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https://www.readbyqxmd.com/read/28748648/accurate-template-based-modelling-in-casp12-using-the-intfold4-ts-modfold6-and-refold-methods
#1
Liam J McGuffin, Ahmad N Shuid, Robert Kempster, Ali H A Maghrabi, John O Nealon, Bajuna R Salehe, Jennifer D Atkins, Daniel B Roche
Our aim in CASP12 was to improve our Template Based Modelling (TBM) methods through better model selection, accuracy self-estimate (ASE) scores and refinement. To meet these aims we developed two new automated methods, which we used to score, rank and improve upon the provided server models. Firstly, the ModFOLD6_rank method, for improved global Quality Assessment (QA), model ranking and the detection of local errors. Secondly, the ReFOLD method for fixing errors through iterative QA guided refinement. For our automated predictions we developed the IntFOLD4-TS protocol, which integrates the ModFOLD6_rank method for scoring the multiple-template models that were generated using a number of alternative sequence-structure alignments...
July 27, 2017: Proteins
https://www.readbyqxmd.com/read/28748563/intra-hospital-transfers-and-adverse-patient-outcomes-an-analysis-of-administrative-health-data
#2
Nicole Blay, Michael Roche, Christine Duffield, Xiaoyue Xu
AIMS AND OBJECTIVES: To determine whether there was an association between intra-hospital transfers and adverse outcomes. BACKGROUND: Transfers between clinical units and between beds on the same unit are routine aspects of an episode of care in acute hospitals. The rate of these transfers per episode has increased in response to high occupancy levels, a decline in bed numbers, and increased demand for hospital services. The impact of the number of transfers between both wards and beds on patient outcomes is not widely explored...
July 26, 2017: Journal of Clinical Nursing
https://www.readbyqxmd.com/read/28745999/trial-of-tocilizumab-in-giant-cell-arteritis
#3
John H Stone, Katie Tuckwell, Sophie Dimonaco, Micki Klearman, Martin Aringer, Daniel Blockmans, Elisabeth Brouwer, Maria C Cid, Bhaskar Dasgupta, Juergen Rech, Carlo Salvarani, Georg Schett, Hendrik Schulze-Koops, Robert Spiera, Sebastian H Unizony, Neil Collinson
BACKGROUND: Giant-cell arteritis commonly relapses when glucocorticoids are tapered, and the prolonged use of glucocorticoids is associated with side effects. The effect of the interleukin-6 receptor alpha inhibitor tocilizumab on the rates of relapse during glucocorticoid tapering was studied in patients with giant-cell arteritis. METHODS: In this 1-year trial, we randomly assigned 251 patients, in a 2:1:1:1 ratio, to receive subcutaneous tocilizumab (at a dose of 162 mg) weekly or every other week, combined with a 26-week prednisone taper, or placebo combined with a prednisone taper over a period of either 26 weeks or 52 weeks...
July 27, 2017: New England Journal of Medicine
https://www.readbyqxmd.com/read/28745942/the-empirically-derived-violence-and-aggression-risk-index-from-the-personality-assessment-inventory-development-validation-and-application-in-general-psychiatric-settings
#4
Michael J Roche, Samuel Justin Sinclair, Christy Denckla, Wei-Jean Chung, Michelle Stein, Mark Blais
The current study developed a new index of violence risk from scales within the Personality Assessment Inventory (PAI). Clinical patients from inpatient and outpatient settings completed the PAI along with reports of violence history and arrest record. A forward-selection hierarchical logistic regression was employed (N = 388) to identify the PAI scales (AGG-P, AGG-A, NON, PAR-H, and ANT-A) that could effectively distinguish patients with and without a history of violence. These indicators were then aggregated into a single index, labeled the Violence and Aggression Risk Index (VARI)...
July 26, 2017: Bulletin of the Menninger Clinic
https://www.readbyqxmd.com/read/28745098/analysis-of-the-accuracy-and-performance-of-a-continuous-glucose-monitoring-sensor-prototype-an-in-silico-study-using-the-uva-padova-type-1-diabetes-simulator
#5
Marc D Breton, Rolf Hinzmann, Enrique Campos-Nañez, Susan Riddle, Michael Schoemaker, Guenther Schmelzeisen-Redeker
BACKGROUND: Computer simulation has been shown over the past decade to be a powerful tool to study the impact of medical devices characteristics on clinical outcomes. Specifically, in type 1 diabetes (T1D), computer simulation platforms have all but replaced preclinical studies and are commonly used to study the impact of measurement errors on glycemia. METHOD: We use complex mathematical models to represent the characteristics of 3 continuous glucose monitoring systems using previously acquired data...
May 2017: Journal of Diabetes Science and Technology
https://www.readbyqxmd.com/read/28744936/molecular-combing-reveals-complex-4q35-rearrangements-in-facioscapulohumeral-dystrophy
#6
Karine Nguyen, Francesca Puppo, Stéphane Roche, Marie-Cécile Gaillard, Charlene Chaix, Arnaud Lagarde, Marjorie Pierret, Catherine Vovan, Sylviane Olschwang, Emmanuelle Salort-Campana, Shahram Attarian, Marc Bartoli, Rafaëlle Bernard, Frédérique Magdinier, Nicolas Levy
Facio-Scapulo-Humeral Dystrophy (FSHD), one of the most common hereditary neuromuscular disorders, is associated with a complex combination of genetic variations at the subtelomeric 4q35 locus. As molecular diagnosis relying on Southern blot (SB) might be challenging in some cases, Molecular Combing (MC) was recently developed as an additional technique for FSHD diagnosis and exploration of the genomic organization of the 4q35 and 10q26 regions. In complement to the usual SB, we applied MC in a large cohort of 586 individuals with clinical FSHD...
July 25, 2017: Human Mutation
https://www.readbyqxmd.com/read/28741494/evolutionary-ecology-of-organs-a-missing-link-in-cancer-development
#7
REVIEW
Frédéric Thomas, Randolph M Nesse, Robert Gatenby, Cindy Gidoin, François Renaud, Benjamin Roche, Beata Ujvari
There is striking variation in the incidence of cancer in human organs. Malignant tumors are common in the colon and breast but rare in the heart and small bowel. The uterus frequently develops benign fibroid tumors but uterine cancers are relatively rare. The organ-specific difference in cancer prevalence has been explained primarily by the relative roles of intrinsic and extrinsic risk factors. In this opinion article, we propose also considering organs as distinct but connected ecosystems whose different vulnerabilities to malignant transformation may be partially explained by how essential each organ is for survival through the age of reproduction...
August 2016: Trends in Cancer
https://www.readbyqxmd.com/read/28740858/s-100%C3%AE-and-antioxidant-capacity-in-cerebrospinal-fluid-during-and-after-thoracic-endovascular-aortic-repair
#8
Koichiro Nandate, Deepak Sharma, Hernando Olivar, Matthew Hallman, Ramesh Ramaiah, Aaron Joffe, Anthony Roche, Vijay Krishnamoorthy
BACKGROUND: Thoracic Endovascular Aortic Repair (TEVAR) has substantially decreased the mortality and major complications from aortic surgery. However, neurological complications such as spinal cord ischemia may still occur after TEVAR. S-100β is a biomarker of central nervous system injury, and oxidant injury plays an important role in neurological injury. In this pilot study, we examined the trends of S-100β and antioxidant capacity in the CSF during and after TEVAR. METHODS: We recruited 10 patients who underwent elective TEVAR...
2017: International Scholarly Research Notices
https://www.readbyqxmd.com/read/28740125/apoe-genotype-influences-insulin-resistance-apolipoprotein-cii-and-ciii-according-to-plasma-fatty-acid-profile-in-the-metabolic-syndrome
#9
Rosalind Fallaize, Andrew L Carvalho-Wells, Audrey C Tierney, Carmen Marin, Beata Kieć-Wilk, Aldona Dembińska-Kieć, Christian A Drevon, Catherine DeFoort, José Lopez-Miranda, Ulf Risérus, Wim H Saris, Ellen E Blaak, Helen M Roche, Julie A Lovegrove
Metabolic markers associated with the Metabolic Syndrome (MetS) may be affected by interactions between the APOE genotype and plasma fatty acids (FA). In this study, we explored FA-gene interactions between the missense APOE polymorphisms and FA status on metabolic markers in MetS. Plasma FA, blood pressure, insulin sensitivity and lipid concentrations were determined at baseline and following a 12-week randomized, controlled, parallel, dietary FA intervention in 442 adults with MetS (LIPGENE study). FA-APOE gene interactions at baseline and following change in plasma FA were assessed using adjusted general linear models...
July 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28739704/vaginal-and-urine-self-sampling-compared-to-cervical-sampling-for-hpv-testing-with-the-cobas-4800-hpv-test
#10
Katrin Christine Asciutto, Anna J Henningsson, Henrik Borgfeldt, Lotten Darlin, Christer Borgfeldt
BACKGROUND/AIM: To compare human papillomavirus (HPV) DNA detection in self-collected vaginal and urine samples with clinician-taken cervical samples in relation to histology. MATERIALS AND METHODS: Self-collected vaginal, urine and clinician-taken cervical samples were analyzed from 218 women with the Cobas 4800 HPV test (Roche Molecular Diagnostics). RESULTS: The sensitivity for detection of HPV in the vaginal self-sampling test was 96.4% and in urine was 83...
August 2017: Anticancer Research
https://www.readbyqxmd.com/read/28739302/comparison-of-the-analytical-and-clinical-performance-of-five-tests-for-the-detection-of-human-papillomavirus-genital-infection
#11
M Del Pino, I Alonso, A Trujillo, S Bernal, D Geraets, N Guimerà, A Torne, J Ordi
HPV-based screening provides greater protection against cervical cancer (CC) than cytology-based strategies. Currently, several molecular diagnostic assays for the detection of human papillomavirus (HPV) are available. In this study, we analyzed 5 different HPV testing and genotyping techniques (Hybrid Capture 2 [HC2; Qiagen, Hilden, Germany], AnyplexTMII HPV28 [Anyplex; Seegene, Seoul, Korea], Linear Array [Roche, Branchburg, NJ, USA], GP5+/6+ PCR-EIA-RH [Labo Bio-medical Products, Rijswijk, The Netherlands] and CLART2 [Genomica, Madrid, Spain]) in 295 women referred to the hospital Colposcopy Clinic from 2007 to 2008 due to positive HPV test results or an abnormal Pap test...
July 21, 2017: Journal of Virological Methods
https://www.readbyqxmd.com/read/28738383/hydralazine-is-a-suitable-mimetic-agent-of-hypoxia-to-study-the-impact-of-hypoxic-stress-on-in-vitro-blood-brain-barrier-model
#12
Morgane Chatard, Clémentine Puech, Nathalie Perek, Frédéric Roche
BACKGROUND/AIMS: Understanding cellular mechanisms induced by hypoxia is fundamental to reduce blood-brain barrier (BBB) disruption. Nevertheless, the investigation of hypoxia on cellular pathways is complex with true hypoxia because HIF-1α has a short lifetime and rapidly reverts back to a normoxic state. To overcome this difficulty, mimetic agents of the hypoxia pathway have been developed, including the gold standard CoCl2. In this study, we proposed to compare CoCl2 and hydralazine in order to determine a suitable mimetic agent of hypoxia for the study on the BBB...
July 24, 2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/28737965/comparison-of-three-competitive-immunoassays-for-measurement-of-tsh-receptor-antibodies-in-patients-with-graves-disease
#13
Sara Doroudian, Inge Bülow Pedersen, Cindy Soendersoe Knudsen, Aase Handberg, Stine Linding Andersen
Thyrotropin (TSH) receptor antibodies (TRAb) mediate the hyperthyroidism of Graves' disease (GD). The aim of the study was to compare the diagnostic performance and assay agreement between three immunoassays for the measurement of TRAb in patients with newly diagnosed GD. TRAb was measured with three different assays [H-TRAb (BRAHMS Diagnostica), M22-Man (RSR Limited) and M22-Aut (Roche Diagnostics)] in 387 participants who were recruited from two Danish population-based studies and diagnosed with GD (n = 101), multinodular toxic goitre (n = 88), primary autoimmune hypothyroidism (n = 100) or included as controls (n = 98)...
July 24, 2017: Scandinavian Journal of Clinical and Laboratory Investigation
https://www.readbyqxmd.com/read/28737944/in-situ-generated-glycinyl-chloroaminals-for-a-one-pot-synthesis-of-non-proteinogenic-%C3%AE-amino-esters
#14
Shyam S Samanta, Stephane P Roche
An acetyl chloride-mediated cascade transformation involving a primary carbamate, ethyl glyoxylate and various types of nucleophiles is reported for the synthesis of orthogonally protected α-amino esters. These reactions proceeded rapidly to afford the pivotal α-chloroglycine intermediate in excellent yields which can be directly functionalized in situ with various types of nucleophiles. A mild and unique AcOH(cat.)/AcCl system was found to promote an autocatalytic-like condensation and facilitate the multicomponent assembly of non-proteinogenic α-amino esters...
July 24, 2017: Journal of Organic Chemistry
https://www.readbyqxmd.com/read/28734498/surgical-site-infection-reduction-bundle-in-patients-with-gynecologic-cancer-undergoing-colon-surgery
#15
Maria B Schiavone, Lea Moukarzel, Kam Leong, Qin C Zhou, Anoushka M Afonso, Alexia Iasonos, Kara Long Roche, Mario M Leitao, Dennis S Chi, Nadeem R Abu-Rustum, Oliver Zivanovic
OBJECTIVE: Surgical site infections (SSIs) can lead to substantial morbidity, prolonged hospitalization, increased costs, and death in patients undergoing colorectal procedures. We sought to investigate the effect of using an SSI reduction bundle on the rate of SSIs in gynecologic cancer patients undergoing colon surgery. METHODS: We identified all gynecologic cancer patients who underwent colon resection at our institution from 2014 to 2016, during which time a service-wide SSI reduction bundle was introduced...
July 19, 2017: Gynecologic Oncology
https://www.readbyqxmd.com/read/28734457/total-lower-lip-and-chin-reconstruction-with-radial-forearm-free-flap-a-novel-approach
#16
Eliza H Dewey, Ansley M Roche, Cathy L Lazarus, Mark L Urken
BACKGROUND: The management of large chin and lower lip defects is challenging due to this facial subunit's tremendous functional and aesthetic importance. Specific methods for total lower lip and mentum reconstruction are not well chronicled. Aesthetic and functional goals of this reconstruction include restoration of oral competence by maintaining lower lip height, vermilion reestablishment, color-matched skin introduction to the chin, sensation restoration, and ideally restoration of dynamic activity to the lower lip...
July 8, 2017: American Journal of Otolaryngology
https://www.readbyqxmd.com/read/28732213/comparison-of-blood-collection-tubes-from-three-different-manufacturers-for-the-collection-of-cell-free-dna-for-liquid-biopsy-mutation-testing
#17
Christina Alidousty, Danielle Brandes, Carina Heydt, Svenja Wagener, Maike Wittersheim, Stephan Christian Schäfer, Barbara Holz, Sabine Merkelbach-Bruse, Reinhard Büttner, Jana Fassunke, Anne Maria Schultheis
The improvement in sensitive techniques has allowed the detection of tumor-specific aberrations in circulating tumor (ct) DNA. Amplification-refractory mutation system PCR has been used for the analysis of ctDNA to detect resistance-causing mutations in the epidermal growth factor receptor gene (eg, EGFR T790M) in lung cancer patients. So far, Streck tubes have been widely used as standard blood collection tubes. Here, we compared blood collection tubes manufactured by Streck with tubes from Roche and Qiagen regarding their utility in stabilizing ctDNA in plasma samples...
July 18, 2017: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/28730906/mortality-intensive-care-treatment-and-cost-evaluation-role-of-a-polymerase-chain-reaction-assay-in-patients-with-sepsis
#18
Markota Andrej, Sinkovič Andreja
Objective We examined whether patients with a positive SeptiFast (SF) assay (LightCycler SeptiFast; Roche Diagnostics, Basel, Switzerland) developed higher long-term mortality, a more difficult course of treatment, and a higher antimicrobial treatment cost than patients with a negative SF assay. Methods We performed a post-hoc analysis of data collected in a 1-year prospective interventional study of adults with severe sepsis and septic shock. In addition to the standard treatment, an additional 5 ml of blood was obtained for an SF assay, and the antimicrobial treatment was changed according to the SF results...
January 1, 2017: Journal of International Medical Research
https://www.readbyqxmd.com/read/28730618/undiagnosed-chronic-temporomandibular-joiny-pain-making-a-case-for-fdg-pet-ct
#19
Dwight D Rice, Kenneth Abramovitch, Susan Roche, Cherie A Cora, Karina D Torralba, Heidi L Christensen, Edwin L Christiansen
No abstract text is available yet for this article.
July 21, 2017: International Journal of Rheumatic Diseases
https://www.readbyqxmd.com/read/28730509/effect-of-a-2000-m-running-test-on-antioxidant-and-cytokine-response-in-plasma-and-circulating-cells
#20
Lucrecia Carrera-Quintanar, Lorena Funes, Miguel Sánchez-Martos, Pascual Martinez-Peinado, José M Sempere, Antoni Pons, Vicente Micol, Enrique Roche
Exercise intensity usually correlates with increased oxidative stress and enhanced cytokine production. However, it is unknown if all types of exercise that induce muscle damage can cause a parallel response in the oxidation balance and cytokine production. To this end, the effect of a 2000-m running test in a group of volunteers that regularly train in aerobic routines was studied. Different circulating parameters were measured, oxidative stress markers (protein carbonyls and malondialdehyde), antioxidant enzyme activity, and cytokine levels in plasma as well as in the main circulating cells of blood samples obtained in basal conditions and after test execution...
July 20, 2017: Journal of Physiology and Biochemistry
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