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https://www.readbyqxmd.com/read/28077563/the-bioc-biogrid-corpus-full-text-articles-annotated-for-curation-of-protein-protein-and-genetic-interactions
#1
Rezarta Islamaj Doğan, Sun Kim, Andrew Chatr-Aryamontri, Christie S Chang, Rose Oughtred, Jennifer Rust, W John Wilbur, Donald C Comeau, Kara Dolinski, Mike Tyers
A great deal of information on the molecular genetics and biochemistry of model organisms has been reported in the scientific literature. However, this data is typically described in free text form and is not readily amenable to computational analyses. To this end, the BioGRID database systematically curates the biomedical literature for genetic and protein interaction data. This data is provided in a standardized computationally tractable format and includes structured annotation of experimental evidence. BioGRID curation necessarily involves substantial human effort by expert curators who must read each publication to extract the relevant information...
2017: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/28071798/impact-of-rhizobial-inoculation-and-reduced-n-supply-on-biomass-production-and-biological-n2-fixation-in-common-bean-grown-hydroponically
#2
Charis-Konstantina Kontopoulou, Epifanios Liasis, Pietro P M Iannetta, Anastasia Tampakaki, Dimitrios Savvas
BACKGROUND: Testing rhizobial inoculation of common bean (Phaseolus vulgaris L.) in hydroponics enables accurate quantification of biological N2 -fixation (BNF) and provides information about the potential of reducing inorganic-N fertilizer use. In view of this background, common bean grown on pumice was inoculated with Rhizobium tropici CIAT899 (Rt) and supplied with either full-N (total-nitrogen 11.2 mM) or 1/3 of full-N, or N-free nutrient solution (NS). BNF was quantified at the early pod filling stage using the (15) N natural abundance method...
January 10, 2017: Journal of the Science of Food and Agriculture
https://www.readbyqxmd.com/read/28067823/biomarkers-to-monitor-gluten-free-diet-compliance-in-celiac-patients
#3
REVIEW
María de Lourdes Moreno, Alfonso Rodríguez-Herrera, Carolina Sousa, Isabel Comino
Gluten-free diet (GFD) is the only treatment for celiac disease (CD). There is a general consensus that strict GFD adherence in CD patients leads to full clinical and histological remission accompanied by improvement in quality of life and reduced long-term complications. Despite the importance of monitoring the GFD, there are no clear guidelines for assessing the outcome or for exploring its adherence. Available methods are insufficiently accurate to identify occasional gluten exposure that may cause intestinal mucosal damage...
January 6, 2017: Nutrients
https://www.readbyqxmd.com/read/28062921/targeted-deletion-of-traf2-allows-immunosuppression-free-islet-allograft-survival-in-mice
#4
Jeanette E Villanueva, Stacey N Walters, Mitsuru Saito, Elisabeth K Malle, Nathan W Zammit, Katherine A Watson, Robert Brink, Nicole L La Gruta, Stephen I Alexander, Shane T Grey
AIMS/HYPOTHESIS: Administration of anti-CD40 ligand (CD40L) antibodies has been reported to allow long-term islet allograft survival in non-human primates without the need for exogenous immunosuppression. However, the use of anti-CD40L antibodies was associated with thromboembolic complications. Targeting downstream intracellular components shared between CD40 and other TNF family co-stimulatory molecules could bypass these complications. TNF receptor associated factor 2 (TRAF2) integrates multiple TNF receptor family signalling pathways that are critical for T cell activation and may be a central node of alloimmune responses...
January 6, 2017: Diabetologia
https://www.readbyqxmd.com/read/28060883/an-automated-experimenter-free-method-for-the-standardised-operant-cognitive-testing-of-rats
#5
Marion Rivalan, Humaira Munawar, Anna Fuchs, York Winter
Animal models of human pathology are essential for biomedical research. However, a recurring issue in the use of animal models is the poor reproducibility of behavioural and physiological findings within and between laboratories. The most critical factor influencing this issue remains the experimenter themselves. One solution is the use of procedures devoid of human intervention. We present a novel approach to experimenter-free testing cognitive abilities in rats, by combining undisturbed group housing with automated, standardized and individual operant testing...
2017: PloS One
https://www.readbyqxmd.com/read/28053512/antimicrobial-dependence-of-silver-nanoparticles-on-surface-plasmon-resonance-bands-against-escherichia-coli
#6
Nichrous G Mlalila, Hulda Shaidi Swai, Askwar Hilonga, Dattatreya M Kadam
This study presents a simple and trouble-free method for determining the antimicrobial properties of silver nanoparticles (AgNPs) based on the surface plasmon resonance (SPR) bands. AgNPs were prepared by chemical reduction method using silver nitrates as a metallic precursor and formaldehyde (HCHO) as a reducing agent and capped by polyethylene glycol. Effects of several processing variables on the size and shape of AgNPs were monitored using an ultraviolet-visible spectrophotometer based on their SPR bands...
2017: Nanotechnology, Science and Applications
https://www.readbyqxmd.com/read/28048712/mo-fg-campus-tep3-02-benchmarks-of-a-proton-relative-biological-effectiveness-rbe-model-for-dna-double-strand-break-dsb-induction-in-the-fluka-mcnp-topas-and-raystation%C3%A2-treatment-planning-system
#7
R Stewart, S Streitmatter, E Traneus, V Moskvin, J Schuemann
PURPOSE: Validate implementation of a published RBE model for DSB induction (RBEDSB) in several general purpose Monte Carlo (MC) code systems and the RayStation™ treatment planning system (TPS). For protons and other light ions, DSB induction is a critical initiating molecular event that correlates well with the RBE for cell survival. METHODS: An efficient algorithm to incorporate information on proton and light ion RBEDSB from the independently tested Monte Carlo Damage Simulation (MCDS) has now been integrated into MCNP (Stewart et al...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048240/su-f-j-117-impact-of-motion-artifacts-on-image-quality-and-accuracy-of-tumor-motion-reconstruction-in-4d-ct-on-rails-and-mv-cbct-scans-a-phantom-study
#8
T Lin, C Ma
PURPOSE: To compare and quantify respiratory motion artifacts in images from free breathing 4D-CT-on-Rails(CTOR) and those from MV-Cone-beam-CT(MVCB) and facilitate respiratory motion guided radiation therapy. METHODS: 4D-CTOR: Siemens Somatom CT-on-Rails system with Anzai belt loaded with pressure sensor load cells. 4D scans were performed in helical mode, pitch 0.1, gantry rotation time 0.5s, 1.5mm slice thickness, 120kVp, 400 mAs. Normal and fast breathing (>12rpm) scanning protocols were investigated...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048132/su-g-tep1-02-analytical-stopping-power-and-range-parameterization-for-therapeutic-energy-intervals
#9
W Donahue, W Newhauser, J F Ziegler
PURPOSE: To develop a simple, analytic parameterization of stopping power and range, which covers a wide energy interval and is applicable to many species of projectile ions and target materials, with less than 15% disagreement in linear stopping power and 1 mm in range. METHODS: The new parameterization was required to be analytically integrable from stopping power to range, and continuous across the range interval of 1 µm to 50 cm. The model parameters were determined from stopping power and range data for hydrogen, carbon, iron, and uranium ions incident on water, carbon, aluminum, lead and copper...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28047849/su-f-t-460-dosimetric-matching-between-trilogy-tx-and-truebeam-stx
#10
Y Choi, J Kwak, C Jeong, S Ahn, S Lee, B Cho
PURPOSE: To compare the commissioned beam data for one flattening filter photon mode (6 MV) and two flattening filter-free (FFF) photon modes (6 and 10 MV-FFF) between Trilogy Tx and TrueBeam STx and evaluate the possibility of dosimetric matching METHODS: Dosimetric characteristics of the new Trilogy Tx including percent depth doses (PDDs), profiles, and output factors were measured for commissioning. Linear diode array detector and ion chambers were used to measure dosimetric data. The depth of dose maximum (dmax) and PDD at 10 cm (PDD10) were evaluated: 3×3 cm(2) , 10×10 cm(2) , and 40×40 cm(2) ...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28047654/mo-ab-bra-05-18f-naf-pet-ct-imaging-biomarkers-in-metastatic-prostate-cancer
#11
S Harmon, T Perk, C Lin, J Eickhoff, P Choyke, W Dahut, A Apolo, J Humm, S Larson, M J Morris, S Perlman, G Liu, R Jeraj
PURPOSE: Clinical use of (18) F-Sodium Fluoride (NaF) PET/CT in metastatic settings often lacks technology to quantitatively measure full disease dynamics due to high tumor burden. This study assesses radiomics-based extraction of NaF PET/CT measures, including global metrics of overall burden and local metrics of disease heterogeneity, in metastatic prostate cancer for correlation to clinical outcomes. METHODS: Fifty-six metastatic Castrate-Resistant Prostate Cancer (mCRPC) patients had NaF PET/CT scans performed at baseline and three cycles into chemotherapy (N=16) or androgen-receptor (AR) inhibitors (N=39)...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28047348/tu-fg-209-09-mathematical-estimation-and-experimental-measurement-of-patient-free-in-air-skin-entrance-exposure-during-a-panoramic-dental-x-ray-procedure
#12
A Errico, R Behrman, B Li
PURPOSE: To develop a simple mathematical model for estimating the patient free-in-air skin entrance exposure (SEE) during a panoramic dental x-ray that does not require the use of a head phantom. This eliminates issues associated with phantom centering and the mounting of a detector on the phantom for routine QC testing. METHODS: We used a Sirona Orthophos XG panoramic radiographic unit and a Radcal Accu-Gold system for this study. A solid state detector was attached over the slit of the Orthophos' sensor with the help of a custom-built jig...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28045768/body-composition-trajectories-from-infancy-to-preschool-in-children-born-premature-versus-full-term
#13
Johannah M Scheurer, Lei Zhang, Heather L Gray, Katherine Weir, Ellen W Demerath, Sara E Ramel
OBJECTIVES: The aim of the study was to longitudinally characterize infancy to preschool body composition trajectories and the association of early fat and fat-free mass gains with preschool age body composition in children born premature versus full-term. METHODS: A cohort of appropriate-for-gestational age preterm (n = 20) and term (n = 51) infants were followed at 3 visits: "neonatal" visit 1 at 2 weeks of age for term and near term corrected age for preterm; "infancy" visit 2 at 3 to 4 months (preterm corrected age); "preschool" visit 3 at 4 years...
December 30, 2016: Journal of Pediatric Gastroenterology and Nutrition
https://www.readbyqxmd.com/read/28042172/a-newton-krylov-method-with-an-approximate-analytical-jacobian-for-implicit-solution-of-navier-stokes-equations-on-staggered-overset-curvilinear-grids-with-immersed-boundaries
#14
Hafez Asgharzadeh, Iman Borazjani
The explicit and semi-implicit schemes in flow simulations involving complex geometries and moving boundaries suffer from time-step size restriction and low convergence rates. Implicit schemes can be used to overcome these restrictions, but implementing them to solve the Navier-Stokes equations is not straightforward due to their non-linearity. Among the implicit schemes for nonlinear equations, Newton-based techniques are preferred over fixed-point techniques because of their high convergence rate but each Newton iteration is more expensive than a fixed-point iteration...
February 15, 2017: Journal of Computational Physics
https://www.readbyqxmd.com/read/28041969/needle-free-injection-of-vesicular-phospholipid-gels-a-novel-approach-to-overcome-an-administration-hurdle-for-semisolid-depot-systems
#15
Michaela Breitsamer, Gerhard Winter
Vesicular phospholipid gels (VPGs) are depot formulations for the sustained release of drugs which are characterized by a high amount of phospholipids in the formulation. They consist of physiological excipients only and therefore display high biocompatibility. Their manufacture is simple, cheap, solvent free and ideal for the processing of proteins and peptides because of the low stress on the molecule e.g. by elevated temperatures. One major hurdle of VPGs is their high viscosity which makes them hard to almost impossible to inject with conventional, thin needles used for subcutaneous administration...
December 29, 2016: Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/28031175/adjuvant-folfox-cetuximab-in-full-ras-and-braf-wildtype-stage-iii-colon-cancer-patients
#16
J Taieb, R Balogoun, K Le Malicot, J Tabernero, E Mini, G Folprecht, J-L Van Laethem, J-F Emile, C Mulot, S Fratté, C-B Levaché, L Saban-Roche, J Thaler, L N Petersen, J Bridgewater, G Perkins, C Lepage, E Van Cutsem, A Zaanan, P Laurent-Puig
BACKGROUND: RAS mutations have been shown to confer resistance to anti-EGFR treatment. We analyzed the results of the PETACC8 trial (cetuximab + FOLFOX vs FOLFOX) in full RAS and BRAF wildtype (WT) patients (pts) with resected stage III colon cancer. METHODS: Exons 2, 3 and 4 of KRAS and NRAS, and BRAF exons 11 and 15, were sequenced using the Ampliseq colon-lung cancer panel version 2, in PETACC8 trial pts who consented to translational research. The impact of cetuximab on time to recurrence (TTR), disease-free survival (DFS) and overall survival (OS) was investigated in pts with tumors harboring RAS & BRAF WT and RAS mutations...
December 28, 2016: Annals of Oncology: Official Journal of the European Society for Medical Oncology
https://www.readbyqxmd.com/read/28028255/-a-new-treatment-strategy-novel-cell-free-and-concentrated-ascites-reinfusion-system-km-cart-for-massive-malignant-ascites
#17
Keisuke Matsusaki
Massive ascites associated with cancerous peritonitis can result in severe respiratory discomfort and abdominal fullness. Additionally, it can significantly impair the activities of daily living of a patient, and relaxation is difficult to achieve, even with opioids. Frequent ascites drainage can cause rapid worsening of the patient's general condition, and a large amount of ascites can lead to discontinuation of anti-cancer treatment. Cell-free and concentrated ascites reinfusion therapy(CART)for refractory ascites was first covered by the insurance system in 1981...
December 2016: Gan to Kagaku Ryoho. Cancer & Chemotherapy
https://www.readbyqxmd.com/read/28024808/total-and-free-cortisol-responses-and-their-relation-to-outcomes-after-cardiopulmonary-bypass-in-infants
#18
Eric L Wald, Carl L Backer, Joseph A Dearani, Zhuo Li, William C Oliver, Sheri S Crow
BACKGROUND: Hypothalamic-pituitary-adrenal (HPA) axis dysfunction may be partially responsible for the hemodynamic instability experienced by infants after cardiopulmonary bypass (CPB). We report the full spectrum of the HPA response surrounding CPB for infant congenital cardiac surgery. METHODS: We enrolled 84 infants who received 1 mg/kg of dexamethasone before initiation of CPB. Total cortisol (TC), free cortisol (FC), adrenocorticotropic hormone (ACTH), and corticosteroid-binding globulin (CBG) were measured at 3 time points: immediately before CPB (TP1), on intensive care unit arrival (TP2), and at 24 hours after surgery (TP3)...
November 21, 2016: Journal of Thoracic and Cardiovascular Surgery
https://www.readbyqxmd.com/read/28006065/predicting-individual-contrast-sensitivity-functions-from-acuity-and-letter-contrast-sensitivity-measurements
#19
Steven M Thurman, Pinakin Gunvant Davey, Kaydee Lynn McCray, Violeta Paronian, Aaron R Seitz
Contrast sensitivity (CS) is widely used as a measure of visual function in both basic research and clinical evaluation. There is conflicting evidence on the extent to which measuring the full contrast sensitivity function (CSF) offers more functionally relevant information than a single measurement from an optotype CS test, such as the Pelli-Robson chart. Here we examine the relationship between functional CSF parameters and other measures of visual function, and establish a framework for predicting individual CSFs with effectively a zero-parameter model that shifts a standard-shaped template CSF horizontally and vertically according to independent measurements of high contrast acuity and letter CS, respectively...
December 1, 2016: Journal of Vision
https://www.readbyqxmd.com/read/27982374/free-access-to-medicines-for-the-treatment-of-chronic-diseases-in-brazil
#20
Noemia Urruth Leão Tavares, Vera Lucia Luiza, Maria Auxiliadora Oliveira, Karen Sarmento Costa, Sotero Serrate Mengue, Paulo Sergio Dourado Arrais, Luiz Roberto Ramos, Mareni Rocha Farias, Tatiane da Silva Dal Pizzol, Andréa Dâmaso Bertoldi
OBJECTIVE: To analyze the free access to medicines for the treatment of chronic diseases in the Brazilian population, according to demographic and socioeconomic factors. We also analyzed the most used pharmacological groups, according to funding source: free-of-charge or out-of-pocket paid. METHODS: Analysis of data from the Pesquisa Nacional sobre Acesso, Utilização e Promoção do Uso Racional de Medicamentos (PNAUM - National Survey on Access, Use and Promotion of Rational Use of Medicines), a population-based household survey, of cross-sectional design, based on probabilistic sample of the Brazilian population...
December 2016: Revista de Saúde Pública
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