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https://www.readbyqxmd.com/read/28087585/standard-based-comprehensive-detection-of-adverse-drug-reaction-signals-from-nursing-statements-and-laboratory-results-in-electronic-health-records
#1
Suehyun Lee, Jiyeob Choi, Hun-Sung Kim, Grace Juyun Kim, Kye Hwa Lee, Chan Hee Park, Jongsoo Han, Dukyong Yoon, Man Young Park, Rae Woong Park, Hye-Ryun Kang, Ju Han Kim
OBJECTIVE: We propose 2 Medical Dictionary for Regulatory Activities-enabled pharmacovigilance algorithms, MetaLAB and MetaNurse, powered by a per-year meta-analysis technique and improved subject sampling strategy. MATRIALS AND METHODS: This study developed 2 novel algorithms, MetaLAB for laboratory abnormalities and MetaNurse for standard nursing statements, as significantly improved versions of our previous electronic health record (EHR)-based pharmacovigilance method, called CLEAR...
January 13, 2017: Journal of the American Medical Informatics Association: JAMIA
https://www.readbyqxmd.com/read/28081561/a-novel-richardson-lucy-model-with-dictionary-basis-and-spatial-regularization-for-isolating-isotropic-signals
#2
Tiantian Xu, Yuanjing Feng, Ye Wu, Qingrun Zeng, Jun Zhang, Jianzhong He, Qichuan Zhuge
Diffusion-weighted magnetic resonance imaging is a non-invasive imaging method that has been increasingly used in neuroscience imaging over the last decade. Partial volume effects (PVEs) exist in sampling signal for many physical and actual reasons, which lead to inaccurate fiber imaging. We overcome the influence of PVEs by separating isotropic signal from diffusion-weighted signal, which can provide more accurate estimation of fiber orientations. In this work, we use a novel response function (RF) and the correspondent fiber orientation distribution function (fODF) to construct different signal models, in which case the fODF is represented using dictionary basis function...
2017: PloS One
https://www.readbyqxmd.com/read/28079902/phenx-measures-for-phenotyping-rare-genetic-conditions
#3
Michael Phillips, Tracey Grant, Philip Giampietro, Joann Bodurtha, Rodolfo Valdez, Deborah R Maiese, Tabitha Hendershot, Sharon F Terry, Carol M Hamilton
INTRODUCTION: The PhenX Toolkit, an online resource of well-established measures of phenotypes and exposures, now has 16 new measures recommended for assessing rare genetic conditions. MATERIALS AND METHODS: These measures and their protocols were selected by a working group of domain experts with input from the scientific community. RESULTS: The measures, which cover life stages from birth through adulthood, include clinical scales, characterization of rare genetic conditions, bioassays, and questionnaires...
January 12, 2017: Genetics in Medicine: Official Journal of the American College of Medical Genetics
https://www.readbyqxmd.com/read/28077766/historical-citizen-science-to-understand-and-predict-climate-driven-trout-decline
#4
Miguel Clavero, Miquel Ninyerola, Virgilio Hermoso, Ana Filipa Filipe, Magda Pla, Daniel Villero, Lluís Brotons, Miguel Delibes
Historical species records offer an excellent opportunity to test the predictive ability of range forecasts under climate change, but researchers often consider that historical records are scarce and unreliable, besides the datasets collected by renowned naturalists. Here, we demonstrate the relevance of biodiversity records developed through citizen-science initiatives generated outside the natural sciences academia. We used a Spanish geographical dictionary from the mid-nineteenth century to compile over 10 000 freshwater fish records, including almost 4 000 brown trout (Salmo trutta) citations, and constructed a historical presence-absence dataset covering over 2 000 10 × 10 km cells, which is comparable to present-day data...
January 11, 2017: Proceedings. Biological Sciences
https://www.readbyqxmd.com/read/28074530/slice-profile-and-b1-corrections-in-2d-magnetic-resonance-fingerprinting
#5
Dan Ma, Simone Coppo, Yong Chen, Debra F McGivney, Yun Jiang, Shivani Pahwa, Vikas Gulani, Mark A Griswold
PURPOSE: The goal of this study is to characterize and improve the accuracy of 2D magnetic resonance fingerprinting (MRF) scans in the presence of slice profile (SP) and B1 imperfections, which are two main factors that affect quantitative results in MRF. METHODS: The SP and B1 imperfections are characterized and corrected separately. The SP effect is corrected by simulating the radiofrequency pulse in the dictionary, and the B1 is corrected by acquiring a B1 map using the Bloch-Siegert method before each scan...
January 11, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28071818/safety-profile-of-the-direct-oral-anticoagulants-an-analysis-of-the-who-database-of-adverse-drug-reactions
#6
Luca Monaco, Chiara Biagi, Valentino Conti, Mauro Melis, Monia Donati, Mauro Venegoni, Alberto Vaccheri, Domenico Motola
AIM: Direct oral anticoagulants (DOACs) have shown non-inferiority to warfarin for stroke prevention in non-valvular atrial fibrillation (AF) and a more promising safety profile. Unanswered safety aspects remain to addressed and available evidence on the risk associated with these drugs are conflicting. In order to contribute to the debate on their safety profile, we conducted a comparative analysis of the reports of suspected adverse drug reactions (ADRs) associated with DOACs in VigiBase...
January 10, 2017: British Journal of Clinical Pharmacology
https://www.readbyqxmd.com/read/28070824/tolerability-of-an-immunologically-enhanced-subcutaneous-immunotherapy-preparation-in-patients-treated-with-concomitant-allergy-immunotherapy-a-non-interventional-observational-study
#7
Rainer Reiber, Hendrik Wolf, Jörg Schnitker, Eike Wüstenberg
BACKGROUND: For causal treatment by allergy immunotherapy (AIT) a single or few allergen products for the clinically most relevant allergens are applied to treat multiple allergies, but few data on the tolerability of multiple AIT applications are available. OBJECTIVE: The aim of our study was to investigate safety and tolerability in patients treated by subcutaneous immunotherapy (SCIT) and concomitant SCIT or sublingual immunotherapy (SLIT) products. METHODS: In a non-interventional, observational study in Germany treatment of patients with a primary SCIT and concomitant AIT (SCIT or SLIT) was documented during the first 4 months of treatment...
January 9, 2017: Drugs—Real World Outcomes
https://www.readbyqxmd.com/read/28066843/hyperbolic-space-sparse-coding-with-its-application-on-prediction-of-alzheimer-s-disease-in-mild-cognitive-impairment
#8
Jie Zhang, Jie Shi, Cynthia Stonnington, Qingyang Li, Boris A Gutman, Kewei Chen, Eric M Reiman, Richard J Caselli, Paul M Thompson, Jieping Ye, Yalin Wang
Mild Cognitive Impairment (MCI) is a transitional stage between normal age-related cognitive decline and Alzheimer's disease (AD). Here we introduce a hyperbolic space sparse coding method to predict impending decline of MCI patients to dementia using surface measures of ventricular enlargement. First, we compute diffeomorphic mappings between ventricular surfaces using a canonical hyperbolic parameter space with consistent boundary conditions and surface tensor-based morphometry is computed to measure local surface deformations...
October 2016: Medical Image Computing and Computer-assisted Intervention: MICCAI ..
https://www.readbyqxmd.com/read/28063022/identification-of-a-syndrome-class-of-neuropsychiatric-adverse-reactions-to-mefloquine-from-latent-class-modeling-of-fda-adverse-event-reporting-system-data
#9
Remington L Nevin, Jeannie-Marie Leoutsakos
INTRODUCTION: Although mefloquine use is known to be associated with a risk of severe neuropsychiatric adverse reactions that are often preceded by prodromal symptoms, specific combinations of neurologic or psychiatric reactions associated with mefloquine use are not well described in the literature. This study sought to identify a distinct neuropsychiatric syndrome class associated with mefloquine use in reports of adverse events. METHODS: Latent class modeling of US Food and Drug Administration Adverse Event Reporting System (FAERS) data was performed using indicators defined by the Medical Dictionary for Regulatory Activities neurologic and psychiatric high-level group terms, in a study dataset of FAERS reports (n = 5332) of reactions to common antimalarial drugs...
January 6, 2017: Drugs in R&D
https://www.readbyqxmd.com/read/28060712/self-taught-low-rank-coding-for-visual-learning
#10
Sheng Li, Kang Li, Yun Fu
The lack of labeled data presents a common challenge in many computer vision and machine learning tasks. Semisupervised learning and transfer learning methods have been developed to tackle this challenge by utilizing auxiliary samples from the same domain or from a different domain, respectively. Self-taught learning, which is a special type of transfer learning, has fewer restrictions on the choice of auxiliary data. It has shown promising performance in visual learning. However, existing self-taught learning methods usually ignore the structure information in data...
January 2, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28059578/a-bayesian-meta-analytic-approach-for-safety-signal-detection-in-randomized-clinical-trials
#11
Motoi Odani, Satoru Fukimbara, Tosiya Sato
BACKGROUND/AIM: Meta-analyses are frequently performed on adverse event data and are primarily used for improving statistical power to detect safety signals. However, in the evaluation of drug safety for New Drug Applications, simple pooling of adverse event data from multiple clinical trials is still commonly used. We sought to propose a new Bayesian hierarchical meta-analytic approach based on consideration of a hierarchical structure of reported individual adverse event data from multiple randomized clinical trials...
January 1, 2017: Clinical Trials: Journal of the Society for Clinical Trials
https://www.readbyqxmd.com/read/28052436/quantification-of-1-h-mrs-signals-based-on-sparse-metabolite-profiles-in-the-time-frequency-domain
#12
Mohammad Ali Parto Dezfouli, Mohsen Parto Dezfouli, Alireza Ahmadian, Alejandro F Frangi, Melika Esmaeili Rad, Hamidreza Saligheh Rad
MRS is an analytical approach used for both quantitative and qualitative analysis of human body metabolites. The accurate and robust quantification capability of proton MRS ((1) H-MRS) enables the accurate estimation of living tissue metabolite concentrations. However, such methods can be efficiently employed for quantification of metabolite concentrations only if the overlapping nature of metabolites, existing static field inhomogeneity and low signal-to-noise ratio (SNR) are taken into consideration. Representation of (1) H-MRS signals in the time-frequency domain enables us to handle the baseline and noise better...
January 4, 2017: NMR in Biomedicine
https://www.readbyqxmd.com/read/28048858/su-f-i-07-cbct-denoising-based-on-adaptive-dictionary-learning-algorithms
#13
Shaohua Qin, Juan Yin, Hongsheng Li, Jinhu Chen, Yong Yin, Dengwang Li
PURPOSE: We proposed a new dictionary learning algorithm (AK-SVD) based on K-SVD. AK-SVD can denoise the CBCT image, and did not need the noise information as prior knowledge. METHODS: The AK-SVD had two steps: signal sparse representation, and then dictionary optimization. The CBCT image was sparse, and there were limited big coefficients. The other coefficients were zero or near zero. In the sparse representation step of traditional K-SVD, the noise variance was used as a threshold to select the big representation coefficients...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048112/mo-de-207a-05-dictionary-learning-based-reconstruction-with-low-rank-constraint-for-low-dose-spectral-ct
#14
Q Xu, H Liu, H Yu, G Wang, L Xing
PURPOSE: Spectral CT enabled by an energy-resolved photon-counting detector outperforms conventional CT in terms of material discrimination, contrast resolution, etc. One reconstruction method for spectral CT is to generate a color image from a reconstructed component in each energy channel. However, given the radiation dose, the number of photons in each channel is limited, which will result in strong noise in each channel and affect the final color reconstruction. Here we propose a novel dictionary learning method for spectral CT that combines dictionary-based sparse representation method and the patch based low-rank constraint to simultaneously improve the reconstruction in each channel and to address the inter-channel correlations to further improve the reconstruction...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28047396/su-f-i-12-region-specific-dictionary-learning-for-low-dose-x-ray-ct-reconstruction
#15
Q Xu, H Han, L Xing
PURPOSE: Dictionary learning based method has attracted more and more attentions in low-dose CT due to the superior performance on suppressing noise and preserving structural details. Considering the structures and noise vary from region to region in one imaging object, we propose a region-specific dictionary learning method to improve the low-dose CT reconstruction. METHODS: A set of normal-dose images was used for dictionary learning. Segmentations were performed on these images, so that the training patch sets corresponding to different regions can be extracted out...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28046426/th-cd-206-06-regularized-composite-shape-prior-encoding-shape-relevance-in-variational-image-segmentation
#16
T Zhao, D Ruan
PURPOSE: Variational image segmentation incorporating regularized composite shape prior (RCSP) based on a shape dictionary has demonstrated benefits in robustness and accuracy. However, it still has the risk of local minimum in a non-convex optimization setting. This study aims to drive the variational segmentation towards global optimum by introducing hyper prior on the composite weights of RCSP, which encode the shape priors' relevance to the specific segmentation task. METHODS: In addition to using a RCSP to regularize the variational segmentation, where the RCSP is constructed by a linear combination of the shape dictionary, this study introduces a hyper prior on the linear weights of this shape composite...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28046223/th-cd-206-09-learning-based-mri-ct-prostate-registration-using-spare-patch-deformation-dictionary
#17
X Yang, A Jani, P Rossi, H Mao, W Curran, T Liu
PURPOSE: To enable MRI-guided prostate radiotherapy, MRI-CT deformable registration is required to map the MRI-defined tumor and key organ contours onto the CT images. Due to the intrinsic differences in grey-level intensity characteristics between MRI and CT images, the integration of MRI into CT-based radiotherapy is very challenging. We are developing a learning-based registration approach to address this technical challenge. METHODS: We propose to estimate the deformation between MRI and CT images in a patch-wise fashion by using the sparse representation technique...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28044249/evaluation-of-facebook-and-twitter-monitoring-to-detect-safety-signals-for-medical-products-an-analysis-of-recent-fda-safety-alerts
#18
Carrie E Pierce, Khaled Bouri, Carol Pamer, Scott Proestel, Harold W Rodriguez, Hoa Van Le, Clark C Freifeld, John S Brownstein, Mark Walderhaug, I Ralph Edwards, Nabarun Dasgupta
INTRODUCTION: The rapid expansion of the Internet and computing power in recent years has opened up the possibility of using social media for pharmacovigilance. While this general concept has been proposed by many, central questions remain as to whether social media can provide earlier warnings for rare and serious events than traditional signal detection from spontaneous report data. OBJECTIVE: Our objective was to examine whether specific product-adverse event pairs were reported via social media before being reported to the US FDA Adverse Event Reporting System (FAERS)...
January 2, 2017: Drug Safety: An International Journal of Medical Toxicology and Drug Experience
https://www.readbyqxmd.com/read/28043909/magnetic-resonance-fingerprinting-based-on-realistic-vasculature-in-mice
#19
Philippe Pouliot, Louis Gagnon, Tina Lam, Pramod K Avti, Chris Bowen, Michèle Desjardins, Ashok K Kakkar, E Thorin, Sava Sakadzic, David A Boas, Frédéric Lesage
Magnetic resonance fingerprinting (MRF) was recently proposed as a novel strategy for MR data acquisition and analysis. A variant of MRF called vascular MRF (vMRF) followed, that extracted maps of three parameters of physiological importance: cerebral oxygen saturation (SatO2), mean vessel radius and cerebral blood volume (CBV). However, this estimation was based on idealized 2-dimensional simulations of vascular networks using random cylinders and the empirical Bloch equations convolved with a diffusion kernel...
December 30, 2016: NeuroImage
https://www.readbyqxmd.com/read/28043510/effects-of-sorbitol-and-glycerol-on-the-structure-dynamics-and-stability-of-mycobacterium-tuberculosis-pyrazinamidase
#20
Mehrnoosh Khajehzadeh, Faramarz Mehrnejad, Mohammad Pazhang, Farahnoosh Doustdar
OBJECTIVE/BACKGROUND: Mycobacterium tuberculosis pyrazinamidase (PZase) is known an enzyme that is involved in degradation of pyrazinamide to ammonia and pyrazinoic acid. Pyrazinamide is an important first-line drug used in the short-course treatment of tuberculosis. Previous investigations have indicated that the pyrazinamide (PZA)-resistant M. tuberculosis strains are caused by point mutations in the PZase enzyme which is the activator of the prodrug PZA. Although the general fold of PZase was determined, the structural and functional properties of the enzyme in solution were not understood very well...
December 2016: International Journal of Mycobacteriology
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