4,500 research outputs found
Fractals in the Nervous System: conceptual Implications for Theoretical Neuroscience
This essay is presented with two principal objectives in mind: first, to
document the prevalence of fractals at all levels of the nervous system, giving
credence to the notion of their functional relevance; and second, to draw
attention to the as yet still unresolved issues of the detailed relationships
among power law scaling, self-similarity, and self-organized criticality. As
regards criticality, I will document that it has become a pivotal reference
point in Neurodynamics. Furthermore, I will emphasize the not yet fully
appreciated significance of allometric control processes. For dynamic fractals,
I will assemble reasons for attributing to them the capacity to adapt task
execution to contextual changes across a range of scales. The final Section
consists of general reflections on the implications of the reviewed data, and
identifies what appear to be issues of fundamental importance for future
research in the rapidly evolving topic of this review
Clustering-based approaches to SAGE data mining
Serial analysis of gene expression (SAGE) is one of the most powerful tools for global gene expression profiling. It has led to several biological discoveries and biomedical applications, such as the prediction of new gene functions and the identification of biomarkers in human cancer research. Clustering techniques have become fundamental approaches in these applications. This paper reviews relevant clustering techniques specifically designed for this type of data. It places an emphasis on current limitations and opportunities in this area for supporting biologically-meaningful data mining and visualisation
Object-Oriented Dynamics Learning through Multi-Level Abstraction
Object-based approaches for learning action-conditioned dynamics has
demonstrated promise for generalization and interpretability. However, existing
approaches suffer from structural limitations and optimization difficulties for
common environments with multiple dynamic objects. In this paper, we present a
novel self-supervised learning framework, called Multi-level Abstraction
Object-oriented Predictor (MAOP), which employs a three-level learning
architecture that enables efficient object-based dynamics learning from raw
visual observations. We also design a spatial-temporal relational reasoning
mechanism for MAOP to support instance-level dynamics learning and handle
partial observability. Our results show that MAOP significantly outperforms
previous methods in terms of sample efficiency and generalization over novel
environments for learning environment models. We also demonstrate that learned
dynamics models enable efficient planning in unseen environments, comparable to
true environment models. In addition, MAOP learns semantically and visually
interpretable disentangled representations.Comment: Accepted to the Thirthy-Fourth AAAI Conference On Artificial
Intelligence (AAAI), 202
Data-driven discovery of dynamics from time-resolved coherent scattering
Coherent X-ray scattering (CXS) techniques are capable of interrogating
dynamics of nano- to mesoscale materials systems at time scales spanning
several orders of magnitude. However, obtaining accurate theoretical
descriptions of complex dynamics is often limited by one or more factors -- the
ability to visualize dynamics in real space, computational cost of
high-fidelity simulations, and effectiveness of approximate or phenomenological
models. In this work, we develop a data-driven framework to uncover mechanistic
models of dynamics directly from time-resolved CXS measurements without solving
the phase reconstruction problem for the entire time series of diffraction
patterns. Our approach uses neural differential equations to parameterize
unknown real-space dynamics and implements a computational scattering forward
model to relate real-space predictions to reciprocal-space observations. This
method is shown to recover the dynamics of several computational model systems
under various simulated conditions of measurement resolution and noise.
Moreover, the trained model enables estimation of long-term dynamics well
beyond the maximum observation time, which can be used to inform and refine
experimental parameters in practice. Finally, we demonstrate an experimental
proof-of-concept by applying our framework to recover the probe trajectory from
a ptychographic scan. Our proposed framework bridges the wide existing gap
between approximate models and complex data
Cluster identification and separation in the growing self-organizing map: Application in protein sequence classification
Growing self-organizing map (GSOM) has been introduced as an improvement to the self-organizing map (SOM) algorithm in clustering and knowledge discovery. Unlike the traditional SOM, GSOM has a dynamic structure which allows nodes to grow reflecting the knowledge discovered from the input data as learning progresses. The spread factor parameter (SF) in GSOM can be utilized to control the spread of the map, thus giving an analyst a flexibility to examine the clusters at different granularities. Although GSOM has been applied in various areas and has been proven effective in knowledge discovery tasks, no comprehensive study has been done on the effect of the spread factor parameter value to the cluster formation and separation. Therefore, the aim of this paper is to investigate the effect of the spread factor value towards cluster separation in the GSOM. We used simple k-means algorithm as a method to identify clusters in the GSOM. By using Davies-Bouldin index, clusters formed by different values of spread factor are obtained and the resulting clusters are analyzed. In this work, we show that clusters can be more separated when the spread factor value is increased. Hierarchical clusters can then be constructed by mapping the GSOM clusters at different spread factor values. © 2009 Springer-Verlag London Limited
Generalized topographic block model
Co-clustering leads to parsimony in data visualisation with a number of parameters dramatically reduced in comparison to the dimensions of the data sample. Herein, we propose a new generalized approach for nonlinear mapping by a re-parameterization of the latent block mixture model. The densities modeling the blocks are in an exponential family such that the Gaussian, Bernoulli and Poisson laws are particular cases. The inference of the parameters is derived from the block expectation–maximization algorithm with a Newton–Raphson procedure at the maximization step. Empirical experiments with textual data validate the interest of our generalized model
SMART: Unique splitting-while-merging framework for gene clustering
Copyright @ 2014 Fa et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted
use, distribution, and reproduction in any medium, provided the original author and source are credited.Successful clustering algorithms are highly dependent on parameter settings. The clustering performance degrades significantly unless parameters are properly set, and yet, it is difficult to set these parameters a priori. To address this issue, in this paper, we propose a unique splitting-while-merging clustering framework, named “splitting merging awareness tactics” (SMART), which does not require any a priori knowledge of either the number of clusters or even the possible range of this number. Unlike existing self-splitting algorithms, which over-cluster the dataset to a large number of clusters and then merge some similar clusters, our framework has the ability to split and merge clusters automatically during the process and produces the the most reliable clustering results, by intrinsically integrating many clustering techniques and tasks. The SMART framework is implemented with two distinct clustering paradigms in two algorithms: competitive learning and finite mixture model. Nevertheless, within the proposed SMART framework, many other algorithms can be derived for different clustering paradigms. The minimum message length algorithm is integrated into the framework as the clustering selection criterion. The usefulness of the SMART framework and its algorithms is tested in demonstration datasets and simulated gene expression datasets. Moreover, two real microarray gene expression datasets are studied using this approach. Based on the performance of many metrics, all numerical results show that SMART is superior to compared existing self-splitting algorithms and traditional algorithms. Three main properties of the proposed SMART framework are summarized as: (1) needing no parameters dependent on the respective dataset or a priori knowledge about the datasets, (2) extendible to many different applications, (3) offering superior performance compared with counterpart algorithms.National Institute for Health Researc
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