Project description:Neuronal network models of high-level brain functions such as memory recall and reasoning often rely on the presence of some form of noise. The majority of these models assumes that each neuron in the functional network is equipped with its own private source of randomness, often in the form of uncorrelated external noise. In vivo, synaptic background input has been suggested to serve as the main source of noise in biological neuronal networks. However, the finiteness of the number of such noise sources constitutes a challenge to this idea. Here, we show that shared-noise correlations resulting from a finite number of independent noise sources can substantially impair the performance of stochastic network models. We demonstrate that this problem is naturally overcome by replacing the ensemble of independent noise sources by a deterministic recurrent neuronal network. By virtue of inhibitory feedback, such networks can generate small residual spatial correlations in their activity which, counter to intuition, suppress the detrimental effect of shared input. We exploit this mechanism to show that a single recurrent network of a few hundred neurons can serve as a natural noise source for a large ensemble of functional networks performing probabilistic computations, each comprising thousands of units.
Project description:The relationships between neural activity at the single-cell and the population levels are of central importance for understanding neural codes. In many sensory systems, collective behaviors in large cell groups can be described by pairwise spike correlations. Here, we test whether in a highly specialized premotor system of songbirds, pairwise spike correlations themselves can be seen as a simple corollary of an underlying random process. We test hypotheses on connectivity and network dynamics in the motor pathway of zebra finches using a high-level population model that is independent of detailed single-neuron properties. We assume that neural population activity evolves along a finite set of states during singing, and that during sleep population activity randomly switches back and forth between song states and a single resting state. Individual spike trains are generated by associating with each of the population states a particular firing mode, such as bursting or tonic firing. With an overall modification of one or two simple control parameters, the Markov model is able to reproduce observed firing statistics and spike correlations in different neuron types and behavioral states. Our results suggest that song- and sleep-related firing patterns are identical on short time scales and result from random sampling of a unique underlying theme. The efficiency of our population model may apply also to other neural systems in which population hypotheses can be tested on recordings from small neuron groups.
Project description:This paper proposed a "Probabilistic and Deterministic Tree-based Routing for WSNs (PDTR)". The PDTR builds a tree from the leaves to the head (sink), according to the best elements in the initial probabilistic routing table, measured by the product of hops-count distribution, and transmission distance distribution, to select the best tree-paths. Each sender node forwards the received data to the next hop via the deterministic built tree. After that, when any node loses of its energy, PDTR updates the tree at that node. This update links probabilistically one of that node's children to a new parent, according to the updated probabilistic routing table, measured by the product of the updated: Hops-count distribution, transmission distance distribution, and residual energy distribution at the loss of ? e energy. By implementing the control parameters in each distribution, PDTR shows the impact of each distribution in the routing path. These control parameters are oriented by the user for different performances. The simulation results prove that selecting the initial best paths to root the packets via unicast, then improving the tree at the node with loss of energy by rooting the packets via anycast, leads to better performance in terms of energy consumption and network lifetime.
Project description:Correct nervous system development depends on the timely differentiation of progenitor cells into neurons. While the output of progenitor differentiation is well investigated at the population and clonal level, how stereotypic or variable fate decisions are during development is still more elusive. To fill this gap, we here follow the fate outcome of single neurogenic progenitors in the zebrafish retina over time using live imaging. We find that neurogenic progenitor divisions produce two daughter cells, one of deterministic and one of probabilistic fate. Interference with the deterministic branch of the lineage affects lineage progression. In contrast, interference with fate probabilities of the probabilistic branch results in a broader range of fate possibilities than in wild-type and involves the production of any neuronal cell type even at non-canonical developmental stages. Combining the interference data with stochastic modelling of fate probabilities revealed that a simple gene regulatory network is able to predict the observed fate decision probabilities during wild-type development. These findings unveil unexpected lineage flexibility that could ensure robust development of the retina and other tissues.
Project description:Murray recently introduced a novel computational lightness model, Markov illuminance and reflectance (MIR). MIR is a promising new approach that simulates human lightness processing using a conditional random field (CRF) where natural-scene statistics of reflectance and illumination are implemented. Although MIR can account for various lightness illusions and phenomena, it has limitations, such as the inability to predict reverse-contrast phenomena. In this study, we improved MIR performance by modifying its inference process, the prior on X-junctions, and that on general illumination changes. Our modified model improved predictions for Checkerboard assimilation, the simplified Checkershadow and its control figure, the influence of luminance noise, and White's effect and its several variants. In particular, White's effect is a partial reverse contrast that is challenging for computational models, so this improvement is a significant advance for the MIR framework. This study showed the high extensibility and potential of MIR, which shows the promise for further sophistication.
Project description:Although, in most animals, brain connectivity varies between individuals, behaviour is often similar across a species. What fundamental structural properties are shared across individual networks that define this behaviour? We describe a probabilistic model of connectivity in the hatchling Xenopus tadpole spinal cord which, when combined with a spiking model, reliably produces rhythmic activity corresponding to swimming. The probabilistic model allows calculation of structural characteristics that reflect common network properties, independent of individual network realisations. We use the structural characteristics to study examples of neuronal dynamics, in the complete network and various sub-networks, and this allows us to explain the basis for key experimental findings, and make predictions for experiments. We also study how structural and functional features differ between detailed anatomical connectomes and those generated by our new, simpler, model (meta-model).
Project description:The Gene Ontology (GO) is extensively used to analyze all types of high-throughput experiments. However, researchers still face several challenges when using GO and other functional annotation databases. One problem is the large number of multiple hypotheses that are being tested for each study. In addition, categories often overlap with both direct parents/descendents and other distant categories in the hierarchical structure. This makes it hard to determine if the identified significant categories represent different functional outcomes or rather a redundant view of the same biological processes. To overcome these problems we developed a generative probabilistic model which identifies a (small) subset of categories that, together, explain the selected gene set. Our model accommodates noise and errors in the selected gene set and GO. Using controlled GO data our method correctly recovered most of the selected categories, leading to dramatic improvements over current methods for GO analysis. When used with microarray expression data and ChIP-chip data from yeast and human our method was able to correctly identify both general and specific enriched categories which were overlooked by other methods.
Project description:ObjectiveThe disjointed healthcare system and the nonexistence of a universal patient identifier across systems necessitates accurate record linkage (RL). We aim to describe the implementation and evaluation of a hybrid record linkage method in a statewide surveillance system for congenital heart disease.Materials and methodsClear-text personally identifiable information on individuals in the Colorado Congenital Heart Disease surveillance system was obtained from 5 electronic health record and medical claims data sources. Two deterministic methods and 1 probabilistic RL method using first name, last name, social security number, date of birth, and house number were initially implemented independently and then sequentially in a hybrid approach to assess RL performance.Results16 480 nonunique individuals with congenital heart disease were ascertained. Deterministic linkage methods, when performed independently, yielded 4505 linked pairs (consisting of 2 records linked together within or across data sources). Probabilistic RL, using 3 initial characters of last name and gender for blocking, yielded 6294 linked pairs when executed independently. Using a hybrid linkage routine resulted in 6451 linkages and an additional 18%-24% correct linked pairs as compared to the independent methods. A hybrid linkage routine resulted in higher recall and F-measure scores compared to probabilistic and deterministic methods performed independently.DiscussionThe hybrid approach resulted in increased linkage accuracy and identified pairs of linked record that would have otherwise been missed when using any independent linkage technique.ConclusionWhen performing RL within and across disparate data sources, the hybrid RL routine outperformed independent deterministic and probabilistic methods.
Project description:Deoxynivalenol (DON) remains one of the most concerning mycotoxins produced by the Fusarium genus due to the wide occurrence in highly consumed cereal-based food and its associated toxicological effects. Previous studies conducted in Spain and other European countries suggested that some vulnerable groups such as children could be exceeding the tolerable daily intakes. Thus, the aim of this study was to conduct a comprehensive and updated dietary exposure assessment study in Spain, with a specific analysis in the region of Catalonia. Cereal-based food samples collected during 2019 were analysed using liquid chromatography coupled to tandem mass spectrometry for multi-mycotoxin detection including DON and its main metabolites and derivatives. Consumption data were gathered from the nation-wide food surveys ENALIA and ENALIA2 conducted in Spain, and a specific survey conducted in Catalonia. The data were combined using deterministic and semi-parametric probabilistic methods. The results showed that DON was widely present in cereal-based food highly consumed in Spain and the Catalonia region. Exposure to DON among the adult population was globally low; however, among infants aged 3-9 years, it resulted in the median of 192 ng/kg body weight/day and the 95th percentiles of 604 ng/kg body weight/day, that would exceed the most conservative safety threshold for infants. Bread and pasta were the main contributing foodstuffs to the global exposure to DON, even among infants; thus, those foods should be considered a priority for food control or to develop strategies to reduce the exposure. In any case, further toxicological and epidemiological studies are required in order to refine the safety thresholds accounting for the sensitivity of the infant population.
Project description:Predictions supporting risky decisions could become unreliable when outcome probabilities temporarily change, making adaptation more challenging. Therefore, this study investigated whether sensitivity to the temporal structure in outcome probabilities can develop and remain persistent in a changing decision environment. In a variant of the Balloon Analogue Risk Task with 90 balloons, outcomes (rewards or balloon bursts) were predictable in the task's first and final 30 balloons and unpredictable in the middle 30 balloons. The temporal regularity underlying the predictable outcomes differed across three experimental conditions. In the deterministic condition, a repeating three-element sequence dictated the maximum number of pumps before a balloon burst. In the probabilistic condition, a single probabilistic regularity ensured that burst probability increased as a function of pumps. In the hybrid condition, a repeating sequence of three different probabilistic regularities increased burst probabilities. In every condition, the regularity was absent in the middle 30 balloons. Participants were not informed about the presence or absence of the regularity. Sensitivity to both the deterministic and hybrid regularities emerged and influenced risk taking. Unpredictable outcomes of the middle phase did not deteriorate this sensitivity. In conclusion, humans can adapt their risky choices in a changing decision environment by exploiting the statistical structure that controls how the environment changes.