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Spatial dependence analysis

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https://www.readbyqxmd.com/read/28436879/study-on-interaction-between-temporal-and-spatial-information-in-classification-of-emg-signals-in-myoelectric-prostheses
#1
Radhika Menon, Gaetano Di Caterina, Heba Lakany, Lykourgos Petropoulakis, Bernard Conway, John Soraghan
Advanced forearm prosthetic devices employ classifiers to recognize different electromyography (EMG) signal patterns, in order to identify the user's intended motion gesture. The classification accuracy is one of the main determinants of real-time controllability of a prosthetic limb and hence the necessity to achieve as high an accuracy as possible. In this paper, we study the effects of the temporal and spatial information provided to the classifier on its offline performance and analyze their inter-dependencies...
April 19, 2017: IEEE Transactions on Neural Systems and Rehabilitation Engineering
https://www.readbyqxmd.com/read/28433457/spatial-and-temporal-expression-patterns-of-genes-around-nine-neuroticism-associated-loci
#2
Kazutaka Ohi, Takamitsu Shimada, Toshiki Yasuyama, Kohei Kimura, Takashi Uehara, Yasuhiro Kawasaki
Neuroticism is a high-order personality trait. Individuals with higher neuroticism have increased risks of various psychiatric disorders and physical health outcomes. Neuroticism is related to physiological differences in the brain. A recent genome-wide association study identified nine distinct genomic loci that contribute to neuroticism. Brain development and function depend on the precise regulation of gene expression, which is differentially regulated across brain regions and developmental stages. Using multiple publicly available human post-mortem databases, we investigated, in brain and non-brain tissues and across several developmental life stages, the spatial and temporal expression patterns of genes arising from nine neuroticism-associated loci...
April 19, 2017: Progress in Neuro-psychopharmacology & Biological Psychiatry
https://www.readbyqxmd.com/read/28430222/impact-of-partial-coherence-on-the-apparent-optical-transfer-function-derived-from-the-response-to-amplitude-edges
#3
S Mojtaba Shakeri, Lucas J van Vliet, Sjoerd Stallinga
We present an investigation of the impact of partial coherence on optical imaging systems with the focus on whole slide imaging (WSI) systems for digital pathology. The investigation is based on the analysis of the edge response of the optical system, which gives rise to an apparent optical transfer function (OTF) that can be linked to two elementary complex functions Q and U. The function Q is directly related to the transmission cross coefficient (TCC) and can be identified with the performance function first introduced by Kintner and Sillitto...
April 20, 2017: Applied Optics
https://www.readbyqxmd.com/read/28429808/slow-creep-in-soft-granular-packings
#4
Ishan Srivastava, Timothy S Fisher
Transient creep mechanisms in soft granular packings are studied numerically using a constant pressure and constant stress simulation method. Rapid compression followed by slow dilation is predicted on the basis of a logarithmic creep phenomenon. Characteristic scales of creep strain and time exhibit a power-law dependence on jamming pressure, and they diverge at the jamming point. Microscopic analysis indicates the existence of a correlation between rheology and nonaffine fluctuations. Localized regions of large strain appear during creep and grow in magnitude and size at short times...
April 21, 2017: Soft Matter
https://www.readbyqxmd.com/read/28427451/household-level-spatio-temporal-analysis-of-plasmodium-falciparum-and-plasmodium-vivax-malaria-in-ethiopia
#5
Dinberu Seyoum, Delenasaw Yewhalaw, Luc Duchateau, Patrick Brandt, Angel Rosas-Aguirre, Niko Speybroeck
BACKGROUND: The global decline of malaria burden and goals for elimination has led to an increased interest in the fine-scale epidemiology of malaria. Micro-geographic heterogeneity of malaria infection could have implications for designing targeted small-area interventions. METHODS: Two-year longitudinal cohort study data were used to explore the spatial and spatio-temporal distribution of malaria episodes in 2040 children aged < 10 years in 16 villages near the Gilgel-Gibe hydropower dam in Southwest Ethiopia...
April 20, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28419310/calmodulin-as-a-ca2-sensing-subunit-of-arabidopsis-cyclic-nucleotide-gated-channel-complexes
#6
Cornelia Fischer, Thomas A DeFalco, Purva Karia, Wayne A Snedden, Wolfgang Moeder, Keiko Yoshioka, Petra Dietrich
Ca2+ serves as a universal second messenger in eukaryotic signaling pathways, and the spatial and temporal patterns of Ca2+ concentration changes are determined by feedback and feed-forward regulation of the involved transport proteins. Cyclic nucleotide-gated channels (CNGCs) are Ca2+-permeable channels that interact with the ubiquitous Ca2+ sensor calmodulin (CaM). CNGCs interact with CaMs via diverse CaM-binding sites, including an IQ-motif, which has been identified in the C-termini of CNGC20 and CNGC12...
April 13, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/28416453/high-resolution-data-analysis-strategies-for-mesoscale-human-functional-mri-at-7-and-9-4t
#7
Valentin G Kemper, Federico De Martino, Thomas C Emmerling, Essa Yacoub, Rainer Goebel
The advent of ultra-high field functional magnetic resonance imaging (fMRI) has greatly facilitated submillimeter resolution acquisitions (voxel volume below (1mm³)), allowing the investigation of cortical columns and cortical depth dependent (i.e. laminar) structures in the human brain. Advanced data analysis techniques are essential to exploit the information in high resolution functional measures. In this article, we use recent, exemplary 9.4T human functional and anatomical data to review the advantages and disadvantages of (1) pooling high resolution data across regions of interest for cortical depth profile analysis, (2) pooling across cortical depths for mapping patches of cortex while discarding depth-dependent (i...
April 14, 2017: NeuroImage
https://www.readbyqxmd.com/read/28411613/molecular-size-insensitivity-of-optical-gap-of-n-cycloparaphenylenes-n-3-16
#8
Yoshifumi Noguchi, Osamu Sugino
The first-principles GW+Bethe-Salpeter method is applied to [n]cycloparaphenylenes ([n]CPPs, n = 3-16) to explain why the experimental UV-vis absorption spectra for n = 7-16 are roughly size-insensitive, unlike the fluorescence spectra. Having confirmed that the calculated absorption spectra consistently exhibit size-insensitivity, the exciton properties are investigated in detail using a novel analysis method based on the two-particle picture. The size-insensitivity of large-sized [n]CPPs (n≥9) is found due to a common spatial distribution of the wave functions involved with the first dark exciton and the first bright exciton, which are characterized primarily by a number of the wave function nodes...
April 14, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28411219/global-scale-structure-of-the-eelgrass-microbiome
#9
Ashkaan K Fahimipour, Melissa R Kardish, Jenna M Lang, Jessica L Green, Jonathan A Eisen, John J Stachowicz
Plant-associated microorganisms are essential for their hosts' survival and performance. Yet, most plant microbiome studies to date have focused on terrestrial species sampled across relatively small spatial scales. Here we report results of a global-scale analysis of microbial communities associated with leaf and root surfaces of the marine eelgrass Zostera marina throughout its range in the Northern Hemisphere. By contrasting host microbiomes with those of surrounding seawater and sediment, we uncovered the structure, composition and variability of microbial communities associated with eelgrass...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28409730/chronic-multisite-brain-recordings-from-a-totally-implantable-bidirectional-neural-interface-experience-in-5-patients-with-parkinson-s-disease
#10
Nicole C Swann, Coralie de Hemptinne, Svjetlana Miocinovic, Salman Qasim, Jill L Ostrem, Nicholas B Galifianakis, Marta San Luciano, Sarah S Wang, Nathan Ziman, Robin Taylor, Philip A Starr
OBJECTIVE Dysfunction of distributed neural networks underlies many brain disorders. The development of neuromodulation therapies depends on a better understanding of these networks. Invasive human brain recordings have a favorable temporal and spatial resolution for the analysis of network phenomena but have generally been limited to acute intraoperative recording or short-term recording through temporarily externalized leads. Here, the authors describe their initial experience with an investigational, first-generation, totally implantable, bidirectional neural interface that allows both continuous therapeutic stimulation and recording of field potentials at multiple sites in a neural network...
April 14, 2017: Journal of Neurosurgery
https://www.readbyqxmd.com/read/28409429/multivariate-statistical-assessment-of-a-polluted-river-under-nitrification-inhibition-in-the-tropics
#11
Thi Thu Huyen Le, Stephanie Zeunert, Malte Lorenz, Günter Meon
A large complex water quality data set of a polluted river, the Tay Ninh River, was evaluated to identify its water quality problems, to assess spatial variation, to determine the main pollution sources, and to detect relationships between parameters. This river is highly polluted with organic substances, nutrients, and total iron. An important problem of the river is the inhibition of the nitrification. For the evaluation, different statistical techniques including cluster analysis (CA), discriminant analysis (DA), and principal component analysis (PCA) were applied...
April 13, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28406996/ultrasensitivity-and-fluctuations-in-the-barkai-leibler-model-of-chemotaxis-receptors-in-escherichia-coli
#12
Ushasi Roy, Manoj Gopalakrishnan
A stochastic version of the Barkai-Leibler model of chemotaxis receptors in Escherichia coli is studied here with the goal of elucidating the effects of intrinsic network noise in their conformational dynamics. The model was originally proposed to explain the robust and near-perfect adaptation of E. coli observed across a wide range of spatially uniform attractant/repellent (ligand) concentrations. In the model, a receptor is either active or inactive and can stochastically switch between the two states. The enzyme CheR methylates inactive receptors while CheB demethylates active receptors and the probability for a receptor to be active depends on its level of methylation and ligand occupation...
2017: PloS One
https://www.readbyqxmd.com/read/28406920/experimental-and-mathematical-analysis-of-camp-nanodomains
#13
Christian Lohse, Andreas Bock, Isabella Maiellaro, Annette Hannawacker, Lothar R Schad, Martin J Lohse, Wolfgang R Bauer
In their role as second messengers, cyclic nucleotides such as cAMP have a variety of intracellular effects. These complex tasks demand a highly organized orchestration of spatially and temporally confined cAMP action which should be best achieved by compartmentalization of the latter. A great body of evidence suggests that cAMP compartments may be established and maintained by cAMP degrading enzymes, e.g. phosphodiesterases (PDEs). However, the molecular and biophysical details of how PDEs can orchestrate cAMP gradients are entirely unclear...
2017: PloS One
https://www.readbyqxmd.com/read/28405518/detailed-resolution-analysis-reveals-spatial-t-cell-heterogeneity-in-the-invasive-margin-of-colorectal-cancer-liver-metastases-associated-with-improved-survival
#14
Anna Berthel, Inka Zoernig, Nektarios A Valous, Christoph Kahlert, Fee Klupp, Alexis Ulrich, Juergen Weitz, Dirk Jaeger, Niels Halama
On a broader scale, T cell density and localization in colorectal cancer liver metastases have prognostic and predictive implications. As T cell distribution at higher resolutions has not been fully investigated, a detailed resolution analysis of T cell distribution was performed. Patient tissues were divided into 10 µm distance classes between the tumor border and adjacent normal liver. Thereby, distinct density patterns of T cell localization in relation to the malignant tissue could be detected. At a distance of 20 to 30 µm to the tumor, a decrease of CD3 T cells is common...
2017: Oncoimmunology
https://www.readbyqxmd.com/read/28405359/suicides-on-the-austrian-railway-network-hotspot-analysis-and-effect-of-proximity-to-psychiatric-institutions
#15
Markus J Strauss, Peter Klimek, Gernot Sonneck, Thomas Niederkrotenthaler
Railway suicide is a significant public health problem. In addition to the loss of lives, these suicides occur in public space, causing traumatization among train drivers and passengers, and significant public transport delays. Prevention efforts depend upon accurate knowledge of clustering phenomena across the railway network, and spatial risk factors. Factors such as proximity to psychiatric institutions have been discussed to impact on railway suicides, but analytic evaluations are scarce and limited. We identify 15 hotspots on the Austrian railway system while taking case location uncertainties into account...
March 2017: Royal Society Open Science
https://www.readbyqxmd.com/read/28405307/the-shift-from-plant-plant-facilitation-to-competition-under-severe-water-deficit-is-spatially-explicit
#16
Michael J O'Brien, Francisco I Pugnaire, Cristina Armas, Susana Rodríguez-Echeverría, Christian Schöb
The stress-gradient hypothesis predicts a higher frequency of facilitative interactions as resource limitation increases. Under severe resource limitation, it has been suggested that facilitation may revert to competition, and identifying the presence as well as determining the magnitude of this shift is important for predicting the effect of climate change on biodiversity and plant community dynamics. In this study, we perform a meta-analysis to compare temporal differences of species diversity and productivity under a nurse plant (Retama sphaerocarpa) with varying annual rainfall quantity to test the effect of water limitation on facilitation...
April 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28403888/the-relationship-between-ethnic-composition-of-the-residential-environment-and-self-reported-health-among-turks-and-moroccans-in-amsterdam
#17
Eleonore M Veldhuizen, Umar Z Ikram, Sjoerd de Vos, Anton E Kunst
BACKGROUND: Previous studies from the US and UK suggest that neighbourhood ethnic composition is associated with health, positive or negative, depending on the health outcome and ethnic group. We examined the association between neighbourhood ethnic composition and self-reported health in these groups in Amsterdam, and we aimed to explore whether there is spatial variation in this association. METHODS: We used micro-scale data to describe the ethnic composition in buffers around the home location of 2701 Turks and 2661 Moroccans...
April 12, 2017: International Journal of Health Geographics
https://www.readbyqxmd.com/read/28398812/fmri-clustering-in-afni-false-positive-rates-redux
#18
Robert W Cox, Gang Chen, Daniel R Glen, Richard C Reynolds, Paul A Taylor
Recent reports of inflated false-positive rates (FPRs) in FMRI group analysis tools by Eklund and associates in 2016 have become a large topic within (and outside) neuroimaging. They concluded that existing parametric methods for determining statistically significant clusters had greatly inflated FPRs ("up to 70%," mainly due to the faulty assumption that the noise spatial autocorrelation function is Gaussian shaped and stationary), calling into question potentially "countless" previous results; in contrast, nonparametric methods, such as their approach, accurately reflected nominal 5% FPRs...
April 2017: Brain Connectivity
https://www.readbyqxmd.com/read/28396430/in-situ-structural-studies-of-tripeptidyl-peptidase-ii-tppii-reveal-spatial-association-with-proteasomes
#19
Yoshiyuki Fukuda, Florian Beck, Jürgen M Plitzko, Wolfgang Baumeister
Tripeptidyl peptidase II (TPPII) is a eukaryotic protease acting downstream of the 26S proteasome; it removes tripeptides from the degradation products released by the proteasome. Structural studies in vitro have revealed the basic architecture of TPPII, a two-stranded linear polymer that assembles to form a spindle-shaped complex of ∼6 MDa. Dependent on protein concentration, TPPII has a distinct tendency for polymorphism. Therefore, its structure in vivo has remained unclear. To resolve this issue, we have scrutinized cryo-electron tomograms of rat hippocampal neurons for the occurrence and spatial distribution of TPPII by template matching...
April 10, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28395127/site-specific-gene-expression-analysis-of-implant-near-cells-in-a-soft-tissue-infection-model-application-of-laser-microdissection-to-study-biomaterial-associated-infection
#20
Sara Svensson, Margarita Trobos, Omar Omar, Peter Thomsen
Analysis of the implant-tissue interface is important for an understanding of the cellular response to biomaterials with different surface characteristics. However, inaccessibility to the site has restricted the detailed evaluation of the tissue surrounding the implant. Laser microdissection enables the isolation of specific cells and tissues for subsequent DNA, RNA or protein analysis. The present experimental study employed laser microdissection to analyse tissue-specific differences in gene expression in cells around infected or control titanium implants 72 hours after subcutaneous implantation in a rat model...
April 10, 2017: Journal of Biomedical Materials Research. Part A
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