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https://www.readbyqxmd.com/read/28550374/performance-of-an-artificial-multi-observer-deep-neural-network-for-fully-automated-segmentation-of-polycystic-kidneys
#1
Timothy L Kline, Panagiotis Korfiatis, Marie E Edwards, Jaime D Blais, Frank S Czerwiec, Peter C Harris, Bernard F King, Vicente E Torres, Bradley J Erickson
Deep learning techniques are being rapidly applied to medical imaging tasks-from organ and lesion segmentation to tissue and tumor classification. These techniques are becoming the leading algorithmic approaches to solve inherently difficult image processing tasks. Currently, the most critical requirement for successful implementation lies in the need for relatively large datasets that can be used for training the deep learning networks. Based on our initial studies of MR imaging examinations of the kidneys of patients affected by polycystic kidney disease (PKD), we have generated a unique database of imaging data and corresponding reference standard segmentations of polycystic kidneys...
May 26, 2017: Journal of Digital Imaging: the Official Journal of the Society for Computer Applications in Radiology
https://www.readbyqxmd.com/read/28544890/hybrid-neuro-heuristic-methodology-for-simulation-and-control-of-dynamic-systems-over-time-interval
#2
Marcin Woźniak, Dawid Połap
Simulation and positioning are very important aspects of computer aided engineering. To process these two, we can apply traditional methods or intelligent techniques. The difference between them is in the way they process information. In the first case, to simulate an object in a particular state of action, we need to perform an entire process to read values of parameters. It is not very convenient for objects for which simulation takes a long time, i.e. when mathematical calculations are complicated. In the second case, an intelligent solution can efficiently help on devoted way of simulation, which enables us to simulate the object only in a situation that is necessary for a development process...
May 5, 2017: Neural Networks: the Official Journal of the International Neural Network Society
https://www.readbyqxmd.com/read/28540682/the-limitations-of-existing-approaches-in-improving-microrna-target-prediction-accuracy
#3
Rasiah Loganantharaj, Thomas A Randall
MicroRNAs (miRNAs) are small (18-24 nt) endogenous RNAs found across diverse phyla involved in posttranscriptional regulation, primarily downregulation of mRNAs. Experimentally determining miRNA-mRNA interactions can be expensive and time-consuming, making the accurate computational prediction of miRNA targets a high priority. Since miRNA-mRNA base pairing in mammals is not perfectly complementary and only a fraction of the identified motifs are real binding sites, accurately predicting miRNA targets remains challenging...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28539881/the-influence-of-mexican-hat-recurrent-connectivity-on-noise-correlations-and-stimulus-encoding
#4
Robert Meyer, Josef Ladenbauer, Klaus Obermayer
Noise correlations are a common feature of neural responses and have been observed in many cortical areas across different species. These correlations can influence information processing by enhancing or diminishing the quality of the neural code, but the origin of these correlations is still a matter of controversy. In this computational study we explore the hypothesis that noise correlations are the result of local recurrent excitatory and inhibitory connections. We simulated two-dimensional networks of adaptive spiking neurons with local connection patterns following Gaussian kernels...
2017: Frontiers in Computational Neuroscience
https://www.readbyqxmd.com/read/28532357/visual-object-recognition-do-we-finally-know-more-now-than-we-did
#5
Isabel Gauthier, Michael J Tarr
How do we recognize objects despite changes in their appearance? The past three decades have been witness to intense debates regarding both whether objects are encoded invariantly with respect to viewing conditions and whether specialized, separable mechanisms are used for the recognition of different object categories. We argue that such dichotomous debates ask the wrong question. Much more important is the nature of object representations: What are features that enable invariance or differential processing between categories? Although the nature of object features is still an unanswered question, new methods for connecting data to models show significant potential for helping us to better understand neural codes for objects...
October 14, 2016: Annual Review of Vision Science
https://www.readbyqxmd.com/read/28531252/hick-hyman-law-is-mediated-by-the-cognitive-control-network-in-the-brain
#6
Tingting Wu, Alexander J Dufford, Laura J Egan, Melissa-Ann Mackie, Cong Chen, Changhe Yuan, Chao Chen, Xiaobo Li, Xun Liu, Patrick R Hof, Jin Fan
The Hick-Hyman law describes a linear increase in reaction time (RT) as a function of the information entropy of response selection, which is computed as the binary logarithm of the number of response alternatives. While numerous behavioral studies have provided evidence for the Hick-Hyman law, its neural underpinnings have rarely been examined and are still unclear. In this functional magnetic resonance imaging study, by utilizing a choice reaction time task to manipulate the entropy of response selection, we examined brain activity mediating the input and the output, as well as the connectivity between corresponding regions in human participants...
May 22, 2017: Cerebral Cortex
https://www.readbyqxmd.com/read/28530904/wiring-variations-that-enable-and-constrain-neural-computation-in-a-sensory-microcircuit
#7
William F Tobin, Rachel I Wilson, Wei-Chung Allen Lee
Neural network function can be shaped by varying the strength of synaptic connections. One way to achieve this is to vary connection structure. To investigate how structural variation among synaptic connections might affect neural computation, we examined primary afferent connections in the Drosophila olfactory system. We used large-scale serial section electron microscopy to reconstruct all the olfactory receptor neuron (ORN) axons that target a left-right pair of glomeruli, as well as all the projection neurons (PNs) postsynaptic to these ORNs...
May 22, 2017: ELife
https://www.readbyqxmd.com/read/28530717/sparse-coding-with-memristor-networks
#8
Patrick M Sheridan, Fuxi Cai, Chao Du, Wen Ma, Zhengya Zhang, Wei D Lu
Sparse representation of information provides a powerful means to perform feature extraction on high-dimensional data and is of broad interest for applications in signal processing, computer vision, object recognition and neurobiology. Sparse coding is also believed to be a key mechanism by which biological neural systems can efficiently process a large amount of complex sensory data while consuming very little power. Here, we report the experimental implementation of sparse coding algorithms in a bio-inspired approach using a 32 × 32 crossbar array of analog memristors...
May 22, 2017: Nature Nanotechnology
https://www.readbyqxmd.com/read/28530228/generic-decoding-of-seen-and-imagined-objects-using-hierarchical-visual-features
#9
Tomoyasu Horikawa, Yukiyasu Kamitani
Object recognition is a key function in both human and machine vision. While brain decoding of seen and imagined objects has been achieved, the prediction is limited to training examples. We present a decoding approach for arbitrary objects using the machine vision principle that an object category is represented by a set of features rendered invariant through hierarchical processing. We show that visual features, including those derived from a deep convolutional neural network, can be predicted from fMRI patterns, and that greater accuracy is achieved for low-/high-level features with lower-/higher-level visual areas, respectively...
May 22, 2017: Nature Communications
https://www.readbyqxmd.com/read/28526212/3d-deeply-supervised-network-for-automated-segmentation-of-volumetric-medical-images
#10
Qi Dou, Lequan Yu, Hao Chen, Yueming Jin, Xin Yang, Jing Qin, Pheng-Ann Heng
While deep convolutional neural networks (CNNs) have achieved remarkable success in 2D medical image segmentation, it is still a difficult task for CNNs to segment important organs or structures from 3D medical images owing to several mutually affected challenges, including the complicated anatomical environments in volumetric images, optimization difficulties of 3D networks and inadequacy of training samples. In this paper, we present a novel and efficient 3D fully convolutional network equipped with a 3D deep supervision mechanism to comprehensively address these challenges; we call it 3D DSN...
May 8, 2017: Medical Image Analysis
https://www.readbyqxmd.com/read/28522970/automatic-optimization-of-the-computation-graph-in-the-nengo-neural-network-simulator
#11
Jan Gosmann, Chris Eliasmith
One critical factor limiting the size of neural cognitive models is the time required to simulate such models. To reduce simulation time, specialized hardware is often used. However, such hardware can be costly, not readily available, or require specialized software implementations that are difficult to maintain. Here, we present an algorithm that optimizes the computational graph of the Nengo neural network simulator, allowing simulations to run more quickly on commodity hardware. This is achieved by merging identical operations into single operations and restructuring the accessed data in larger blocks of sequential memory...
2017: Frontiers in Neuroinformatics
https://www.readbyqxmd.com/read/28522969/equilibrium-propagation-bridging-the-gap-between-energy-based-models-and-backpropagation
#12
Benjamin Scellier, Yoshua Bengio
We introduce Equilibrium Propagation, a learning framework for energy-based models. It involves only one kind of neural computation, performed in both the first phase (when the prediction is made) and the second phase of training (after the target or prediction error is revealed). Although this algorithm computes the gradient of an objective function just like Backpropagation, it does not need a special computation or circuit for the second phase, where errors are implicitly propagated. Equilibrium Propagation shares similarities with Contrastive Hebbian Learning and Contrastive Divergence while solving the theoretical issues of both algorithms: our algorithm computes the gradient of a well-defined objective function...
2017: Frontiers in Computational Neuroscience
https://www.readbyqxmd.com/read/28521007/computing-the-social-brain-connectome-across-systems-and-states
#13
Daniel Alcalá-López, Jonathan Smallwood, Elizabeth Jefferies, Frank Van Overwalle, Kai Vogeley, Rogier B Mars, Bruce I Turetsky, Angela R Laird, Peter T Fox, Simon B Eickhoff, Danilo Bzdok
Social skills probably emerge from the interaction between different neural processing levels. However, social neuroscience is fragmented into highly specialized, rarely cross-referenced topics. The present study attempts a systematic reconciliation by deriving a social brain definition from neural activity meta-analyses on social-cognitive capacities. The social brain was characterized by meta-analytic connectivity modeling evaluating coactivation in task-focused brain states and physiological fluctuations evaluating correlations in task-free brain states...
May 18, 2017: Cerebral Cortex
https://www.readbyqxmd.com/read/28520235/high-dimensional-neural-network-potentials-for-complex-systems
#14
Jörg Behler
Modern simulation techniques have reached a level of maturity, which allows addressing a wide range of problems in chemistry and materials science. Unfortunately, the application of first principles methods with predictive power is still limited to rather small systems, and in spite of the rapid evolution of computer hardware no fundamental change of this situation can be expected. Consequently, to reach an atomic level understanding of complex systems, the development of more efficient but equally reliable atomistic potentials has received considerable attention in recent years...
May 18, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28513627/neuromorphic-device-architectures-with-global-connectivity-through-electrolyte-gating
#15
Paschalis Gkoupidenis, Dimitrios A Koutsouras, George G Malliaras
Information processing in the brain takes place in a network of neurons that are connected with each other by an immense number of synapses. At the same time, neurons are immersed in a common electrochemical environment, and global parameters such as concentrations of various hormones regulate the overall network function. This computational paradigm of global regulation, also known as homeoplasticity, has important implications in the overall behaviour of large neural ensembles and is barely addressed in neuromorphic device architectures...
May 17, 2017: Nature Communications
https://www.readbyqxmd.com/read/28510124/computer-aided-estimation-of-the-herg-mediated-cardiotoxicity-risk-of-potential-drug-components
#16
E V Radchenko, Yu A Rulev, A Ya Safanyaev, V A Palyulin, N S Zefirov
The hERG potassium channel is one of the most important anti-targets determining cardiotoxicity of potential drugs. Using fragmental descriptors and artificial neural networks, the predictive models of the relationship between the structure of organic compounds and their activity with respect to hERG were built, and the structural factors affecting it were analyzed. By their predictive ability and applicability domain, these models (N = 1000, Q (2) = 0.77, RMSE cv = 0.45 for affinity and N = 2886, Q (2) = 0...
March 2017: Doklady. Biochemistry and Biophysics
https://www.readbyqxmd.com/read/28509116/tonic-regulation-of-stationary-asynchronous-firing-of-a-neural-network
#17
D A Adamchik, V B Kazantsev
The impact of tonic conductance upon population activity was investigated. An extra tonic transmembrane current through GABA-activated extrasynaptic GABA A -receptors was found to control stationary asynchronous firing both quantitatively and qualitatively. Quantitative regulation consisted in alterating a current level of stationary population activity while qualitative regulation manifested itself in appearance of resilient asynchronous spiking in case GABA reversal potential exceeded a certain threshold...
May 16, 2017: Journal of Computational Neuroscience
https://www.readbyqxmd.com/read/28507695/ani-1-an-extensible-neural-network-potential-with-dft-accuracy-at-force-field-computational-cost
#18
J S Smith, O Isayev, A E Roitberg
Deep learning is revolutionizing many areas of science and technology, especially image, text, and speech recognition. In this paper, we demonstrate how a deep neural network (NN) trained on quantum mechanical (QM) DFT calculations can learn an accurate and transferable potential for organic molecules. We introduce ANAKIN-ME (Accurate NeurAl networK engINe for Molecular Energies) or ANI for short. ANI is a new method designed with the intent of developing transferable neural network potentials that utilize a highly-modified version of the Behler and Parrinello symmetry functions to build single-atom atomic environment vectors (AEV) as a molecular representation...
April 1, 2017: Chemical Science
https://www.readbyqxmd.com/read/28507240/mathematical-methods-in-medicine-neuroscience-cardiology-and-pathology
#19
José M Amigó, Michael Small
The application of mathematics, natural sciences and engineering to medicine is gaining momentum as the mutual benefits of this collaboration become increasingly obvious. This theme issue is intended to highlight the trend in the case of mathematics. Specifically, the scope of this theme issue is to give a general view of the current research in the application of mathematical methods to medicine, as well as to show how mathematics can help in such important aspects as understanding, prediction, treatment and data processing...
June 28, 2017: Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences
https://www.readbyqxmd.com/read/28507231/biological-modelling-of-a-computational-spiking-neural-network-with-neuronal-avalanches
#20
Xiumin Li, Qing Chen, Fangzheng Xue
In recent years, an increasing number of studies have demonstrated that networks in the brain can self-organize into a critical state where dynamics exhibit a mixture of ordered and disordered patterns. This critical branching phenomenon is termed neuronal avalanches. It has been hypothesized that the homeostatic level balanced between stability and plasticity of this critical state may be the optimal state for performing diverse neural computational tasks. However, the critical region for high performance is narrow and sensitive for spiking neural networks (SNNs)...
June 28, 2017: Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences
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