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https://www.readbyqxmd.com/read/28092552/discriminative-elastic-net-regularized-linear-regression
#1
Zheng Zhang, Zhihui Lai, Yong Xu, Ling Shao, Jian Wu, Guo-Sen Xie
In this paper, we aim at learning compact and discriminative linear regression models. Linear regression has been widely used in different problems. However, most of the existing linear regression methods exploit the conventional zeroone matrix as the regression targets, which greatly narrows the flexibility of the regression model. Another major limitation of theses methods is that the learned projection matrix fails to precisely project the image features to the target space due to their weak discriminative capability...
January 11, 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
https://www.readbyqxmd.com/read/28092529/sub-category-classifiers-for-multiple-instance-learning-and-its-application-to-retinal-nerve-fiber-layer-visibility-classification
#2
Siyamalan Manivannan, Caroline Cobb, Stephen Burgess, Emanuele Trucco
We propose a novel multiple instance learning method to assess the visibility (visible/not visible) of the retinal nerve fiber layer (RNFL) in fundus camera images. Using only image-level labels, our approach learns to classify the images as well as to localize the RNFL visible regions. We transform the original feature space to a discriminative subspace, and learn a region-level classifier in that subspace. We propose a margin-based loss function to jointly learn this subspace and the region-level classifier...
January 16, 2017: IEEE Transactions on Medical Imaging
https://www.readbyqxmd.com/read/28079124/axisymmetric-rotational-stagnation-point-flow-impinging-radially-a-permeable-stretching-shrinking-surface-in-a-nanofluid-using-tiwari-and-das-model
#3
Natalia C Roşca, Ioan Pop
In this paper, the problem of normal impingement rotational stagnation-point flow on a radially permeable stretching sheet in a viscous fluid, recently studied in a very interesting paper, is extended to a water-based nanofluid. A similarity transformation is used to reduce the system of governing nonlinear partial differential equations to a system of ordinary differential equations, which is then solved numerically using the function bvp4c from Matlab. It is found that dual (upper and lower branch) solutions exist for some values of the governing parameters...
January 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28078740/simlabel-a-graphical-user-interface-to-simulate-continuous-wave-epr-spectra-from-site-directed-spin-labeling-experiments
#4
E Etienne, N Le Breton, M Martinho, E Mileo, V Belle
Site Directed Spin Labeling (SDSL) combined with continuous wave Electron Paramagnetic Resonance (cw EPR) spectroscopy is a powerful technique to reveal, at the residue level, structural transitions in proteins. SDSL-EPR is based on the selective grafting of a paramagnetic label on the protein under study, followed by cw EPR analysis. To extract valuable quantitative information from SDSL-EPR spectra and thus give reliable interpretation on biological system dynamics, numerical simulations of the spectra are required...
January 12, 2017: Magnetic Resonance in Chemistry: MRC
https://www.readbyqxmd.com/read/28077924/temperature-during-pregnancy-influences-the-fetal-growth-and-birth-size
#5
Harunor Rashid, Miki Kagami, Farzana Ferdous, Enbo Ma, Toru Terao, Taiichi Hayashi, Yukiko Wagatsuma
BACKGROUND: Birth weight and length have seasonal fluctuations. However, it is uncertain which meteorological element has an effect on birth outcomes and which timing of pregnancy would explain such effect. Therefore, the purpose of this study was to examine temperature effects during pregnancy and which timing of pregnancy has effects on size at birth. METHODS: A large, randomized, controlled trial of food and micronutrient supplementation for pregnant women was conducted in Matlab, Bangladesh (MINIMat Study), where women were enrolled from November 2001 to October 2003...
2017: Tropical Medicine and Health
https://www.readbyqxmd.com/read/28074545/development-and-testing-of-a-database-of-nih-research-funding-of-aapm-members-a-report-from-aapm-working-group-for-the-development-of-a-research-database-wgdrd
#6
Brendan Whelan, Eduardo Moros, Rebecca Fahrig, James Deye, Thomas Yi, Michael Woodward, Paul Keall, Jeff Siewerdsen
PURPOSE: To produce and maintain a database of National Institutes of Health (NIH) funding of American Association of Physicists in Medicine (AAPM) members, to perform a top level analysis of this data, and to make this data (hereafter referred to as the AAPM research database) available for the use of the AAPM and its members. METHODS: NIH funded research dating back to 1985 is available for public download through the NIH exporter website, and AAPM membership information dating back to 2002 was supplied by the AAPM...
January 11, 2017: Medical Physics
https://www.readbyqxmd.com/read/28072912/temperature-mapping-in-hydrogel-matrices-using-unmodified-digital-camera
#7
Ghinwa H Darwish, Hassan H Fakih, Pierre Karam
We report a simple, generally applicable and noninvasive fluorescent method for mapping thermal fluctuations in hydrogel matrices using an unmodified commercially available digital single-lens reflex camera (DSLR). The nanothermometer is based on the complexation of short conjugated polyelectrolytes, poly-(phenylene ethynylene) carboxylate, with an amphiphilic polymer, polyvinylpyrrolidone, which is in turn trapped within the porous network of a gel matrix. Changes in the temperature lead to a fluorescent ratiometric response with a maximum relative sensitivity of 2...
January 10, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28065897/trfba-an-algorithm-to-integrate-genome-scale-metabolic-and-transcriptional-regulatory-networks-with-incorporation-of-expression-data
#8
Ehsan Motamedian, Maryam Mohammadi, Seyed Abbas Shojaosadati, Mona Heydari
MOTIVATION: Integration of different biological networks and data-types has been a major challenge in systems biology. The present study introduces the transcriptional regulated flux balance analysis (TRFBA) algorithm that integrates transcriptional regulatory and metabolic models using a set of expression data for various perturbations. RESULTS: TRFBA considers the expression levels of genes as a new continuous variable and introduces two new linear constraints...
January 8, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28062444/robust-parameter-estimation-for-dynamical-systems-from-outlier-corrupted-data
#9
Corinna Maier, Carolin Loos, Jan Hasenauer
MOTIVATION: Dynamics of cellular processes are often studied using mechanistic mathematical models. These models possess unknown parameters which are generally estimated from experimental data assuming normally distributed measurement noise. Outlier corruption of datasets often cannot be avoided. These outliers may distort the parameter estimates, resulting in incorrect model predictions. Robust parameter estimation methods are required which provide reliable parameter estimates in the presence of outliers...
January 6, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28062180/determination-of-cryothermal-injury-thresholds-in-tissues-impacted-by-cardiac-cryoablation
#10
Ryan P Goff, Stephen G Quallich, Robert A Buechler, John C Bischof, Paul A Iaizzo
Despite widespread clinical use of cryoablation, there remain questions regarding dosing and treatment times which may affect efficacy and collateral injury. Dosing and treatment times are directly related to the degree of cooling necessary for effective lesion formation. Human and swine atrial, ventricular, and lung tissues were ablated using two cryoablation systems with concurrent infrared thermography. Post freeze-thaw samples were cultured and stained to differentiate viable and non-viable tissue. Matlab code correlated viability staining to applied freeze-thaw thermal cycles, to determine injury thresholds...
January 3, 2017: Cryobiology
https://www.readbyqxmd.com/read/28059783/improved-cerebrospinal-fluid-based-discrimination-between-alzheimer-s-disease-patients-and-controls-after-correction-for-ventricular-volumes
#11
Linda J C van Waalwijk van Doorn, Juan D Gispert, H Bea Kuiperij, Jurgen A H R Claassen, Andrea Arighi, Inês Baldeiras, Kaj Blennow, Marco Bozzali, Miguel Castelo-Branco, Enrica Cavedo, Derya D Emek-Savaş, Erden Eren, Paolo Eusebi, Lucia Farotti, Chiara Fenoglio, Juan Fortea Ormaechea, Yvonne Freund-Levi, Giovanni B Frisoni, Daniela Galimberti, Sermin Genc, Viviana Greco, Harald Hampel, Sanna-Kaisa Herukka, Yawu Liu, Albert Lladó, Alberto Lleó, Flavio M Nobili, Kader K Oguz, Lucilla Parnetti, João Pereira, Agnese Picco, Maria Pikkarainen, Catarina Resende de Oliveira, Esen Saka, Nicola Salvadori, Raquel Sanchez-Valle, Isabel Santana, Elio Scarpini, Philip Scheltens, Hilkka Soininen, Roberto Tarducci, Charlotte Teunissen, Magda Tsolaki, Andrea Urbani, Eduard Vilaplana Martinez, Pieter Jelle Visser, Asa K Wallin, Görsev Yener, José L Molinuevo, Olga Meulenbroek, Marcel M Verbeek
Cerebrospinal fluid (CSF) biomarkers may support the diagnosis of Alzheimer's disease (AD). We studied if the diagnostic power of AD CSF biomarker concentrations, i.e., Aβ42, total tau (t-tau), and phosphorylated tau (p-tau), is affected by differences in lateral ventricular volume (VV), using CSF biomarker data and magnetic resonance imaging (MRI) scans of 730 subjects, from 13 European Memory Clinics. We developed a Matlab-algorithm for standardized automated segmentation analysis of T1 weighted MRI scans in SPM8 for determining VV, and computed its ratio with total intracranial volume (TIV) as proxy for total CSF volume...
December 3, 2017: Journal of Alzheimer's Disease: JAD
https://www.readbyqxmd.com/read/28059268/optimization-of-lightweight-structure-and-supporting-bipod-flexure-for-a-space-mirror
#12
Yi-Cheng Chen, Bo-Kai Huang, Zhen-Ting You, Chia-Yen Chan, Ting-Ming Huang
This article presents an optimization process for integrated optomechanical design. The proposed optimization process for integrated optomechanical design comprises computer-aided drafting, finite element analysis (FEA), optomechanical transfer codes, and an optimization solver. The FEA was conducted to determine mirror surface deformation; then, deformed surface nodal data were transferred into Zernike polynomials through MATLAB optomechanical transfer codes to calculate the resulting optical path difference (OPD) and optical aberrations...
December 20, 2016: Applied Optics
https://www.readbyqxmd.com/read/28059228/simple-flexible-and-accurate-phase-retrieval-method-for-generalized-phase-shifting-interferometry
#13
Kohei Yatabe, Kenji Ishikawa, Yasuhiro Oikawa
This paper presents a non-iterative phase retrieval method from randomly phase-shifted fringe images. By combining the hyperaccurate least squares ellipse fitting method with the subspace method (usually called the principal component analysis), a fast and accurate phase retrieval algorithm is realized. The proposed method is simple, flexible, and accurate. It can be easily coded without iteration, initial guess, or tuning parameter. Its flexibility comes from the fact that totally random phase-shifting steps and any number of fringe images greater than two are acceptable without any specific treatment...
January 1, 2017: Journal of the Optical Society of America. A, Optics, Image Science, and Vision
https://www.readbyqxmd.com/read/28057647/characterisation-of-choroidal-morphological-and-vascular-features-in-diabetes-and-diabetic-retinopathy
#14
Preeti Gupta, Sri Gowtham Thakku, Charumathi Sabanayagam, Gavin Tan, Chui Ming Gemmy Cheung, Ecosse L Lamoureux, Tien-Yin Wong, Ching-Yu Cheng
AIM: We aimed to characterise specific morphological and vascular features of the choroid in Indian adults with diabetes and diabetic retinopathy (DR). METHODS: Consecutive participants from the Singapore Indian Eye Study's 6-year follow-up examination underwent choroidal imaging using spectral domain optical coherence tomography (OCT) with enhanced depth imaging. Raw OCT images were loaded on a custom-written application on MATLAB that enabled delineation for detailed morphological and vascular analyses...
January 5, 2017: British Journal of Ophthalmology
https://www.readbyqxmd.com/read/28050904/paper-based-analytical-biosensor-chip-designed-from-graphene-nanoplatelet-amphiphilic-di-block-co-polymer-composite-for-cortisol-detection-in-human-saliva
#15
Muhammad Khan, Santosh K Misra, Zhen Wang, Enrique A Daza, Aaron Schwartz-Duval, Joseph Kus, Debanjan Pan, Dipanjan Pan
Cortisol has been identified as a biomarker in saliva to monitor psychological stress. In this work, we report label-free paper-based electrical biosensor chip to quantify salivary cortisol at a point-of-care (POC) level. A high specificity of the sensor chip to detect cortisol with detection limit of 3 pg/mL was achieved by conjugating anti-cortisol antibody (anti-CAB) on top of gold (Au) microelectrodes using 3,3'-Dithiodipropionic acid di(N-hydroxysuccinimide ester (DTSP) - as self-assembled monolayer (SAM) agent...
January 4, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28049109/ci2-for-creating-and-comparing-confidence-intervals-for-time-series-bivariate-plots
#16
David R Mullineaux
Currently no method exists for calculating and comparing the confidence-intervals (CI) for the time-series of a bivariate plot. The study's aim was to develop 'CI2' as a method to calculate the CI on time-series bivariate plots, and to identify if the CI between two bivariate time-series overlap. The test data were the knee and ankle angles from 10 healthy participants running on a motorised standard-treadmill and non-motorised curved-treadmill. For a recommended 10+ trials, CI2 involved calculating 95% confidence-ellipses at each time-point, then taking as the CI the points on the ellipses that were perpendicular to the direction vector between the means of two adjacent time-points...
December 23, 2016: Gait & Posture
https://www.readbyqxmd.com/read/28048922/mo-de-207b-09-a-consistent-test-for-radiomics-softwares
#17
J Gan, J Wang, H Zhong, R Luo, Z Zhou, P Hu, L Shen, Z Zhang
PURPOSE: The purpose of this study is to investigate the consistency of the features extracted by different radiomics software. METHODS: CT sets of 212 patients with rectum tumor and three existing radiomics feature extraction tools (IBEX from MD_Anderson, RADIOMICS from Maastro, and a MATLAB based code-set from our institution) were enrolled in this study. Among thousands of features that were extracted by three softwares, 273 (between our codes and RADIOMICS), 51 (between IBEX and RADIOMICS) and 34 (between our codes and IBEX) feature pairs were proven to be conjugated according to feature definition...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048904/su-g-bra-02-development-of-a-learning-based-block-matching-algorithm-for-ultrasound-tracking-in-radiotherapy
#18
A Shepard, B Bednarz
PURPOSE: To develop an ultrasound learning-based tracking algorithm with the potential to provide real-time motion traces of anatomy-based fiducials that may aid in the effective delivery of external beam radiation. METHODS: The algorithm was developed in Matlab R2015a and consists of two main stages: reference frame selection, and localized block matching. Immediately following frame acquisition, a normalized cross-correlation (NCC) similarity metric is used to determine a reference frame most similar to the current frame from a series of training set images that were acquired during a pretreatment scan...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048849/su-f-j-174-a-series-of-computational-human-phantoms-in-dicom-rt-format-for-normal-tissue-dose-reconstruction-in-epidemiological-studies
#19
A Pyakuryal, B Moroz, C Lee, C Pelletier, J Jung, C Lee
PURPOSE: Epidemiological studies of second cancer risk in radiotherapy patients often require individualized dose estimates of normal tissues. Prior to 3D conformal radiation therapy planning, patient anatomy information was mostly limited to 2D radiological images or not even available. Generic patient CT images are often used in commercial radiotherapy treatment planning system (TPS) to reconstruct normal tissue doses. The objective of the current work was to develop a series of reference size computational human phantoms in DICOM-RT format for direct use in dose reconstruction in TPS...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048842/su-f-r-18-updates-to-the-computational-environment-for-radiological-research-for-image-analysis
#20
Aditya P Apte, Joseph O Deasy
PURPOSE: To present new tools in CERR for Texture Analysis and Visualization. METHOD: (1) Quantitative Image Analysis: We added the ability to compute Haralick texture features based on local neighbourhood. The Texture features depend on many parameters used in their derivation. For example: (a) directionality, (b) quantization of image, (c) patch-size for the neighborhood, (d) handling of the edge voxels within the region of interest, (e) Averaging co-occurance matrix vs texture features for different directions etc...
June 2016: Medical Physics
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