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Simulation medicine

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https://www.readbyqxmd.com/read/28334396/quantifying-circular-rna-expression-from-rna-seq-data-using-model-based-framework
#1
Musheng Li, Xueying Xie, Jing Zhou, Mengying Sheng, Xiaofeng Yin, Eun-A Ko, Tong Zhou, Wanjun Gu
Motivation: Circular RNAs (circRNAs) are a class of non-coding RNAs that are widely expressed in various cell lines and tissues of many organisms. Although the exact function of many circRNAs is largely unknown, the cell type- and tissue-specific circRNA expression has implicated their crucial functions in many biological processes. Hence, the quantification of circRNA expression from high-throughput RNA-seq data is becoming important to ascertain. Although many model-based methods have been developed to quantify linear RNA expression from RNA-seq data, these methods are not applicable to circRNA quantification...
March 8, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28332225/molecular-dynamics-validation-of-crizotinib-resistance-to-alk-mutations-l1196m-and-g1269a-and-identification-of-specific-inhibitors
#2
Nagasundaram Nagarajan, Carlton Ranjith Wilson Alphonse, Prakash Vincent Samuel Gnana, Rajesh Kannan Rajaretinam
Anaplastic lymphoma kinase (ALK) positive non-small cell lung cancer (NSCLC) patients are mostly treated with ALK tyrosine kinase inhibitors (TKIs). Crizotinib is the first generation ALK inhibitor practiced as a primary chemo to combat cancer cells followed by second generation inhibitor ceritinib which are effective against crizotinib resistant ALK mutations. However, patients treated with these drugs invariably relapsed because of the development of new drug resistance mutations. In this study we explored the crizotinib resistance in the presence of ALK mutations L1196M and G1269A through molecular dynamics simulation studies...
March 23, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28325895/simulation-assisted-design-of-microfluidic-sample-traps-for-optimal-trapping-and-culture-of-non-adherent-single-cells-tissues-and-spheroids
#3
Nassim Rousset, Frédéric Monet, Thomas Gervais
This work focuses on modelling design and operation of "microfluidic sample traps" (MSTs). MSTs regroup a widely used class of microdevices that incorporate wells, recesses or chambers adjacent to a channel to individually trap, culture and/or release submicroliter 3D tissue samples ranging from simple cell aggregates and spheroids, to ex vivo tissue samples and other submillimetre-scale tissue models. Numerous MST designs employing various trapping mechanisms have been proposed in the literature, spurring the development of 3D tissue models for drug discovery and personalized medicine...
March 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28323877/thermal-analysis-during-partial-carbonizing-process-of-rhubarb-moutan-and-burnet
#4
Junnan Ma, Xianglong Meng, Xiaohui Guo, Yaru Lan, Shuosheng Zhang
Control of temperature and duration of partial carbonization for Chinese medicines have been mainly based on experience of the processors. No quantitative methods and parameters are available that can be used to precisely control the temperature and determine the energy changes during the process. In our research, with a simulated atmosphere air condition, the partial carbonization processes of three Chinese herb medicines rhubarb, moutan and burnet were simulated at different heating rates (5, 10 and 20°C • min-1) and analyzed by thermal gravimetric analysis (TGA) to quantify the upper limits of the temperature...
2017: PloS One
https://www.readbyqxmd.com/read/28323084/integration-of-in-hospital-cardiac-arrest-contextual-curriculum-into-a-basic-life-support-course-a-randomized-controlled-simulation-study
#5
Elizabeth A Hunt, Jordan M Duval-Arnould, Nnenna O Chime, Kareen Jones, Michael Rosen, Merona Hollingsworth, Deborah Aksamit, Marida Twilley, Cheryl Camacho, Daniel P Nogee, Julianna Jung, Kristen Nelson-McMillan, Nicole Shilkofski, Julianne S Perretta
OBJECTIVE: To compare resuscitation performance on simulated in-hospital cardiac arrests after traditional American Heart Association (AHA) Healthcare Provider Basic Life Support course (TradBLS) versus revised course including in-hospital skills (HospBLS). DESIGN: Prospective, randomized, controlled curriculum evaluation. SETTING: Johns Hopkins Medicine Simulation Center. SUBJECTS: One hundred twenty-two first year medical students divided into fifty-nine teams...
March 18, 2017: Resuscitation
https://www.readbyqxmd.com/read/28321915/acceleration-of-asl-based-time-resolved-mr-angiography-by-acquisition-of-control-and-labeled-images-in-the-same-shot-actress
#6
Yuriko Suzuki, Noriyuki Fujima, Tetsuo Ogino, James Alastair Meakin, Akira Suwa, Hiroyuki Sugimori, Marc Van Cauteren, Matthias J P van Osch
PURPOSE: Noncontrast 4D-MR-angiography (MRA) using arterial spin labeling (ASL) is beneficial because high spatial and temporal resolution can be achieved. However, ASL requires acquisition of labeled and control images for each phase. The purpose of this study is to present a new accelerated 4D-MRA approach that requires only a single control acquisition, achieving similar image quality in approximately half the scan time. METHODS: In a multi-phase Look-Locker sequence, the first phase was used as the control image and the labeling pulse was applied before the second phase...
March 20, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28321908/reduced-field-of-view-single-shot-spiral-perfusion-imaging
#7
Yang Yang, Li Zhao, Xiao Chen, Peter W Shaw, Jorge A Gonzalez, Frederick H Epstein, Craig H Meyer, Christopher M Kramer, Michael Salerno
PURPOSE: To develop a single-shot spiral perfusion pulse sequence with outer-volume suppression (OVS) to achieve whole-heart coverage with a short temporal footprint of 10 ms per slice location. METHODS: A highly accelerated single-shot variable density spiral pulse sequence with an integrated OVS module for reduced field of view (rFOV) perfusion imaging with 2 mm spatial resolution was developed and evaluated in simulations, phantom experiments and in clinical patients with (n = 8) or without (n = 8) OVS...
March 20, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28321904/rotating-single-shot-acquisition-rosa-with-composite-reconstruction-for-fast-high-resolution-diffusion-imaging
#8
Qiuting Wen, Chandana Kodiweera, Brian M Dale, Giri Shivraman, Yu-Chien Wu
PURPOSE: To accelerate high-resolution diffusion imaging, rotating single-shot acquisition (RoSA) with composite reconstruction is proposed. Acceleration was achieved by acquiring only one rotating single-shot blade per diffusion direction, and high-resolution diffusion-weighted (DW) images were reconstructed by using similarities of neighboring DW images. A parallel imaging technique was implemented in RoSA to further improve the image quality and acquisition speed. RoSA performance was evaluated by simulation and human experiments...
March 20, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28319199/a-computational-analysis-of-in-vivo-vegfr-activation-by-multiple-co-expressed-ligands
#9
Lindsay E Clegg, Feilim Mac Gabhann
The splice isoforms of vascular endothelial growth A (VEGF) each have different affinities for the extracellular matrix (ECM) and the coreceptor NRP1, which leads to distinct vascular phenotypes in model systems expressing only a single VEGF isoform. ECM-immobilized VEGF can bind to and activate VEGF receptor 2 (VEGFR2) directly, with a different pattern of site-specific phosphorylation than diffusible VEGF. To date, the way in which ECM binding alters the distribution of isoforms of VEGF and of the related placental growth factor (PlGF) in the body and resulting angiogenic signaling is not well-understood...
March 20, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28319164/modeling-the-potential-impact-on-the-us-blood-supply-of-transfusing-critically-ill-patients-with-fresher-stored-red-blood-cells
#10
Arianna Simonetti, Hussein Ezzeldin, Mikhail Menis, Stephen McKean, Hector Izurieta, Steven A Anderson, Richard A Forshee
BACKGROUND: Although some studies have suggested that transfusion recipients may have better medical outcomes if transfused with red blood cell units stored for a short time, the overall body of evidence shows mixed results. It is important to understand how using fresher stored red blood cell units for certain patient groups may affect blood availability. METHODS: Based on the Stock-and-Flow simulation model of the US blood supply developed by Simonetti et al. 2014, we evaluated a newly implemented allocation method of preferentially transfusing fresher stored red blood cell units to a subset of high-risk group of critically ill patients and its potential impact on supply...
2017: PloS One
https://www.readbyqxmd.com/read/28317261/diffusion-relaxation-correlation-spectroscopic-imaging-a-multidimensional-approach-for-probing-microstructure
#11
Daeun Kim, Eamon K Doyle, Jessica L Wisnowski, Joong Hee Kim, Justin P Haldar
PURPOSE: To propose and evaluate a novel multidimensional approach for imaging subvoxel tissue compartments called Diffusion-Relaxation Correlation Spectroscopic Imaging. THEORY AND METHODS: Multiexponential modeling of MR diffusion or relaxation data is commonly used to infer the many different microscopic tissue compartments that contribute signal to macroscopic MR imaging voxels. However, multiexponential estimation is known to be difficult and ill-posed. Observing that this ill-posedness is theoretically reduced in higher dimensions, diffusion-relaxation correlation spectroscopic imaging uses a novel multidimensional imaging experiment that jointly encodes diffusion and relaxation information, and then uses a novel constrained reconstruction technique to generate a multidimensional diffusion-relaxation correlation spectrum for every voxel...
March 19, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28306682/training-future-anesthesiologists-in-obstetric-care
#12
Mauricio Vasco Ramírez
PURPOSE OF REVIEW: In order for the obstetric anesthesiologist to become a true perioperative / peripartum physician, a change in formative programs and certification process in anesthesia are needed. RECENT FINDINGS: Anesthesia training programs are migrating to competency based medical education (CBME) worldwide. The traditional model of attending lectures, grand rounds, reading textbooks and journal papers should be complemented by virtual modalities such as massive open online courses or online teaching tools...
March 16, 2017: Current Opinion in Anaesthesiology
https://www.readbyqxmd.com/read/28303589/secondary-phenotype-analysis-in-ascertained-family-designs-application-to-the-leiden-longevity-study
#13
Renaud Tissier, Roula Tsonaka, Simon P Mooijaart, Eline Slagboom, Jeanine J Houwing-Duistermaat
The case-control design is often used to test associations between the case-control status and genetic variants. In addition to this primary phenotype, a number of additional traits, known as secondary phenotypes, are routinely recorded, and typically, associations between genetic factors and these secondary traits are studied too. Analysing secondary phenotypes in case-control studies may lead to biased genetic effect estimates, especially when the marker tested is associated with the primary phenotype and when the primary and secondary phenotypes tested are correlated...
March 16, 2017: Statistics in Medicine
https://www.readbyqxmd.com/read/28303586/estimation-of-treatment-effect-in-two-stage-confirmatory-oncology-trials-of-personalized-medicines
#14
Wen Li, Cong Chen, Xiaoyun Li, Robert A Beckman
A personalized medicine may benefit a subpopulation with certain predictive biomarker signatures or certain disease types. However, there is great uncertainty about drug activity in a subpopulation when designing a confirmatory trial in practice, and it is logical to take a two-stage approach with the study unless credible external information is available for decision-making purpose. The first stage deselects (or prunes) non-performing subpopulations at an interim analysis, and the second stage pools the remaining subpopulations in the final analysis...
March 17, 2017: Statistics in Medicine
https://www.readbyqxmd.com/read/28302551/role-of-structural-bioinformatics-in-drug-discovery-by-computational-snp-analysis-a-proposed-protocol-for-analyzing-variation-at-the-protein-level
#15
REVIEW
David K Brown, Özlem Tastan Bishop
With the completion of the human genome project at the beginning of the 21st century, the biological sciences entered an unprecedented age of data generation, and made its first steps toward an era of personalized medicine. This abundance of sequence data has led to the proliferation of numerous sequence-based techniques for associating variation with disease, such as genome-wide association studies and candidate gene association studies. However, these statistical methods do not provide an understanding of the functional effects of variation...
March 13, 2017: Global Heart
https://www.readbyqxmd.com/read/28302112/automation-bias-in-electronic-prescribing
#16
David Lyell, Farah Magrabi, Magdalena Z Raban, L G Pont, Melissa T Baysari, Richard O Day, Enrico Coiera
BACKGROUND: Clinical decision support (CDS) in e-prescribing can improve safety by alerting potential errors, but introduces new sources of risk. Automation bias (AB) occurs when users over-rely on CDS, reducing vigilance in information seeking and processing. Evidence of AB has been found in other clinical tasks, but has not yet been tested with e-prescribing. This study tests for the presence of AB in e-prescribing and the impact of task complexity and interruptions on AB. METHODS: One hundred and twenty students in the final two years of a medical degree prescribed medicines for nine clinical scenarios using a simulated e-prescribing system...
March 16, 2017: BMC Medical Informatics and Decision Making
https://www.readbyqxmd.com/read/28299158/a-study-on-strategic-planning-and-procurement-of-medicals-in-uganda-s-regional-referral-hospitals
#17
Ishak Kamaradi Masembe
This study was an analysis of the effect of strategic planning on procurement of medicals in Uganda's regional referral hospitals (RRH's). Medicals were defined as essential medicines, medical devices and medical equipment. The Ministry of Health (MOH) has been carrying out strategic planning for the last 15 years via the Health Sector Strategic Plans. Their assumption was that strategic planning would translate to strategic procurement and consequently, availability of medicals in the RRH's. However, despite the existence of these plans, there have been many complaints about expired drugs and shortages in RRH's...
December 31, 2016: Journal of Public Health in Africa
https://www.readbyqxmd.com/read/28297600/a-high-throughput-survey-of-ordering-configurations-in-mxene-alloys-across-compositions-and-temperatures
#18
Teck Leong Tan, Hong Mei Jin, Michael Brian Sullivan, Babak Anasori, Yury Gogotsi
2D transition metal carbides and nitrides known as MXenes are gaining increasing attention. About 20 of them have been synthesized (more predicted) and their applications in fields ranging from energy storage and electromagnetic shielding to medicine are being explored. To facilitate the search for new double-transition-metal MXenes, we explore the structure-stability relationship for 8 MXene alloy systems, namely, (V1-xMox)3C2, (Nb1-xMox)3C2, (Ta1-xMox)3C2, (Ti1-xMox)3C2, (Ti1-xNbx)3C2, (Ti1-xTax)3C2, (Ti1-xVx)3C2 and (Nb1-xVx)3C2,¬ with 0 ≤ x ≤ 1, using high-throughput computations...
March 15, 2017: ACS Nano
https://www.readbyqxmd.com/read/28297584/improvement-of-in-vitro-three-dimensional-cartilage-regeneration-by-a-novel-hydrostatic-pressure-bioreactor
#19
Jie Chen, Zhaoyuan Yuan, Yu Liu, Rui Zheng, Yao Dai, Ran Tao, Huitang Xia, Hairong Liu, Zhiyong Zhang, Wenjie Zhang, Wei Liu, Yilin Cao, Guangdong Zhou
In vitro three-dimensional (3D) cartilage regeneration is a promising strategy for repair of cartilage defects. However, inferior mechanical strength and tissue homogeneity greatly restricted its clinical translation. Simulation of mechanical stress through a bioreactor is an important approach for improving in vitro cartilage regeneration. The current study developed a hydrostatic pressure (HP) bioreactor based on a novel pressure-transmitting mode achieved by slight deformation of a flexible membrane in a completely sealed stainless steel device...
March 2017: Stem Cells Translational Medicine
https://www.readbyqxmd.com/read/28296513/who-is-the-preferred-tutor-in-clinical-skills-training-physicians-nurses-or-peers
#20
Ece Şükriye Abay, Sevgi Turan, Orhan Odabaşı, Melih Elçin
Phenomenon: Clinical skills centers allow structured training of undergraduate medical students for the acquisition of clinical skills in a simulated environment. Physician, nurse, or peer tutors are employed for training in those centers. All tutors should have appropriate training about the methodology used in the clinical skills training. Many of the studies revealed the effectiveness of various types of tutors. The aim of our study was to evaluate medical students' satisfaction with clinical skills training, and their opinions about the differences in coaching skills among the physician, nurse, and peer tutors...
March 15, 2017: Teaching and Learning in Medicine
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