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https://www.readbyqxmd.com/read/29792917/storage-visualization-and-navigation-of-3d-genomics-data
#1
Jérôme Waldispühl, Eric Zhang, Alexander Butyaev, Elena Nazarova, Yan Cyr
The field of 3D genomics grew at increasing rates in the last decade. The volume and complexity of 2D and 3D data produced is progressively outpacing the capacities of the technology previously used for distributing genome sequences. The emergence of new technologies provides also novel opportunities for the development of innovative approaches. In this paper, we review the state-of-the-art computing technology, as well as the solutions adopted by the platforms currently available.
May 21, 2018: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/29792094/regulatory-context-and-validation-of-assays-for-clinical-mass-spectrometry-proteomics-cmsp-methods
#2
Christophe Hirtz, Pauline Bros, Cato Brede, Pierre Lescuyer, Aleksandra M Maceski, Jerome Vialaret, Vincent Delatour, Sylvain Lehmann
Clinical mass spectrometry proteomics (cMSP) assays are being increasingly used in clinical laboratories for analyzing peptides and proteins. It has therefore become urgent to characterize and validate the methods available for liquid chromatography-tandem mass spectrometry (LC/MS-MS) targeted quantification of peptide and protein biomarkers in biological fluids in the context of in vitro diagnostics. LC-MS/MS for the detection of peptides and proteins is currently the main approach used in the field of cMSP...
May 23, 2018: Critical Reviews in Clinical Laboratory Sciences
https://www.readbyqxmd.com/read/29791442/bacillus-cereus-a-serious-cause-of-nosocomial-infections-epidemiologic-and-genetic-survey
#3
Benjamin Glasset, Sabine Herbin, Sophie A Granier, Laurent Cavalié, Emilie Lafeuille, Cyprien Guérin, Raymond Ruimy, Florence Casagrande-Magne, Marion Levast, Nathalie Chautemps, Jean-Winoc Decousser, Laure Belotti, Isabelle Pelloux, Jerôme Robert, Anne Brisabois, Nalini Ramarao
Bacillus cereus is the 2nd most frequent bacterial agent responsible for food-borne outbreaks in France and the 3rd in Europe. In addition, local and systemic infections have been reported, mainly describing individual cases or single hospital setting. The real incidence of such infection is unknown and information on genetic and phenotypic characteristics of the incriminated strains is generally scarce. We performed an extensive study of B. cereus strains isolated from patients and hospital environments from nine hospitals during a 5-year study, giving an overview of the consequences, sources and pathogenic patterns of B...
2018: PloS One
https://www.readbyqxmd.com/read/29788759/advocating-for-mutually-beneficial-access-to-shelved-compounds
#4
Jill M Pulley, Rebecca N Jerome, Jana K Shirey-Rice, Nicole M Zaleski, Helen M Naylor, Andrea J Pruijssers, James C Jackson, Gordon R Bernard, Kenneth J Holroyd
No abstract text is available yet for this article.
May 23, 2018: Future Medicinal Chemistry
https://www.readbyqxmd.com/read/29788152/early-arthritis-is-associated-with-failure-of-immunosuppressive-drugs-and-severe-pediatric-crohn-s-disease-evolution
#5
Naïm Ouldali, Jean-Pierre Hugot, Jérôme Viala, Mohamed Damir, Christine Martinez-Vinson, Ulrich Meinzer
Background: Crohn's disease (CD) is a chronic relapsing inflammatory disease. To optimize therapeutic decision making, it is essential to identify parameters that allow early prediction of a severe disease course. The aim of this study was to assess the link between arthritis and medium-term therapeutic failure in pediatric CD. Methods: We conducted a population-based cohort study with prospectively collected electronic data. To be included, patients must be younger than 17 years and have a confirmed CD diagnosed between 2005 and 2014...
May 18, 2018: Inflammatory Bowel Diseases
https://www.readbyqxmd.com/read/29787696/impact-of-risk-adjustment-on-provider-ranking-for-patients-with-low-back-pain-receiving-physical-therapy
#6
Daniel Deutscher, Mark W Werneke, Deanna Hayes, Jerome E Mioduski, Karon F Cook, Julie Fritz, Linda J Woodhouse, Paul W Stratford
Study Design Retrospective cohort. Background Impact of risk-adjustment on clinic quality ranking for patients treated in physical therapy outpatient clinics is unknown. Objectives To compare clinic ranking, based on unadjusted vs. risk-adjusted outcomes, for patients with low back pain (LBP) treated in physical therapy. Methods Secondary analysis of data from adult patients with LBP treated in outpatient physical therapy clinics during 2014-2016. Patients with complete outcomes data at admission and discharge were included to develop the risk-adjustment model...
May 22, 2018: Journal of Orthopaedic and Sports Physical Therapy
https://www.readbyqxmd.com/read/29785964/mechanism-of-selective-recruitment-of-rna-polymerases-ii-and-iii-to-snrna-gene-promoters
#7
Oleksandr Dergai, Pascal Cousin, Jerome Gouge, Karishma Satia, Viviane Praz, Tracy Kuhlman, Philippe Lhôte, Alessandro Vannini, Nouria Hernandez
RNA polymerase II (Pol II) small nuclear RNA (snRNA) promoters and type 3 Pol III promoters have highly similar structures; both contain an interchangeable enhancer and "proximal sequence element" (PSE), which recruits the SNAP complex (SNAPc). The main distinguishing feature is the presence, in the type 3 promoters only, of a TATA box, which determines Pol III specificity. To understand the mechanism by which the absence or presence of a TATA box results in specific Pol recruitment, we examined how SNAPc and general transcription factors required for Pol II or Pol III transcription of SNAPc-dependent genes (i...
May 21, 2018: Genes & Development
https://www.readbyqxmd.com/read/29785585/poisoning-associated-with-inappropriate-use-of-a-eutectic-mixture-of-lidocaine-and-prilocaine-before-laser-assisted-hair-removal-about-3-cases
#8
Weniko Caré, Islam-Amine Larabi, Jérôme Langrand, Chantal Medernach, Jean-Claude Alvarez, Antoine Villa
BACKGROUND: Eutectic mixtures of lidocaine and prilocaine are used during painful dermatological procedures. Poisoning is rarely reported in adults. MATERIAL AND METHOD: We report three cases of women who experienced lidocaine and prilocaine poisoning after laser-assisted hair removal. Plasma levels of local anesthetics were assayed by a fully validated liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS) method. CASE REPORTS: The rules of application of the anesthetic cream were observed apart from the maximum dose and/or maximum surface area...
May 21, 2018: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/29784920/video-rate-volumetric-neuronal-imaging-using-3d-targeted-illumination
#9
Sheng Xiao, Hua-An Tseng, Howard Gritton, Xue Han, Jerome Mertz
Fast volumetric microscopy is required to monitor large-scale neural ensembles with high spatio-temporal resolution. Widefield fluorescence microscopy can image large 2D fields of view at high resolution and speed while remaining simple and costeffective. A focal sweep add-on can further extend the capacity of widefield microscopy by enabling extended-depth-of-field (EDOF) imaging, but suffers from an inability to reject out-of-focus fluorescence background. Here, by using a digital micromirror device to target only in-focus sample features, we perform EDOF imaging with greatly enhanced contrast and signal-to-noise ratio, while reducing the light dosage delivered to the sample...
May 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29784904/differential-protein-profiling-as-a-potential-multi-marker-approach-for-obese-patients-with-heart-failure-a-retrospective-study
#10
Andrei Timotin, Mathieu Cinato, Frederic Boal, Sebastien Dejean, Rodica Anesia, Oleg Arnaut, Christine Lagente, Jerome Roncalli, Franck Desmoulin, Helene Tronchere, Oksana Kunduzova
Identification of novel circulating biomarkers predicting death and major cardio-metabolic events in obese patients with heart failure (HF) remains a research priority. In this study, we compared multi-marker profile of non-obese (NOB) and obese (OB) HF patients in relation to mortality outcome. The new multiplex proximity extension assay technology was used to analyze the levels of 92 proteins in plasma samples from HF patients according to body mass index (BMI) categories. At 2-year follow-up, all-cause mortality rates were significantly greater in NOB patients (BMI < 30 kg/m2 ) compared to the OB patients (BMI > 30 kg/m2 ) with HF (odds ratio 26; 95% CI: 1...
May 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29783595/re-the-role-of-social-cognitive-and-emotional-factors-on-testicular-self-examination
#11
Jerome P Richie
No abstract text is available yet for this article.
June 2018: Journal of Urology
https://www.readbyqxmd.com/read/29783594/re-attitudes-toward-testicular-cancer-and-self-examination-among-northern-irish-males
#12
Jerome P Richie
No abstract text is available yet for this article.
June 2018: Journal of Urology
https://www.readbyqxmd.com/read/29780380/mitochondrial-damage-associated-molecular-patterns-from-inflammatory-signaling-to-human-diseases
#13
REVIEW
Serge Grazioli, Jérôme Pugin
Over the recent years, much has been unraveled about the pro-inflammatory properties of various mitochondrial molecules once they are leaving the mitochondrial compartment. On entering the cytoplasm or the extracellular space, mitochondrial DAMPs (also known as mitochondrial alarmins) can become pro-inflammatory and initiate innate and adaptive immune responses by activating cell surface and intracellular receptors. Current evidence indicates that uncontrolled and excessive release of mitochondrial DAMPs is associated with severity, has prognosis value in human diseases, and contributes to the dysregulated process observed in numerous inflammatory and autoimmune conditions, as well as in ischemic heart disease and cancer...
2018: Frontiers in Immunology
https://www.readbyqxmd.com/read/29779986/photodynamic-therapy-corrects-abnormal-cancer-associated-gene-expression-observed-in-actinic-keratosis-lesions-and-induces-a-remodeling-effect-in-photodamaged-skin
#14
Florence Joly, Sophie Deret, Bastien Gamboa, Corinne Menigot, Paul Fogel, Carine Mounier, Pascale Reiniche, Farzaneh Sidou, Jérome Aubert, John Lear, Anthony A Fryer, Francesca Zolezzi, Johannes J Voegel
BACKGROUND: Actinic keratoses (AK) are proliferations of neoplastic keratinocytes in the epidermis resulting from cumulative exposure to ultraviolet radiation (UVR), which are liable to transform into squamous cell carcinoma (SCC). Organ Transplant Recipients (OTR) have an increased risk of developing SCC as a consequence of long-term immunosuppressive therapy. The aim of this study was to determine the molecular signature of AKs from OTR prior to treatment with methyl aminolevulinate-photodynamic therapy (MAL-PDT), and to assess what impact the treatment has on promoting remodeling of the photo-damaged skin...
May 17, 2018: Journal of Dermatological Science
https://www.readbyqxmd.com/read/29779065/digital-technologies-in-the-treatment-of-anxiety-recent-innovations-and-future-directions
#15
REVIEW
Joseph Firth, John Torous, Rebekah Carney, Jill Newby, Theodore D Cosco, Helen Christensen, Jerome Sarris
PURPOSE OF REVIEW: This review aims to provide a comprehensive overview of the efficacy, limitations, and future of e-health treatments for anxiety. Within this, we provide detail on "first-generation" e-health approaches, such as computerized therapies. Additionally, we assess the emergence and early efficacy of newer methods of treatment delivery, including smartphone apps and virtual reality interventions, discussing the potential and pitfalls for each. RECENT FINDINGS: There is now substantial clinical research demonstrating the efficacy of internet-delivered cognitive behavioral therapy in the treatment of anxiety...
May 19, 2018: Current Psychiatry Reports
https://www.readbyqxmd.com/read/29777867/antibiotic-exposure-prior-to-respiratory-viral-infection-is-associated-with-progression-to-lower-respiratory-tract-disease-in-allogeneic-hematopoietic-cell-transplant-recipients
#16
Chikara Ogimi, Elizabeth M Krantz, Jonathan L Golob, Alpana Waghmare, Catherine Liu, Wendy M Leisenring, Christopher R Woodard, Sara Marquis, Jane M Kuypers, Keith R Jerome, Steven A Pergam, David N Fredricks, Mohamed L Sorror, Janet A Englund, Michael Boeckh
INTRODUCTION: Recent publications note an association between antibiotic exposure and respiratory viral infections (RVIs). Antibiotics affect microbiota and impair immune response against RVIs in mice, and low microbiome diversity is associated with pulmonary complications including viral lower respiratory tract disease (LRTD) in hematopoietic cell transplantation (HCT) recipients. In this study, we examined whether antibiotic exposure was associated with increased risk of disease progression in RVIs post-transplantation...
May 16, 2018: Biology of Blood and Marrow Transplantation
https://www.readbyqxmd.com/read/29777640/factors-associated-with-parental-intent-not-to-circumcise-daughters-in-enugu-state-of-nigeria-an-application-of-the-theory-of-planned-behavior
#17
Cajetan I Ilo, Sandra A Darfour-Oduro, Jerome O Okafor, Diana S Grigsby-Toussaint, Ignatius O Nwimo, Chinagorom Onwunaka
This study explored intention of parents not to circumcise daughters in Enugu State, Nigeria using theory of planned behavior (TPB) as a framework. A survey of 1345 parents was carried out using structured questionnaire with FGM question items based on TPB constructs of attitude, subjective norm (SN), perceived behavioral control (PBC), and intention. Intention was dichotomized into two categories and logistic regression analysis was performed to examine the association between the constructs of TPB while controlling for some socio-demographic factors...
March 2018: African Journal of Reproductive Health
https://www.readbyqxmd.com/read/29776750/safety-and-immunogenicity-of-a-vi-dt-typhoid-conjugate-vaccine-phase-i-trial-in-healthy-filipino-adults-and-children
#18
Maria Rosario Capeding, Samuel Teshome, Tarun Saluja, Khalid Ali Syed, Deok Ryun Kim, Ju Yeon Park, Jae Seung Yang, Yang Hee Kim, Jiwook Park, Sue-Kyoung Jo, Yun Chon, Sudeep Kothari, Seon-Young Yang, Dong Soo Ham, Ji Hwa Ryu, Hee-Seong Hwang, Ju-Hwan Mun, Julia Lynch, Jerome Kim, Hun Kim, Jean-Louis Excler, Sushant Sahastrabuddhe
BACKGROUND: Typhoid fever remains a major public health problem in low- and middle-income countries where children aged 2-14 years bear the greatest burden. Vi polysaccharide is poorly immunogenic in children <2 years of age, and protection in adults is modest. The limitations of Vi polysaccharide vaccines can be overcome by conjugation of the Vi to a carrier protein. A typhoid conjugate vaccine composed of Vi polysaccharide conjugated to diphtheria toxoid (Vi-DT) has been developed...
May 15, 2018: Vaccine
https://www.readbyqxmd.com/read/29776718/high-urinary-ferritin-reflects-myoglobin-iron-evacuation-in-dmd-patients
#19
Jérémy Rouillon, Thibaud Lefebvre, Jérôme Denard, Vincent Puy, Raed Daher, Jérôme Ausseil, Aleksandar Zocevic, Paul Fogel, Katell Peoc'h, Brenda Wong, Laurent Servais, Thomas Voit, Herve Puy, Zoubida Karim, Fedor Svinartchouk
Duchenne muscular dystrophy (DMD) is an X-linked disease caused by mutations in the dystrophin gene leading to the absence of the normal dystrophin protein. The efforts of many laboratories brought new treatments of DMD to the reality, but ongoing and forthcoming clinical trials suffer from absence of valuable biomarkers permitting to follow the outcome of the treatment day by day and to adjust the treatment if needed. In the present study the levels of 128 urinary proteins including growth factors, cytokines and chemokines were compared in urine of DMD patients and age related control subjects by antibody array approach...
March 20, 2018: Neuromuscular Disorders: NMD
https://www.readbyqxmd.com/read/29776442/multimorbidity-can-general-practitioners-identify-the-health-conditions-most-important-to-their-patients-results-from-a-national-cross-sectional-study-in-switzerland
#20
Anouk Déruaz-Luyet, Alexandra A N'Goran, Jérôme Pasquier, Bernard Burnand, Patrick Bodenmann, Stefan Zechmann, Stefan Neuner-Jehle, Nicolas Senn, Daniel Widmer, Sven Streit, Andreas Zeller, Dagmar M Haller, Lilli Herzig
BACKGROUND: Faced with patients suffering from more than one chronic condition, or multimorbidity, general practitioners (GPs) must establish diagnostic and treatment priorities. Patients also set their own priorities to handle the everyday burdens associated with their multimorbidity and these may be different from the priorities established by their GP. A shared patient-GP agenda, driven by knowledge of each other's priorities, would seem central to managing patients with multimorbidity...
May 17, 2018: BMC Family Practice
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