New insights into the classification and nomenclature of cortical GABAergic interneurons.

A systematic classification and accepted nomenclature of neuron types is much needed but is currently lacking. This article describes a possible taxonomical solution for classifying GABAergic interneurons of the cerebral cortex based on a novel, web-based interactive system that allows experts to classify neurons with pre-determined criteria. Using Bayesian analysis and clustering algorithms on the resulting data, we investigated the suitability of several anatomical terms and neuron names for cortical GABAergic interneurons. Moreover, we show that supervised classification models could automatically categorize interneurons in agreement with experts' assignments. These results demonstrate a practical and objective approach to the naming, characterization and classification of neurons based on community consensus

Discovering Functional Communities in Dynamical Networks

Many networks are important because they are substrates for dynamical systems, and their pattern of functional connectivity can itself be dynamic -- they can functionally reorganize, even if their underlying anatomical structure remains fixed. However, the recent rapid progress in discovering the community structure of networks has overwhelmingly focused on that constant anatomical connectivity. In this paper, we lay out the problem of discovering_functional communities_, and describe an approach to doing so. This method combines recent work on measuring information sharing across stochastic networks with an existing and successful community-discovery algorithm for weighted networks. We illustrate it with an application to a large biophysical model of the transition from beta to gamma rhythms in the hippocampus.Comment: 18 pages, 4 figures, Springer "Lecture Notes in Computer Science" style. Forthcoming in the proceedings of the workshop "Statistical Network Analysis: Models, Issues and New Directions", at ICML 2006. Version 2: small clarifications, typo corrections, added referenc

Handwritten digit recognition by bio-inspired hierarchical networks

The human brain processes information showing learning and prediction abilities but the underlying neuronal mechanisms still remain unknown. Recently, many studies prove that neuronal networks are able of both generalizations and associations of sensory inputs. In this paper, following a set of neurophysiological evidences, we propose a learning framework with a strong biological plausibility that mimics prominent functions of cortical circuitries. We developed the Inductive Conceptual Network (ICN), that is a hierarchical bio-inspired network, able to learn invariant patterns by Variable-order Markov Models implemented in its nodes. The outputs of the top-most node of ICN hierarchy, representing the highest input generalization, allow for automatic classification of inputs. We found that the ICN clusterized MNIST images with an error of 5.73% and USPS images with an error of 12.56%

Patch-based semantic labelling of images.

PhDThe work presented in this thesis is focused at associating a semantics to the content of an image, linking the content to high level semantic categories. The process can take place at two levels: either at image level, towards image categorisation, or at pixel level, in se- mantic segmentation or semantic labelling. To this end, an analysis framework is proposed, and the different steps of part (or patch) extraction, description and probabilistic modelling are detailed. Parts of different nature are used, and one of the contributions is a method to complement information associated to them. Context for parts has to be considered at different scales. Short range pixel dependences are accounted by associating pixels to larger patches. A Conditional Random Field, that is, a probabilistic discriminative graphical model, is used to model medium range dependences between neighbouring patches. Another contribution is an efficient method to consider rich neighbourhoods without having loops in the inference graph. To this end, weak neighbours are introduced, that is, neighbours whose label probability distribution is pre-estimated rather than mutable during the inference. Longer range dependences, that tend to make the inference problem intractable, are addressed as well. A novel descriptor based on local histograms of visual words has been proposed, meant to both complement the feature descriptor of the patches and augment the context awareness in the patch labelling process. Finally, an alternative approach to consider multiple scales in a hierarchical framework based on image pyramids is proposed. An image pyramid is a compositional representation of the image based on hierarchical clustering. All the presented contributions are extensively detailed throughout the thesis, and experimental results performed on publicly available datasets are reported to assess their validity. A critical comparison with the state of the art in this research area is also presented, and the advantage in adopting the proposed improvements are clearly highlighted

Stochastically Gating Ion Channels Enable Patterned Spike Firing through Activity-Dependent Modulation of Spike Probability

The transformation of synaptic input into patterns of spike output is a fundamental operation that is determined by the particular complement of ion channels that a neuron expresses. Although it is well established that individual ion channel proteins make stochastic transitions between conducting and non-conducting states, most models of synaptic integration are deterministic, and relatively little is known about the functional consequences of interactions between stochastically gating ion channels. Here, we show that a model of stellate neurons from layer II of the medial entorhinal cortex implemented with either stochastic or deterministically gating ion channels can reproduce the resting membrane properties of stellate neurons, but only the stochastic version of the model can fully account for perithreshold membrane potential fluctuations and clustered patterns of spike output that are recorded from stellate neurons during depolarized states. We demonstrate that the stochastic model implements an example of a general mechanism for patterning of neuronal output through activity-dependent changes in the probability of spike firing. Unlike deterministic mechanisms that generate spike patterns through slow changes in the state of model parameters, this general stochastic mechanism does not require retention of information beyond the duration of a single spike and its associated afterhyperpolarization. Instead, clustered patterns of spikes emerge in the stochastic model of stellate neurons as a result of a transient increase in firing probability driven by activation of HCN channels during recovery from the spike afterhyperpolarization. Using this model, we infer conditions in which stochastic ion channel gating may influence firing patterns in vivo and predict consequences of modifications of HCN channel function for in vivo firing patterns

Redundancy in synaptic connections enables neurons to learn optimally

Recent experimental studies suggest that, in cortical microcircuits of the mammalian brain, the majority of neuron-to-neuron connections are realized by multiple synapses. However, it is not known whether such redundant synaptic connections provide any functional benefit. Here, we show that redundant synaptic connections enable near-optimal learning in cooperation with synaptic rewiring. By constructing a simple dendritic neuron model, we demonstrate that with multisynaptic connections synaptic plasticity approximates a sample-based Bayesian filtering algorithm known as particle filtering, and wiring plasticity implements its resampling process. Extending the proposed framework to a detailed single-neuron model of perceptual learning in the primary visual cortex, we show that the model accounts for many experimental observations. In particular, the proposed model reproduces the dendritic position dependence of spike-timing-dependent plasticity and the functional synaptic organization on the dendritic tree based on the stimulus selectivity of presynaptic neurons. Our study provides a conceptual framework for synaptic plasticity and rewiring

A Deep Understanding of Structural and Functional Behavior of Tabular and Graphical Modules in Technical Documents

The rapid increase of published research papers in recent years has escalated the need for automated ways to process and understand them. The successful recognition of the information that is contained in technical documents, depends on the understanding of the document’s individual modalities. These modalities include tables, graphics, diagrams and etc. as defined in Bourbakis’ pioneering work. However, the depth of understanding is correlated to the efficiency of detection and recognition. In this work, a novel methodology is proposed for automatic processing of and understanding of tables and graphics images in technical document. Previous attempts on tables and graphics understanding retrieve only superficial knowledge such as table contents and axis values. However, the focus on capturing the internal associations and relations between the extracted data from each figure is studied here. The proposed methodology is divided into the following steps: 1) figure detection, 2) figure recognition, 3) figure understanding, by figures we mean tables, graphics and diagrams. More specifically, we evaluate different heuristic and learning methods for classifying table and graphics images as part of the detection module. Table recognition and deep understanding includes the extraction of the knowledge that is illustrated in a table image along with the deeper associations between the table variables. The graphics recognition module follows a clustering based approach in order to recognize middle points. Middle points are 2D points where the direction of the curves changes. They delimit the straight line segments that construct the graphics curves. We use these detected middle points in order to understand various features of each line segment and the associations between them. Additionally, we convert the extracted internal tabular associations and the captured curves’ structural and functional behavior into a common and at the same time unique form of representation, which is the Stochastic Petri-net (SPN) graphs. The use of SPN graphs allow for the merging of different document modalities through the functions that describe them, without any prior knowledge about what these functions are. Finally, we achieve a higher level of document understanding through the synergistic merging of the aforementioned SPN graphs that we extract from the table and graphics modalities. We provide results from every step of the document modalities understanding methodologies and the synergistic merging as proof of concept for this research

Platonic model of mind as an approximation to neurodynamics

Hierarchy of approximations involved in simplification of microscopic theories, from sub-cellural to the whole brain level, is presented. A new approximation to neural dynamics is described, leading to a Platonic-like model of mind based on psychological spaces. Objects and events in these spaces correspond to quasi-stable states of brain dynamics and may be interpreted from psychological point of view. Platonic model bridges the gap between neurosciences and psychological sciences. Static and dynamic versions of this model are outlined and Feature Space Mapping, a neurofuzzy realization of the static version of Platonic model, described. Categorization experiments with human subjects are analyzed from the neurodynamical and Platonic model points of view