstract]].
#P Bandaru, M Bansal, and I Nemenman. Mass conservation and Inference of metabolic networks from high-throughput mass spectrometry data. ''J Comp Bio'' '''18''', 147, 2011. [[media:bandaru-etal-2011.pdf|PDF]], [http://arxiv.org/abs/1007.0986 arXiv], [[Bandaru et al., 2011|Abstract]].
#*Appeared in RECOMB Systems Biology Satellite, 2010.
#N Sinitsyn and I Nemenman, Time-dependent corrections to effective rate and event statistics in Michaelis-Menten kinetics. ''IET Syst Biol'' '''4''', 409, 2010. [[media:sinitsyn-nemenman-2010.pdf | PDF]], [http://arxiv.org/abs/1001.4212 arXiv], [[Sinitsyn and Nemenman, 2010| Abstract]].
#A Margolin, K Wang, A Califano, and I Nemenman. Multivariate dependence and genetic networks inference. ''IET Syst Biol'' '''4''', 428, 2010. [[media:margolin-etal-2010.pdf | PDF]], [http://arxiv.org/abs/1001.1681 arXiv], [[Margolin et al., 2010| Abstract]].
#* Preliminary version appear as: I Nemenman. Information theory, multivariate dependence, and genetic network inference. ''Technical Report'' NSF-KITP-04-54, KITP, UCSB, 2004. [[media:nemenman-04.pdf | PDF]], [http://arXiv.org/abs/q-bio/0406015 arXiv], [[Nemenman, 2004 | Abstract]].
#G Bel, B Munsky, and I Nemenman. The simplicity of completion time distributions for common complex biochemical processes. ''Physical Biology'' '''7''' 016003, 2010. [[media:bel-et-al-10.pdf | PDF]], [http://arxiv.org/abs/0904.1587 arXiv], [[Bel et al, 2010 | Abstract]].
#B Munsky, I Nemenman, and G Bel. Specificity and Completion Time Distributions of Biochemical Processes. ''J. Chem. Phys.'' '''131''', 235103, 2009. [[media:munsky-etal-09.pdf | PDF]], [http://arxiv.org/abs/0909.2631 arXiv], [[Munsky et al., 2009 | Abstract]].
#[[image:f1000.gif]] '''Recommended.''' K Wang, M Saito, B Bisikirska, M Alvarez, W Lim, P Rajbhandari, Q Shen, I Nemenman, K Basso, A Margolin, U Klein, R Dalla-Favera, and A Califano. Genome-wide identification of post-translational modulators of transcription factor activity in human B cells. ''Nature Biotech.'' '''27''':829, 2009. [[media:wang-etal-09.pdf | PDF]], [[Wang et al., 2009 | Abstract]], [http://www.nature.com.proxy.library.emory.edu/nbt/journal/v27/n9/suppinfo/nbt.1563_S1.html Supplementary Info].
#W de Ronde, B Daniels, A Mugler, N Sinitsyn, and I Nemenman. Statistical properties of multistep enzyme-mediated reactions. ''IET Syst. Biol.'' '''3''':429, 2009. [[media:deronde-etal-09.pdf |PDF]], [http://arxiv.org/abs/arXiv:0811.3283 arXiv], [[de Ronde et al., 2009 | Abstract]].
#A Mugler, E Ziv, I Nemenman, C Wiggins. Quantifying evolvability in small biological networks. ''IET Syst. Biol.'' '''3''':379, 2009. [[media:mugler-etal-09.pdf | PDF]], [http://arxiv.org/abs/0811.2834 arXiv], [[Mugler et al. 2009 | Abstract]].
#G Bel and I Nemenman, Ergodic and non-ergodic anomalous diffusion in coupled stochastic processes. ''New J. Phys.'' '''11''' 083009, 2009. [[media:bel-nemenman-09.pdf | PDF]], [http://arxiv.org/abs/0901.4785 arXiv], [[Bel and Nemenman, 2009 |Abstract]].
#N Sinitsyn, N Hengartner, and I Nemenman. Adiabatic coarse-graining and simulations of stochastic biochemical networks. ''Proc. Natl. Acad. Sci. (USA)'' 106:10546-10551, 2009. [[media:sinitsyn-etal-09.pdf | PDF]], [[media:sinitsyn-etal-09-suppl.pdf | supplement]], [http://arxiv.org/abs/0808.4016 arXiv], [[Sinitsyn et al, 2009 | Abstract]].
#A Mugler, E Ziv, I Nemenman, C Wiggins. Serially-regulated biological networks fully realize a constrained set of functions. ''IET Systems Biology'' '''2''':313, 2008. [[media:mugler-etal-08.pdf | PDF]], [http://arxiv.org/abs/0805.1776 arXiv], [[Mugler et al., 2008| Abstract]].
#D Dreisigmeyer, J Stajic, I Nemenman, W Hlavacek, and M Wall. Determinants of bistability in induction of the ''Escherichia coli lac'' operon. ''IET Systems Biology'' '''2''':293, 2008. [[media:dresigmeyer-etal-08.pdf | PDF]], [http://arxiv.org/abs/0802.1223 arXiv], [[Dresigmeyer et al., 2008 | Abstract]].
#I Nemenman, GD Lewen, W Bialek, RR de Ruyter van Steveninck. Neural Coding of Natural Stimuli: Information at Sub-Millisecond Resolution. ''PLoS Comput Biol'' '''4'''(3): e1000025, 2008. [[media:Nemenman-etal-08.pdf | PDF]], [http://arxiv.org/abs/q-bio.NC/0612050 arXiv], [[Nemenman et al., 2008 | Abstract]].
#*This paper has been presented at the CNS'07 meeting and is available as: I Nemenman, G Lewen, W Bialek, and R de Ruyter van Steveninck. Neural coding of natural stimuli: information at sub-millisecond resolution. ''BMC Neurosci.'' '''8''' (Suppl 2):S7, 2007. [[media:Nemenman-etal-07-abstract.pdf | PDF]].
#NA Sinitsyn and I Nemenman. Universal geometric theory of mesoscopic stochastic pumps and reversible ratchets. ''Phys. Rev. Lett.'' '''99''':220408, 2007. [[media:sinitsyn-nemenman-07a.pdf | PDF]], [[Sinitsyn and Nemenman, 2007a | Abstract]].
#I Nemenman, GS Escola, WS Hlavacek, PJ Unkefer, CJ Unkefer, ME Wall. Reconstruction of metabolic networks from high-throughput metabolite profiling data: in silico analysis of red blood cell metabolism. ''Ann. N.Y. Acad. Sci.'' '''1115''':102–115, 2007. [[media:Nemenman-etal-07a.pdf | PDF]], [http://arxiv.org/abs/0706.2007 arXiv], [[Nemenman et al., 2007a | Abstract]].
#E Ziv, I Nemenman, and C Wiggins. Optimal signal processing in small stochastic biochemical networks. ''PLoS ONE'' '''2'''(10): e1077, 2007. [[media:ziv-etal-07.pdf | PDF]], [http://arxiv.org/abs/q-bio.MN/0612041 arXiv], [[Ziv et al., 2007 | Abstract]].
#NA Sinitsyn and I Nemenman. Berry phase and pump effect in stochastic chemical kinetics. ''EPL'' '''77''', 58001, 2007. [[media:sinitsyn-nemenman-07.pdf | PDF]], [http://arxiv.org/abs/q-bio.QM/0612018 arXiv], [[Sinitsyn and Nemenman, 2007 | Abstract]].
#A Margolin, K Wang, WK Lim, M Kustagi, I Nemenman, and A Califano. Reverse engineering cellular networks. ''Nature Protocols'', '''1'''(2):663-672, 2006. [[media:margolin_etal_06b.pdf | PDF]], [[Margolin et al., 2006b | Abstract]].
#K Wang, I Nemenman, N Banerjee, A Margolin, and A Califano. Genome-wide discovery of modulators of transcriptional interactions in human B lymphocytes. In ''Lecture Notes in Computer Science'', '''3909'', ''Proceedings of Research in Computational Molecular Biology: 10th Annual International Conference, RECOMB 2006'', pages 348 - 362. Springer, Berlin / Heidelberg, 2006. [[media:wang-etal-06.pdf | PDF]], [http://arXiv.org/abs/q-bio.MN/0510030 arXiv], [[Wang et al., 2006 | Abstract]]
#* Preliminary version: NIPS'05 Computational Biology Workshop.
#[[image:f1000.gif]] '''Must read.''' A Margolin, I Nemenman, K Basso, U Klein, C Wiggins, G Stolovitzky, Riccardo D Favera, and A Califano. ARACNE: An algorithm for reconstruction of genetic networks in a mammalian cellular context. ''BMC Bioinformatics'', '''7 (Suppl. 1)''':S7, 2006. [[media:margolin-etal-06a.pdf | PDF]], [http://arxiv.org/abs/q-bio.MN/0410037 arXiv], [[Margolin et al., 2006a | Abstract]].
#*Preliminary version: [http://www.stanford.edu/~gal/nips-compbio.html NIPS'04 Computational Biology Workshop] as: A Margolin, I Nemenman, C Wiggins, G Stolovitzky, and A Califano, On the reconstruction of interaction networks with applications to transcriptional regulation. [[media:margolin-etal-04a.pdf | PDF]], [http://arxiv.org/abs/q-bio.MN/0410036 arXiv].
#I Nemenman. Fluctuation-dissipation theorem and models of learning. ''Neural Comp.'', '''17'''(9):2006-2033, 2005. [[media:nemenman-05.pdf | PDF]], [http://arXiv.org/abs/q-bio/0402029 arXiv], [[Nemenman, 2005 | Abstract]].
#I Nemenman, W Bialek, and R de Ruyter van Steveninck. Entropy and information in neural spike trains: Progress on the sampling problem. ''Phys. Rev. E'', '''69''':056111, 2004. [[media:nemenman-etal-04.pdf | PDF]], [http://arxiv.org/abs/physics/0306063 arXiv], [[Nemenman et al., 2004 | Abstract]].
#C Wiggins and I Nemenman. Process pathway inference via time series analysis. ''Experim. Mech.'', '''43'''(3):361-370, 2003. [[media:wiggins-nemenman-03.pdf | PDF]], [http://arXiv.org//physics/0206031 arXiv], [[Wiggins and Nemenman, 2003 | Abstract]].
#A Silbergleit, I Nemenman, and I Mandel. On the interaction of point charges in an arbitrary domain. ''Techn. Phys.'', '''48'''(2):146-151, 2003. [[media:silbergleit-etal-03b.pdf | PDF]], [http://arXiv.org/abs/physics/0105052 arXiv], [[Silbergleit et al., 2003b | Abstract]].
#A Silbergleit, I Mandel, and I Nemenman. Potential and field singularity at a surface point charge. ''J. Math. Phys.'', '''44'''(10):4460-4466, 2003. [[media:silbergleit-etal-03a.pdf | PDF]], [http://arXiv.org/abs/math-ph/0306039 arXiv], [[Silbergleit et al., 2003a | Abstract]].
#I Nemenman, F Shafee, and W Bialek. "Entropy and inference, revisited." In T. G. Dietterich, S. Becker, and Z. Ghahramani, editors, ''Adv. Neural Inf. Proc. Syst.'' '''14''', Cambridge, MA, 2002. MIT Press. [[media:nsb.pdf | PDF]], [http://arxiv.org/abs/physics/0108025 arXiv], [[Nemenman et al., 2002 | Abstract]].
#I Nemenman and W Bialek. Occam factors and model-independent Bayesian learning of continuous distributions. ''Phys. Rev. E'', '''65'''(2):026137, 2002. [[media:nemenman-bialek-02.pdf | PDF]], [http://www.arxiv.org/abs/cond-mat/0009165 arXiv], [[Nemenman and Bialek, 2002 | Abstract]].
#* Preliminary version: I Nemenman and W Bialek, "Learning Continuous Distributions: Simulations With Field Theoretic Priors," in T. Leen, T. Dietterich, and V. Tresp, eds. ''Adv. Neural Inf. Proc. Syst.'' '''13''', pp. 287-293, MIT Press, 2001. [[media:nemenman-bialek-01.pdf | PDF]].
# W Bialek, I Nemenman, and N Tishby. Complexity through nonextensivity. ''Physica A'', '''302''':89-99, 2001. [[media:bnt_short_01.pdf | PDF]], [http://arxiv.org/abs/physics/0103076 arXiv],[[Bialek et al., 2001a | Abstract]].
#W Bialek, I Nemenman, and N Tishby. Predictability, complexity, and learning. ''Neur. Comp.'', '''13''':2409-2463, 2001. [[media:bnt_01.pdf | PDF]], [http://arxiv.org/abs/physics/0007070 arXiv], [[Bialek et al., 2001b | Abstract]].
# R Adler, I Nemenman, J Overduin, and D Santiago. On the detectability of quantum spacetime foam with gravitational-wave interferometers. ''Phys. Lett. B'', '''477;''':424-428, 2000. [[media:anos_00.pdf |PDF]], [http://arxiv.org/abs/gr-qc/9909017 arXiv], [[Adler et al., 2000 |Abstract]].
#J Naud, I Nemenman, M Van Raamsdonk, and V Periwal. Minimal subtraction and the Callan-Symanzik equation. ''Nucl. Phys. B'', '''540''', 1999. [[media:naud-etal-99.pdf | PDF]], [http://arxiv.org/abs/hep-th/9802181 arXiv], [[Naud et al., 1999 | Abstract]].
#I Nemenman and A Silbergleit. Explicit Green's function of a boundary value problem for a sphere and trapped flux analysis in Gravity Probe B experiment. ''J. Appl. Phys.'', '''86''', 1999. [[media:nemenman-silbergleit-99.pdf | PDF]], [http://arxiv.org/abs/math-ph/9901006 arXiv], [[Nemenman and Silbergleit, 1999 | Abstract]].
#A Minkevich and I Nemenman. On the influence of gravitating vacuum on dynamics of homogeneous isotropic models in gauge-theories of gravity. ''Class. Quant. Grav.'', '''12''':1259-1265, 1995. [[media:minkevich-nemenman-95b.pdf | PDF]], [[Minkevich and Nemenman, 1995b | Abstract]].
#*Preliminary version: A Minkevich and I Nemenman. On the influence of gravitating vacuum on dynamics of homogeneous isotropic models in gauge-theories of gravity. ''Dokl. Akad. Nauk Belar.'', '''39'''(2):45-51, 1995. In Russian. [[Minkevich and Nemenman, 1995a | Abstract]].

==Editorials==
#W Hlavacek, S Gnanakaran, B Munsky, M Wall, J Faeder, Y Jiang, I Nemenman, and O Resnekov. The eighth q-bio conference: meeting report and special issue preface. ''Phys Biol'' '''12''' 060401, 2015. [[media:hlavacek-etal-15.pdf | PDF]]. [[Hlavacek et al., 2015| Abstract]].
#I Nemenman, J Faeder, S Gnanakaran, W Hlavacek, B Munsky, M Wall and Y Jiang. The Seventh q-bio Conference: meeting report and preface. ''Phys Biol'' '''11''', 040301, 2014. [[media:nemenman-etal-2014.pdf | PDF]]. [[Nemenman et al., 2014| Abstract]].
#I Nemenman, S Gnanakaran, B Munsky, M Wall, Y Jiang, W Hlavacek, and J Faeder. Special section dedicated to The Sixth q-bio Conference: meeting report and preface. ''Phys Biol'' '''10''', 030301, 2013. [[media:nemenman-etal-2013.pdf | PDF]]. [[Nemenman et al., 2013| Abstract]].
#I Nemenman, S Gnanakaran, W Hlavacek, Y Jiang, B Munsky, M Wall and J Faeder. The Fifth Annual q-bio Conference on Cellular Information Processing. ''Phys Biol'' '''9''', 050201, 2012. [[media:nemenman-etal-2012.pdf | PDF]], [[Nemenman et al., 2012| Abstract]].
#I Nemenman, J Faeder, W Hlavacek, Y Jiang, M Wall, A Zilman. Selected papers from the Fourth Annual q-bio Conference on Cellular Information Processing. ''Phys Biol'' '''8''', 050301, 2011. [[media:nemenman-etal-2011.pdf | PDF]], [[Nemenman et al., 2011| Abstract]].
#I Nemenman, W Hlavacek, Y Jiang, M Wall, and A Zilman. Editorial: Selected papers from the Third q-bio Conference on Cellular Information Processing. ''IET Syst Biol'' '''4''', 331, 2010. [[media:nemenman-etal-2010.pdf | PDF]], [[Nemenman et al., 2010| Abstract]].
#I Nemenman, W Hlavacek, Y Jiang, and M Wall, Editorial: Selected papers from the Second q-bio Conference on Cellular Information Processing. ''IET Syst. Biol.'' '''3''':297, 2009. [[media:nemenman-etal-q-bio-09.pdf | PDF]], [[Nemenman et al., 2009|Abstract]].
#I Nemenman, W Hlavacek, J Edwards, J Faeder, Y Jiang, M Wall. Editorial: Selected papers from the First q-bio Conference on Cellular Information Processing. ''IET Syst. Biol.'' '''2''':203, 2008. [[media:nemenman-etal-q-bio-08.pdf | PDF]], [[Nemenman et al., 2008a|Abstract]].
#C Teuscher, I Nemenman, F Alexander. Novel computing paradigms: Quo vadis? ''Physica D'' '''237''':v–viii (2008). [[Teuscher et al, 2008| Abstract]], [[media:teuscher-etal-08.pdf | PDF]].
#J Edwards, J Faeder, W Hlavacek, Y Jiang, I Nemenman, and M Wall. q-bio 2007: a watershed moment in modern biology. ''Mol. Syst. Biol.'' '''3''':148, 2007. [[media:edwards-etal-07.pdf |PDF]], [[Edwards et al., 2007 | Abstract]].

==Unpublished Work==
#K Wang, N Banerjee, A Margolin, I Nemenman, K Basso, R Dalla Favera, and A Califano. Conditional network analysis identifies candidate regulator genes in human B cells. ''Unpublished manuscript'', 2005. [[media:wang-etal-04.pdf | PDF]], [http://arXiv.org/abs/q-bio.MN/0411003 arXiv], [[Wang et al., 2005 | Abstract]].
#A Margolin, N Banerjee, I Nemenman, and A Califano. Reverse engineering of yeast transcriptional network using the ARACNE algorithm. ''Unpublished manuscript'', 2004. [[media:margolin-etal-04b.pdf | PDF]], [[Margolin et al., 2004b | Abstract]].
#T Holy and I Nemenman. On impossibility of learning in a reparameterization covariant way. ''Technical Report'' NSF-KITP-03-123, KITP, UCSB, 2002. [[media:hn-02.pdf | PDF]], [[Holy and Nemenman, 2002 | Abstract]].
#I Nemenman. ''Information Theory and Learning: A Physical Approach''. PhD thesis, Princeton University, Department of Physics, 2000. [[media:nemenman-00.pdf | PDF]], [http://arxiv.org/abs/physics/0009032 arXiv], [[Ph. D. Thesis | Abstract]].
#I Kominis and I Nemenman. BGO dead crystall correction and shower fitting. ''Technical Report'' 2157, CERN: L3, 1997. [[media:kominis_nemenman_97.pdf | PDF]], [[Kominis and Nemenman, 1997 | Abstract]].

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 Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].
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 Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].
-<iframe key="Google Scholar page" path="https://scholar.google.com/citations?user=enjXdH4AAAAJ" size="vga" />
+<iframe key="scholar.google.com" path="citations?user=enjXdH4AAAAJ" size="vga" />
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 Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].
-<iframe key="wiwi" path="examples" size="vga" />
+<iframe key="Google Scholar page" path="https://scholar.google.com/citations?user=enjXdH4AAAAJ" size="vga" />
 {{#widget:Iframe

← Older revision		Revision as of 09:01, 30 August 2018
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	Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].		Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].
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Publications - Revision history

Ilya at 09:25, 30 August 2018

Ilya at 09:10, 30 August 2018

Ilya at 09:08, 30 August 2018

Ilya at 09:06, 30 August 2018

Ilya at 09:03, 30 August 2018

Ilya at 09:01, 30 August 2018

Ilya: 1 revision imported

nemenman>Ilya at 18:21, 23 August 2017

← Older revision		Revision as of 09:25, 30 August 2018
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	Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].		Up to date citation information for my articles is available from my [http://scholar.google.com/citations?user=enjXdH4AAAAJ&hl=en Google Scholar profile].
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← Older revision	Revision as of 16:28, 4 July 2018
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