| Probabilistic Population Codes for Bayesian Decision Making Neuron, Volume 60, Issue 6, 26 December 2008, Pages 1142-1152 Jeffrey M. Beck, Wei Ji Ma, Roozbeh Kiani, Tim Hanks, Anne K. Churchland, Jamie Roitman, Michael N. Shadlen, Peter E. Latham and Alexandre Pouget Summary When making a decision, one must first accumulate evidence, often over time, and then select the appropriate action. Here, we present a neural model of decision making that can perform both evidence accumulation and action selection optimally. More specifically, we show that, given a Poisson-like distribution of spike counts, biological neural networks can accumulate evidence without loss of information through linear integration of neural activity and can select the most likely action through attractor dynamics. This holds for arbitrary correlations, any tuning curves, continuous and discrete variables, and sensory evidence whose reliability varies over time. Our model predicts that the neurons in the lateral intraparietal cortex involved in evidence accumulation encode, on every trial, a probability distribution which predicts the animal's performance. We present experimental evidence consistent with this prediction and discuss other predictions applicable to more general settings. Summary | Full Text | PDF (1033 kb) |
| The Complex Kinetics of Protein Folding in Wide Temperature Ranges Biophysical Journal, Volume 87, Issue 4, 1 October 2004, Pages 2164-2171 Jin Wang Abstract The complex protein folding kinetics in wide temperature ranges is studied through diffusive dynamics on the underlying energy landscape. The well-known kinetic chevron rollover behavior is recovered from the mean first passage time, with the U-shape dependence on temperature. The fastest folding temperature is found to be smaller than the folding transition temperature . We found that the fluctuations of the kinetics through the distribution of first passage time show rather universal behavior, from high-temperature exponential Poissonian kinetics to the relatively low-temperature highly non-exponential kinetics. The transition temperature is at and <<. In certain low-temperature regimes, a power law behavior at long time emerges. At very low temperatures (lower than trapping transition temperature </(4∼6)), the kinetics is an exponential Poissonian process again. Abstract | Full Text | PDF (286 kb) |
| Network thinking in ecology and evolution Trends in Ecology & Evolution, Volume 20, Issue 6, 1 June 2005, Pages 345-353 Stephen R. Proulx, Daniel E.L. Promislow and Patrick C. Phillips Abstract Although pairwise interactions have always had a key role in ecology and evolutionary biology, the recent increase in the amount and availability of biological data has placed a new focus on the complex networks embedded in biological systems. The increased availability of computational tools to store and retrieve biological data has facilitated wide access to these data, not just by biologists but also by specialists from the social sciences, computer science, physics and mathematics. This fusion of interests has led to a burst of research on the properties and consequences of network structure in biological systems. Although traditional measures of network structure and function have started us off on the right foot, an important next step is to create biologically realistic models of network formation, evolution, and function. Here, we review recent applications of network thinking to the evolution of networks at the gene and protein level and to the dynamics and stability of communities. These studies have provided new insights into the organization and function of biological systems by applying existing techniques of network analysis. The current challenge is to recognize the commonalities in evolutionary and ecological applications of network thinking to create a predictive science of biological networks. Abstract | Full Text | PDF (322 kb) |
Copyright © 1974 The Biophysical Society. All rights reserved.
Biophysical Journal, Volume 14, Issue 1, 8-19, 1 January 1974
doi:10.1016/S0006-3495(74)85899-6
Articles
Photios A. Anninos and Rafael Elul
A theoretical analysis has been made on the effect of the pattern of interneuronal connectivity in model nerve nets on the activity of these nets. Two types of nets have been investigated: one in which the likelihood of a connection between a given neuron and any other element in the net is given by a Poisson probability distribution, and a second type in which the pattern of interconnection follows a Gaussian distribution. An analytical treatment is presented of the equations for noiseless nets in these two conditions. The principal result is that nets with Poisson connectivity law are activated by extraneous firing of a single neuron and continue in spontaneous activity indefinitely. On the other hand, similar nets in which the connections are, however, distributed according to a normal connectivity law, exhibit a definite threshold and produce spontaneous activity only subsequent to extraneous activation of a substantial fraction of the population. Moreover, spontaneous activity in Gaussian nets, but not in Poisson nets, becomes extinguished if the number of active neurons falls below the critical threshold. Some neuroanatomical implications are discussed which suggest that the pyramidal system of the cerebral cortex and other neuronal systems histologically characterized by large numbers of synapses per neuron may incorporate a Gaussian connectivity law, whereas a Poisson law may be characteristic of these cortical layers and nuclei primarily containing granule cells.