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https://www.readbyqxmd.com/read/27923060/the-limitations-of-model-based-experimental-design-and-parameter-estimation-in-sloppy-systems
#1
Andrew White, Malachi Tolman, Howard D Thames, Hubert Rodney Withers, Kathy A Mason, Mark K Transtrum
We explore the relationship among experimental design, parameter estimation, and systematic error in sloppy models. We show that the approximate nature of mathematical models poses challenges for experimental design in sloppy models. In many models of complex biological processes it is unknown what are the relevant physical mechanisms that must be included to explain system behaviors. As a consequence, models are often overly complex, with many practically unidentifiable parameters. Furthermore, which mechanisms are relevant/irrelevant vary among experiments...
December 2016: PLoS Computational Biology
https://www.readbyqxmd.com/read/27921155/comparison-of-two-and-three-dimensional-measurement-of-the-cobb-angle-in-scoliosis
#2
Ricarda Lechner, David Putzer, Dietmar Dammerer, Michael Liebensteiner, Christian Bach, Martin Thaler
PURPOSE: The Cobb angle as an objective measure is used to determine the progression of deformity, and is the basis in the planning of conservative and surgical treatment. However, studies have shown that the Cobb angle has two limitations: an inter- and intraobserver variability of the measurement is approximately 3-5 degrees, and high variability regarding the definition of the end vertebra. Scoliosis is a three-dimensional (3D) pathology, and 3D pathologies cannot be completely assessed by two-dimensional (2D) methods, like 2D radiography...
December 5, 2016: International Orthopaedics
https://www.readbyqxmd.com/read/27919305/a-new-model-for-parent-of-origin-effect-analyses-applied-to-brown-swiss-cattle-slaughterhouse-data
#3
I Blunk, M Mayer, H Hamann, N Reinsch
Genomic imprinting is a phenomenon that arises when the expression of genes depends on the parental origin of alleles. Epigenetic mechanisms may induce the full or partial suppression of maternal or paternal alleles, thereby leading to different types of imprinting. However, imprinting effects have received little consideration in animal breeding programmes, although their relevance to some agricultural important traits has been demonstrated. A recently proposed model (imprinting model) with two path-of-transmission (male and female)-specific breeding values for each animal accounts for all types of imprinting simultaneously (paternal, maternal, full and partial)...
December 6, 2016: Animal: An International Journal of Animal Bioscience
https://www.readbyqxmd.com/read/27918184/brain-responses-to-regular-and-octave-scrambled-melodies-a-case-of-predictive-coding
#4
Eitan Globerson, Roni Granot, Idan Tal, Yuval Harpaz, Maor Zeev-Wolf, Abraham Golstein
Melody recognition is an online process of evaluating incoming information and comparing this information to an existing internal corpus, thereby reducing prediction error. The predictive-coding model postulates top-down control on sensory processing accompanying reduction in prediction error. To investigate the relevancy of this model to melody processing, the current study examined early magnetoencephalogram (MEG) auditory responses to familiar and unfamiliar melodies in 25 participants. The familiar melodies followed and primed an octave-scrambled version of the same melody...
December 5, 2016: Journal of Experimental Psychology. Human Perception and Performance
https://www.readbyqxmd.com/read/27917451/reversal-learning-reveals-cognitive-deficits-and-altered-prediction-error-encoding-in-the-ventral-striatum-in-huntington-s-disease
#5
Katharina Nickchen, Rebecca Boehme, Maria Del Mar Amador, Thomas D Hälbig, Katharina Dehnicke, Patricia Panneck, Joachim Behr, Konstantin Prass, Andreas Heinz, Lorenz Deserno, Florian Schlagenhauf, Josef Priller
Huntington's disease (HD) is an autosomal dominant neurodegenerative condition characterized by a triad of movement disorder, neuropsychiatric symptoms and cognitive deficits. The striatum is particularly vulnerable to the effects of mutant huntingtin, and cell loss can already be found in presymptomatic stages. Since the striatum is well known for its role in reinforcement learning, we hypothesized to find altered behavioral and neural responses in HD patients in a probabilistic reinforcement learning task performed during functional magnetic resonance imaging...
December 5, 2016: Brain Imaging and Behavior
https://www.readbyqxmd.com/read/27917138/neural-elements-for-predictive-coding
#6
REVIEW
Stewart Shipp
Predictive coding theories of sensory brain function interpret the hierarchical construction of the cerebral cortex as a Bayesian, generative model capable of predicting the sensory data consistent with any given percept. Predictions are fed backward in the hierarchy and reciprocated by prediction error in the forward direction, acting to modify the representation of the outside world at increasing levels of abstraction, and so to optimize the nature of perception over a series of iterations. This accounts for many 'illusory' instances of perception where what is seen (heard, etc...
2016: Frontiers in Psychology
https://www.readbyqxmd.com/read/27916683/factor-analyses-for-the-%C3%A3-rebro-musculoskeletal-pain-questionnaire-for-working-and-non-working-patients-with-chronic-low-back-pain
#7
Remko Soer, Patrick Vroomen, Roy Stewart, Maarten Coppes, Patrick Stegeman, Pieter Dijkstra, Michiel Reneman
BACKGROUND CONTEXT: The ÖMPQ has good psychometric properties to predict return to work in patients with acute low back pain. Although it is used in patients with chronic back pain and non-workers, there is no evidence on the factor structure of the ÖMPQ in these populations. This is deemed an important prerequisite for future prediction studies. PURPOSE: to analyze the factor structure of the Örebro Musculoskeletal Pain Questionnaire (ÖMPQ) in working and non-working patients with chronic back pain...
December 1, 2016: Spine Journal: Official Journal of the North American Spine Society
https://www.readbyqxmd.com/read/27916437/animal-testing-is-still-the-best-way-to-find-new-treatments-for-patients
#8
Silvio Garattini, Giuliano Grignaschi
Experimental research proceeds by hypotheses formulated on the basis of previous or new knowledge and then tested. If they are accepted, they serve as the basis for further hypotheses, and if they are rejected new hypotheses can be developed. In other words, when we are at the frontiers of knowledge the path is forged by "trial and error". When a trial shows a hypothesis is wrong, this is a step toward making fewer errors. This process also applies to drug development. There is no magic formula at present to predict - at the pre-clinical level - the therapeutic value of a drug for people with a disease...
December 1, 2016: European Journal of Internal Medicine
https://www.readbyqxmd.com/read/27916313/influence-of-the-flap-on-outcomes-in-corneal-refractive-surgery-with-femtosecond-laser-smile-vs-flex
#9
J L Alió, M El Bahrawy, A Angelov, D Ortiz, P Yébana
OBJECTIVE: To investigate the influence of creating a flap on the postoperative optical quality of the cornea in terms of predicted corneal curvature and Seidel aberrations after 2 modalities of femtosecond assisted corneal lenticule extraction laser for the correction of myopia and myopic astigmatism: The flapless procedure small incision lenticular extraction (SMILE) and the flap-based femtosecond lenticular extraction (FLEx). METHODS: The study is a prospective consecutive non-randomised comparative interventional case series including 64 eyes with myopic or myopic astigmatism refractive errors...
December 1, 2016: Archivos de la Sociedad Española de Oftalmología
https://www.readbyqxmd.com/read/27916302/modelling-seasonal-effects-of-temperature-and-precipitation-on-honey-bee-winter-mortality-in-a-temperate-climate
#10
Matthew Switanek, Karl Crailsheim, Heimo Truhetz, Robert Brodschneider
Insect pollinators are essential to global food production. For this reason, it is alarming that honey bee (Apis mellifera) populations across the world have recently seen increased rates of mortality. These changes in colony mortality are often ascribed to one or more factors including parasites, diseases, pesticides, nutrition, habitat dynamics, weather and/or climate. However, the effect of climate on colony mortality has never been demonstrated. Therefore, in this study, we focus on longer-term weather conditions and/or climate's influence on honey bee winter mortality rates across Austria...
December 1, 2016: Science of the Total Environment
https://www.readbyqxmd.com/read/27915583/the-six-minute-walk-test-predicts-cardiorespiratory-fitness-in-individuals-with-aneurysmal-subarachnoid-hemorrhage
#11
Wouter J Harmsen, Gerard M Ribbers, Jorrit Slaman, Majanka H Heijenbrok-Kal, Ladbon Khajeh, Fop van Kooten, Sebastiaan J C M M Neggers, Rita J van den Berg-Emons
BACKGROUND: Peak oxygen uptake (VO2peak) established during progressive cardiopulmonary exercise testing (CPET) is the "gold-standard" for cardiorespiratory fitness. However, CPET measurements may be limited in patients with aneurysmal subarachnoid hemorrhage (a-SAH) by disease-related complaints, such as cardiovascular health-risks or anxiety. Furthermore, CPET with gas-exchange analyses require specialized knowledge and infrastructure with limited availability in most rehabilitation facilities...
December 5, 2016: Topics in Stroke Rehabilitation
https://www.readbyqxmd.com/read/27915289/codon-usage-is-less-optimized-in-eukaryotic-gene-segments-encoding-intrinsically-disordered-regions-than-in-those-encoding-structural-domains
#12
Keiichi Homma, Tamotsu Noguchi, Satoshi Fukuchi
Codon usage tends to be optimized in highly expressed genes. A plausible explanation for this phenomenon is that translational accuracy is increased in highly expressed genes with infrequent use of rare codons. Besides structural domains (SDs), eukaryotic proteins generally have intrinsically disordered regions (IDRs) that by themselves do not assume unique three-dimensional structures. As IDRs are free from structural constraint, they can probably accommodate more translational errors than SDs can. Thus, codon usage in IDRs is likely to be less optimized than that in SDs...
December 1, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27914551/feature-proportion-accuracy-of-hand-drawn-facial-approximation
#13
Kristina B Altes
Several studies have investigated the predictive accuracy of facial approximation methods for individual facial features, but few have investigated the ability of these methods to accurately predict the relative dimensions of these features. Photographs of 10 skulls from the William M. Bass Donated Skeletal Collection were used to create hand-drawn facial approximations following the guidelines presented in Taylor (2001). Measurements of the eyes, nose, and mouth were made and converted to ratios for comparison to their corresponding antemortem photographs...
December 2016: Science & Justice: Journal of the Forensic Science Society
https://www.readbyqxmd.com/read/27914310/electrical-potentials-measured-on-the-surface-of-the-knee-reflect-the-changes-of-the-contact-force-in-the-knee-joint-produced-by-postural-sway
#14
Lin Zhu, Martin Garon, Éric Quenneville, Michael D Buschmann, Pierre Savard
Electroarthrography (EAG) is a novel technique for recording potentials on the knee surface that are generated by the compression of articular cartilage and that reflect both compression force and cartilage quality. The mechanical loading of the knee is achieved by transferring the subject's body weight from a bipedal stance to a unipedal stance. We hypothesized that EAG potentials change with postural sway. The study was performed on 20 normal subjects (10 male, 10 female; age 29±10.5 yrs.; mass 68.8±14...
October 18, 2016: Gait & Posture
https://www.readbyqxmd.com/read/27913178/estimating-the-material-properties-of-heel-pad-sub-layers-using-inverse-finite-element-analysis
#15
Nafiseh Ahanchian, Christopher J Nester, David Howard, Lei Ren, Daniel Parker
Detailed information about the biomechanical behaviour of plantar heel pad tissue contributes to our understanding of load transfer when the foot impacts the ground. The objective of this work was to obtain the hyperelastic and viscoelastic material properties of heel pad sub-layers (skin, micro-chamber and macro-chamber layers) in-vivo. An anatomically detailed 3D Finite Element model of the human heel was used to derive the sub-layer material properties. A combined ultrasound imaging and motorised platform system was used to compress heel pad and to create input data for the Finite Element model...
November 29, 2016: Medical Engineering & Physics
https://www.readbyqxmd.com/read/27913131/using-phenomenological-models-for-forecasting-the-2015-ebola-challenge
#16
Bruce Pell, Yang Kuang, Cecile Viboud, Gerardo Chowell
BACKGROUND: The rising number of novel pathogens threatening the human population has motivated the application of mathematical modeling for forecasting the trajectory and size of epidemics. MATERIALS AND METHODS: We summarize the real-time forecasting results of the logistic equation during the 2015 Ebola challenge focused on predicting synthetic data derived from a detailed individual-based model of Ebola transmission dynamics and control. We also carry out a post-challenge comparison of two simple phenomenological models...
November 19, 2016: Epidemics
https://www.readbyqxmd.com/read/27910759/acidified-hot-water-extraction-of-adenosine-cordycepin-and-polysaccharides-from-the-chinese-caterpillar-mushroom-ophiocordyceps-sinensis-cs1197-ascomycetes-application-of-an-artificial-neural-network-and-evaluation-of-antioxidant-and-antibacterial-activities
#17
M G Shashidhar, B Manohar
The effects of process variables (temperature, time, and pH) on the extraction of adenosine, cordycepin, and polysaccharides from Ophiocordyceps sinensis CS1197 were studied using response surface methodology (RSM) and an artificial neural network (ANN). The ANN model resulted in low root mean square errors (0.022, 0.079, 0.018) and high R2 values (0.995, 0.934, 0.997) for adenosine, cordycepin, and polysaccharide yields, respectively, which implied good agreement between the predicted and actual data. An overall desirability of 0...
2016: International Journal of Medicinal Mushrooms
https://www.readbyqxmd.com/read/27910627/bayesian-tomography-and-integrated-data-analysis-in-fusion-diagnostics
#18
Dong Li, Y B Dong, Wei Deng, Z B Shi, B Z Fu, J M Gao, T B Wang, Yan Zhou, Yi Liu, Q W Yang, X R Duan
In this article, a Bayesian tomography method using non-stationary Gaussian process for a prior has been introduced. The Bayesian formalism allows quantities which bear uncertainty to be expressed in the probabilistic form so that the uncertainty of a final solution can be fully resolved from the confidence interval of a posterior probability. Moreover, a consistency check of that solution can be performed by checking whether the misfits between predicted and measured data are reasonably within an assumed data error...
November 2016: Review of Scientific Instruments
https://www.readbyqxmd.com/read/27909103/habenula-induced-inhibition-of-midbrain-dopamine-neurons-is-diminished-by-lesions-of-the-rostromedial-tegmental-nucleus
#19
P Leon Brown, Heather Palacorolla, Dana Brady, Katelyn Riegger, Greg I Elmer, Paul D Shepard
: Neurons in the lateral habenula (LHb) are transiently activated by aversive events and have been implicated in associative learning. Functional changes associated with tonic and phasic activation of the LHb are often attributed to a corresponding inhibition of midbrain dopamine (DA) neurons. Activation of GABAergic neurons in the rostromedial tegmental nucleus (RMTg), a region that receives dense projections from the LHb and projects strongly to midbrain monoaminergic nuclei, is believed to underlie the transient inhibition of DA neurons attributed to activation of the LHb...
December 1, 2016: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/27909102/the-attraction-effect-modulates-reward-prediction-errors-and-intertemporal-choices
#20
Sebastian Gluth, Jared M Hotaling, Jörg Rieskamp
: Classical economic theory contends that the utility of a choice option should be independent of other options. This view is challenged by the attraction effect, in which the relative preference between two options is altered by the addition of a third, asymmetrically dominated option. Here, we leveraged the attraction effect in the context of intertemporal choices to test whether both decisions and reward prediction errors (RPE)-in the absence of choice-violate the independence of irrelevant alternatives principle...
December 1, 2016: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
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