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https://www.readbyqxmd.com/read/28647302/variable-validity-of-computer-extracted-problem-lists-for-complications-of-diabetes-mellitus-within-the-va-greater-los-angeles-health-system
#1
Stephan Chiu, John Davis, JoAnn Giaconi, Aaron Lee, Greg Orshansky, Leonard Kleinman, Irena Tsui
PURPOSE: Electronic health data in the form of International Classification of Disease, Ninth Revision (ICD-9) codes is routinely used for clinical research, yet the accuracy of specific diagnoses is largely unknown. The purpose of this study is to assess the validity of computer extracted problem lists for diabetic retinopathy (DR) and other complications of diabetes mellitus (DM) within the VA Greater Los Angeles Health Administration (VHAGLA). METHODS: The study population consisted of patients at the VHAGLA with an ICD-9 diagnosis of DM between Jan 1st 1999 and March 22nd 2016 with visits to the eye clinic...
June 21, 2017: Diabetes & Metabolic Syndrome
https://www.readbyqxmd.com/read/28646867/a-high-quality-annotated-transcriptome-of-swine-peripheral-blood
#2
Haibo Liu, Timothy P L Smith, Dan J Nonneman, Jack C M Dekkers, Christopher K Tuggle
BACKGROUND: High throughput gene expression profiling assays of peripheral blood are widely used in biomedicine, as well as in animal genetics and physiology research. Accurate, comprehensive, and precise interpretation of such high throughput assays relies on well-characterized reference genomes and/or transcriptomes. However, neither the reference genome nor the peripheral blood transcriptome of the pig have been sufficiently assembled and annotated to support such profiling assays in this emerging biomedical model organism...
June 24, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28645318/detecting-consistent-patterns-of-directional-adaptation-using-differential-selection-codon-models
#3
Sahar Parto, Nicolas Lartillot
BACKGROUND: Phylogenetic codon models are often used to characterize the selective regimes acting on protein-coding sequences. Recent methodological developments have led to models explicitly accounting for the interplay between mutation and selection, by modeling the amino acid fitness landscape along the sequence. However, thus far, most of these models have assumed that the fitness landscape is constant over time. Fluctuations of the fitness landscape may often be random or depend on complex and unknown factors...
June 23, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28645270/qualitative-modification-and-development-of-patient-and-caregiver-reported-outcome-measures-for-iron-chelation-therapy
#4
Erica G Horodniceanu, Vasudha Bal, Harman Dhatt, John A Carter, Vicky Huang, Kathryn Lasch
BACKGROUND: Compliance, palatability, gastrointestinal (GI) symptom, and treatment satisfaction patient- and observer-reported outcome (PRO, ObsRO) measures were developed/modified for patients with transfusion-dependent anemias or myelodysplastic syndrome (MDS) requiring iron chelation therapy (ICT). METHODS: This qualitative cross-sectional observational study used grounded theory data collection and analysis methods and followed PRO/ObsRO development industry guidance...
June 23, 2017: Health and Quality of Life Outcomes
https://www.readbyqxmd.com/read/28645207/development-and-validation-of-an-electronic-medical-record-emr-based-computed-phenotype-of-hiv-1-infection
#5
Devon W Paul, Nigel B Neely, Meredith Clement, Isaretta Riley, Mashael Al-Hegelan, Matthew Phelan, Monica Kraft, David M Murdoch, Joseph Lucas, John Bartlett, Mehri McKellar, Loretta G Que
Background: Electronic medical record (EMR) computed algorithms allow investigators to screen thousands of patient records to identify specific disease cases. No computed algorithms have been developed to detect all cases of human immunodeficiency virus (HIV) infection using administrative, laboratory, and clinical documentation data outside of the Veterans Health Administration. We developed novel EMR-based algorithms for HIV detection and validated them in a cohort of subjects in the Duke University Health System (DUHS)...
June 22, 2017: Journal of the American Medical Informatics Association: JAMIA
https://www.readbyqxmd.com/read/28644680/exploring-the-factor-structure-of-the-social-cognition-and-object-relations-global-rating-method-support-for-two-and-three-factor-models
#6
Caleb J Siefert, Michelle Stein, Jenelle Slavin-Mulford, Greg Haggerty, Samuel J Sinclair, Danielle Funke, Mark A Blais
The Social Cognition and Object Relations Scales-Global Rating Method (SCORS-G) contains 8 scales for coding narrative content. This study explores the factor structure of this measure using college (n = 171), outpatient (n = 239), and inpatient (n = 78) samples. Participants told stories to the Thematic Apperception Test (TAT; Murray, 1943) cards. Stories were transcribed and coded by blind raters using the SCORS-G. Cases were randomly assigned to an exploratory or validation group. Exploratory factor analysis with the exploratory group suggested 2- and 3-factor models...
June 23, 2017: Journal of Personality Assessment
https://www.readbyqxmd.com/read/28643459/construction-of-competitive-endogenous-rna-network-reveals-regulatory-role-of-long-non-coding-rnas-in-type-2-diabetes-mellitus
#7
Zijing Lin, Xinyu Li, Xiaorong Zhan, Lijie Sun, Jie Gao, Yan Cao, Hui Qiu
Increasing epidemic of type 2 diabetes mellitus (T2DM) and its comorbidities makes it urgent to understand the pathogenesis and regulatory mechanism. However, little is known about the regulatory role of lncRNAs in diabetes. Here, we constructed a T2DM-related competitive endogenous RNA (ceRNA) network (DMCN) to explore biological function of lncRNAs during the development of diabetes mellitus. This network contained 351 nodes including 98 mRNAs, 86 microRNAs and 167 lncRNAs. Functional analysis showed that the mRNAs in DMCN were annotated into some diabetes-related pathways...
June 23, 2017: Journal of Cellular and Molecular Medicine
https://www.readbyqxmd.com/read/28642491/a-cross-species-approach-to-identify-transcriptional-regulators-exemplified-for-dnajc22-and-hnf4a
#8
A C Aschenbrenner, K Bassler, M Brondolin, L Bonaguro, P Carrera, K Klee, T Ulas, J L Schultze, M Hoch
There is an enormous need to make better use of the ever increasing wealth of publicly available genomic information and to utilize the tremendous progress in computational approaches in the life sciences. Transcriptional regulation of protein-coding genes is a major mechanism of controlling cellular functions. However, the myriad of transcription factors potentially controlling transcription of any given gene makes it often difficult to quickly identify the biological relevant transcription factors. Here, we report on the identification of Hnf4a as a major transcription factor of the so far unstudied DnaJ heat shock protein family (Hsp40) member C22 (Dnajc22)...
June 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28637809/rrna-pseudogenes-in-filamentous-ascomycetes-as-revealed-by-genome-data
#9
Yi Li, Rui-Heng Yang, Lan Jiang, Xiao-Di Hu, Zu-Jian Wu, Yi-Jian Yao
The nuclear ribosomal DNA (rDNA) is considered as a paradigm of concerted evolution. Components of the rDNA tandem repeats (45S) are widely used in phylogenetic studies of different organisms and the internal transcribed spacer (ITS) region is recently selected as a fungal DNA barcode. However, rRNA pseudogenes, as one kind of escape of concerted evolution, were reported in a wide range of organisms, especially in plants and animals. Moreover, large numbers of 5S rRNA pseudogenes were identified in several filamentous ascomycetes...
June 21, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28636905/a-kepler-workflow-tool-for-reproducible-amber-gpu-molecular-dynamics
#10
Shweta Purawat, Pek U Ieong, Robert D Malmstrom, Garrett J Chan, Alan K Yeung, Ross C Walker, Ilkay Altintas, Rommie E Amaro
With the drive toward high throughput molecular dynamics (MD) simulations involving ever-greater numbers of simulation replicates run for longer, biologically relevant timescales (microseconds), the need for improved computational methods that facilitate fully automated MD workflows gains more importance. Here we report the development of an automated workflow tool to perform AMBER GPU MD simulations. Our workflow tool capitalizes on the capabilities of the Kepler platform to deliver a flexible, intuitive, and user-friendly environment and the AMBER GPU code for a robust and high-performance simulation engine...
June 20, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/28636763/sensitive-volume-effects-on-monte-carlo-calculated-ion-chamber-response-in-magnetic-fields
#11
Victor N Malkov, David W O Rogers
PURPOSE: The development of magnetic resonance guided radiation therapy (MR-gRT) necessitates accurate Monte Carlo (MC) models of ion chambers for computing ion chamber corrections to compensate for the presence of the magnetic field. This study evaluates the sensitivity of the ion chamber dose response in a magnetic field on the collection volume used in the MC simulation METHODS: The EGSnrc system's egs_chamber application is used with a recently developed and validated magnetic field transport code...
June 21, 2017: Medical Physics
https://www.readbyqxmd.com/read/28636704/trends-in-nationwide-herpes-zoster-emergency-department-utilization-from-2006-to-2013
#12
Erica D Dommasch, Cara J Joyce, Arash Mostaghimi
Importance: The effect of vaccination on emergency department (ED) utilization for herpes zoster (HZ) has not been examined to date. Objective: To determine trends in US ED utilization and costs associated with HZ. Design, Setting, and Participants: The Nationwide Emergency Department Sample data set was examined for temporal trends in the number of visits and costs for treatment of HZ in EDs in the United States from January 1, 2006, through December 31, 2013...
June 21, 2017: JAMA Dermatology
https://www.readbyqxmd.com/read/28635129/micrornas-involved-in-auxin-signalling-modulate-male-sterility-under-high-temperature-stress-in-cotton-gossypium-hirsutum
#13
Yuanhao Ding, Yizan Ma, Nian Liu, Jiao Xu, Qin Hu, Yaoyao Li, Yuanlong Wu, Sai Xie, Longfu Zhu, Ling Min, Xianlong Zhang
Male sterility caused by long-term high temperature (HT) stress occurs widely in crops. MicroRNAs (miRNAs), a class of endogenous non-coding small RNAs, play an important role in the plant response to various abiotic stresses. To dissect the working principle of miRNAs in male sterility under HT stress in cotton, a total of 112 known miRNAs, 270 novel miRNAs and 347 target genes were identified from anthers of HT-insensitive (84021) and HT-sensitive (H05) cotton cultivars under normal temperature (NT) and HT conditions through small RNA and degradome sequencing...
June 21, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28634776/evidence-supporting-the-internal-validity-of-the-proposed-nd-pae-disorder
#14
Julie A Kable, Claire D Coles
The internal validity of the proposed Neurobehavioral Disorder Associated with Prenatal Alcohol Exposure (ND-PAE) was evaluated in children diagnosed with either Fetal Alcohol Syndrome (FAS) or partial FAS who were 3-10 years of age and had enrolled in a math intervention study. Symptoms were coded as present or absent using assessments conducted in the study, including standardized measures of neurocognitive and behavioral functioning, parent interview, and direct observations of the child. The number of endorsed ND-PAE symptoms was not related to environmental factors but was moderately related to the child's age...
June 20, 2017: Child Psychiatry and Human Development
https://www.readbyqxmd.com/read/28634715/regulatory-element-based-prediction-identifies-new-susceptibility-regulatory-variants-for-osteoporosis
#15
Shi Yao, Yan Guo, Shan-Shan Dong, Ruo-Han Hao, Xiao-Feng Chen, Yi-Xiao Chen, Jia-Bin Chen, Qing Tian, Hong-Wen Deng, Tie-Lin Yang
Despite genome-wide association studies (GWASs) have identified many susceptibility genes for osteoporosis, it still leaves a large part of missing heritability to be discovered. Integrating regulatory information and GWASs could offer new insights into the biological link between the susceptibility SNPs and osteoporosis. We generated five machine learning classifiers with osteoporosis-associated variants and regulatory features data. We gained the optimal classifier and predicted genome-wide SNPs to discover susceptibility regulatory variants...
June 20, 2017: Human Genetics
https://www.readbyqxmd.com/read/28632500/photon-detection-efficiency-of-laboratory-based-x-ray-phase-contrast-imaging-techniques-for-mammography-a-monte-carlo-study
#16
Somayeh Saghamanesh, Seyed Mohammad Reza Aghamiri, Alireza Kamali-Asl, Wataru Yashiro
An important challenge in real-world biomedical applications of X-ray phase contrast imaging (XPCI) techniques is the efficient use of the photon flux generated by an incoherent and polychromatic X-ray source. This efficiency can directly influence dose and exposure time and ideally should not affect the superior contrast and sensitivity of XPCI. In this paper, we present a quantitative evaluation of the photon detection efficiency of two laboratory-based XPCI methods, grating interferometry (GI) and coded-aperture (CA)...
June 20, 2017: Physics in Medicine and Biology
https://www.readbyqxmd.com/read/28629911/combined-mass-spectrometry-imaging-and-top-down-microproteomics-reveals-evidence-of-a-hidden-proteome-in-ovarian-cancer
#17
Vivian Delcourt, Julien Franck, Eric Leblanc, Fabrice Narducci, Yves-Marie Robin, Jean-Pascal Gimeno, Jusal Quanico, Maxence Wisztorski, Firas Kobeissy, Jean-François Jacques, Xavier Roucou, Michel Salzet, Isabelle Fournier
BACKGROUND: Recently, it was demonstrated that proteins can be translated from alternative open reading frames (altORFs), increasing the size of the actual proteome. Top-down mass spectrometry-based proteomics allows the identification of intact proteins containing post-translational modifications (PTMs) as well as truncated forms translated from reference ORFs or altORFs. METHODS: Top-down tissue microproteomics was applied on benign, tumor and necrotic-fibrotic regions of serous ovarian cancer biopsies, identifying proteins exhibiting region-specific cellular localization and PTMs...
June 3, 2017: EBioMedicine
https://www.readbyqxmd.com/read/28629903/recording-adverse-events-following-joint-arthroplasty-financial-implications-and-validation-of-an-adverse-event-assessment-form
#18
Matthew J Lee, Khalid M S Mohamed, John C Kelly, John G Galbraith, John Street, Brian J Lenehan
BACKGROUND: In Ireland, funding of joint arthroplasty procedures has moved to a pay-by-results national tariff system. Typically, adverse clinical events are recorded via retrospective chart-abstraction methods by administrative staff. Missed or undocumented events not only affect the quality of patient care but also may unrealistically skew budgetary decisions that impact fiscal viability of the service. Accurate recording confers clinical benefits and financial transparency. The aim of this study was to compare a prospectively implemented adverse events form with the current national retrospective chart-abstraction method in terms of pay-by-results financial implications...
April 11, 2017: Journal of Arthroplasty
https://www.readbyqxmd.com/read/28629385/administrative-algorithms-to-identify-avascular-necrosis-of-bone-among-patients-undergoing-upper-or-lower-extremity-magnetic-resonance-imaging-a-validation-study
#19
Medha Barbhaiya, Yan Dong, Jeffrey A Sparks, Elena Losina, Karen H Costenbader, Jeffrey N Katz
BACKGROUND: Studies of the epidemiology and outcomes of avascular necrosis (AVN) require accurate case-finding methods. The aim of this study was to evaluate performance characteristics of a claims-based algorithm designed to identify AVN cases in administrative data. METHODS: Using a centralized patient registry from a US academic medical center, we identified all adults aged ≥18 years who underwent magnetic resonance imaging (MRI) of an upper/lower extremity joint during the 1...
June 19, 2017: BMC Musculoskeletal Disorders
https://www.readbyqxmd.com/read/28628808/quantitative-image-analysis-of-the-shape-and-size-of-circular-wound-sites-generated-by-vertically-stamped-scratches
#20
Tae Young Kim, In Hyuk Jang, Dong Yeol Han, Won Gu Lee
A protocol for quantitative image analysis of wound generation is important to better understand the integrative process of wound healing and the closure mechanism. Here, we present a method for quantitative analysis of microscopic images of circular wound sites generated by vertically stamped scratches. To demonstrate proof-of-concept validation, we used two types of mechanical stamping tools, a mechanical pencil lead (type 1; brittle) and polydimethylsiloxane (PDMS) pillars (type 2; ductile), to create circular wound sites...
June 9, 2017: Micron: the International Research and Review Journal for Microscopy
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