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https://www.readbyqxmd.com/read/28334930/rcas-an-rna-centric-annotation-system-for-transcriptome-wide-regions-of-interest
#1
Bora Uyar, Dilmurat Yusuf, Ricardo Wurmus, Nikolaus Rajewsky, Uwe Ohler, Altuna Akalin
In the field of RNA, the technologies for studying the transcriptome have created a tremendous potential for deciphering the puzzles of the RNA biology. Along with the excitement, the unprecedented volume of RNA related omics data is creating great challenges in bioinformatics analyses. Here, we present the RNA Centric Annotation System (RCAS), an R package, which is designed to ease the process of creating gene-centric annotations and analysis for the genomic regions of interest obtained from various RNA-based omics technologies...
February 21, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28329385/importance-of-combined-left-atrial-size-and-estimated-pulmonary-pressure-for-clinical-outcome-in-patients-presenting-with-heart-failure-with-preserved-ejection-fraction
#2
Erwan Donal, Lars H Lund, Emmanuel Oger, Christian Bosseau, Amélie Reynaud, Camilla Hage, Elodie Drouet, J-Claude Daubert, Cecila Linde
Aims: Heart failure with preserved ejection fraction (HFpEF) is a complex syndrome with various phenotypes and outcomes. The prognostic relevance of echocardiography and the E/e' ratio has previously been reported. We sought to study in addition, the value of estimated pulmonary pressure and left atrial size for diagnosing and determining a prognosis for HFpEF-patients in a prospective multi-centric cohort. Methods and results: Patients with an acute-HF event accompanied with NT-proBNP >300 pg/mL (BNP >100 pg/mL) and LVEF >45% were included (n = 237) and clinically reassessed using echo-Doppler after 4-8 weeks of HF treatment as part of the prospective KaRen HFpEF study...
March 4, 2017: European Heart Journal Cardiovascular Imaging
https://www.readbyqxmd.com/read/28316365/extracting-databases-from-dark-data-with-deepdive
#3
Ce Zhang, Jaeho Shin, Christopher Ré, Michael Cafarella, Feng Niu
DeepDive is a system for extracting relational databases from dark data: the mass of text, tables, and images that are widely collected and stored but which cannot be exploited by standard relational tools. If the information in dark data - scientific papers, Web classified ads, customer service notes, and so on - were instead in a relational database, it would give analysts a massive and valuable new set of "big data." DeepDive is distinctive when compared to previous information extraction systems in its ability to obtain very high precision and recall at reasonable engineering cost; in a number of applications, we have used DeepDive to create databases with accuracy that meets that of human annotators...
June 2016: Proceedings
https://www.readbyqxmd.com/read/28302490/a-novel-quinazoline-based-analog-induces-g2-m-cell-cycle-arrest-and-apoptosis-in-human-a549-lung-cancer-cells-via-a-ros-dependent-mechanism
#4
Hailong Shi, Yan Li, Xiaorong Ren, Yaohong Zhang, Zhen Yang, Chenze Qi
6-amino-4-(4-phenoxyphenylethylamino)quinazoline (QNZ) is an excellent quinazoline-containing NF-κB inhibitor also acting as a novel anticancer agent. Considering both the medicinal significance of quinazoline scaffold and the tunable functionality of Michael acceptor-centric pharmacophores in the electrophilicity-based prooxidant strategy, we designed a novel QNZ-inspired electrophilic molecule QNZ-A by introducing a Michael acceptor unit at position-6 of quinazoline ring in QNZ. Our results identified QNZ-A as a promising selective cytotoxic agent against A549 cells...
March 14, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28296738/clinical-efficacy-of-a-centric-relation-occlusal-splint-and-intra-articular-liquid-phase-concentrated-growth-factor-injection-for-the-treatment-of-temporomandibular-disorders
#5
Jung-Wu Yang, Yi-Chia Huang, Shang-Liang Wu, Shun-Yao Ko, Chiang-Chin Tsai
The agony that accompanies the incidence and symptoms of temporomandibular disorders (TMDs) is an important concern in the oral and maxillofacial region. The objective of this study was to explore the clinical findings after centric relation occlusal splint (CROS) treatment and intra-articular injection treatment with liquid phase concentrated growth factors (LPCGFs) in patients with disc displacement without reduction (DDWOR).The group under investigation of this retrospective cohort study included patients with DDWOR who received treatment from April 2014 until March 2016...
March 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28294635/maintenance-of-weight-loss-or-stability-in-subjects-with-obesity-a-retrospective-longitudinal-analysis-of-a-real-world-population
#6
Maral DerSarkissian, Rachel H Bhak, Joanna Huang, Sarah Buchs, Francis Vekeman, B Gabriel Smolarz, Jason Brett, Rahul Ganguly, Mei Sheng Duh
OBJECTIVES: Characterize patterns of weight change among subjects with obesity. METHODS: A retrospective observational longitudinal study of subjects with obesity was conducted using the General Electric Centricity electronic medical record database. Subjects who were ≥18 years old with BMI ≥30 kg/m(2) (first defining index BMI), had no medical conditions associated with unintentional weight loss, and had ≥4 BMI measurements/year for ≥2.5 years were included and categorized into groups (stable weight: within <5% of index BMI; modest weight loss: ≥5 to <10% of index BMI lost; moderate weight loss: ≥10 to <15% of index BMI lost; and high weight loss: ≥15% of index BMI lost) based on weight change during six months following index...
March 15, 2017: Current Medical Research and Opinion
https://www.readbyqxmd.com/read/28288905/bioinformatic-approaches-to-interrogating-vitamin-d-receptor-signaling
#7
Moray J Campbell
Bioinformatics applies unbiased approaches to develop statistically-robust insight into health and disease. At the global, or "20,000 foot" view bioinformatic analyses of vitamin D receptor (NR1I1/VDR) signaling can measure where the VDR gene or protein exerts a genome-wide significant impact on biology; VDR is significantly implicated in bone biology and immune systems, but not in cancer. With a more VDR-centric, or "2000 foot" view, bioinformatic approaches can interrogate events downstream of VDR activity...
March 10, 2017: Molecular and Cellular Endocrinology
https://www.readbyqxmd.com/read/28288164/bayesian-model-of-signal-rewiring-reveals-mechanisms-of-gene-dysregulation-in-acquired-drug-resistance-in-breast-cancer
#8
A K M Azad, Alfons Lawen, Jonathan M Keith
Small molecule inhibitors, such as lapatinib, are effective against breast cancer in clinical trials, but tumor cells ultimately acquire resistance to the drug. Maintaining sensitization to drug action is essential for durable growth inhibition. Recently, adaptive reprogramming of signaling circuitry has been identified as a major cause of acquired resistance. We developed a computational framework using a Bayesian statistical approach to model signal rewiring in acquired resistance. We used the p1-model to infer potential aberrant gene-pairs with differential posterior probabilities of appearing in resistant-vs-parental networks...
2017: PloS One
https://www.readbyqxmd.com/read/28283741/proposal-of-a-new-classification-of-postoperative-ileus-based-on-its-clinical-impact-results-of-a-global-survey-and-preliminary-evaluation-in-colorectal-surgery
#9
Aurélien Venara, Karem Slim, Jean-Marc Regimbeau, Pablo Ortega-Deballon, Bruno Vielle, Emilie Lermite, Guillaume Meurette, Antoine Hamy
PURPOSE: There is no consensual definition of postoperative ileus (POI), which leads to a lack of reproducibility. The aims of this study were (i) to propose and evaluate a classification of postoperative ileus based on its consequences and (ii) to assess the reproducibility of the classification. METHODS: A national global survey was carried out according to the DELPHI method in order to create a classification of primary POI. The classification was subsequently tested on a cohort of patients who underwent colorectal surgery...
March 10, 2017: International Journal of Colorectal Disease
https://www.readbyqxmd.com/read/28283039/hepatitis-c-virus-ns3-protein-enhances-hepatocellular-carcinoma-cell-invasion-by-promoting-ppm1a-ubiquitination-and-degradation
#10
Yali Zhou, Yan Zhao, Yaoying Gao, Wenjun Hu, Yan Qu, Ning Lou, Ying Zhu, Xiaoping Zhang, Hongmei Yang
BACKGROUND: Growing evidence suggests that hepatitis C virus (HCV) contributes to hepatocellular carcinoma (HCC) by directly modulating oncogenic signaling pathways. Protein phosphatase magnesium-dependent 1A (PPM1A) has recently emerged as an important tumor suppressor as it can block a range of tumor-centric signaling pathways through protein dephosphorylation. However, the role and regulatory mechanisms of PPM1A in HCV-infected cells have not been reported. METHODS: Total, cytoplasmic, and nuclear PPM1A protein after HCV infection or overexpression of HCV nonstructural protein 3 (NS3) were detected by western blotting...
March 10, 2017: Journal of Experimental & Clinical Cancer Research: CR
https://www.readbyqxmd.com/read/28275722/differential-contribution-of-app-metabolites-to-early-cognitive-deficits-in-a-tgcrnd8-mouse-model-of-alzheimer-s-disease
#11
Valentine Hamm, Céline Héraud, Jean-Bastien Bott, Karine Herbeaux, Carole Strittmatter, Chantal Mathis, Romain Goutagny
Alzheimer's disease (AD) is a neurodegenerative pathology commonly characterized by a progressive and irreversible deterioration of cognitive functions, especially memory. Although the etiology of AD remains unknown, a consensus has emerged on the amyloid hypothesis, which posits that increased production of soluble amyloid β (Aβ) peptide induces neuronal network dysfunctions and cognitive deficits. However, the relative failures of Aβ-centric therapeutics suggest that the amyloid hypothesis is incomplete and/or that the treatments were given too late in the course of AD, when neuronal damages were already too extensive...
February 2017: Science Advances
https://www.readbyqxmd.com/read/28275425/a-clinical-and-ethical-review-on-late-results-and-benefits-after-evar
#12
REVIEW
Carlo Setacci, Pasqualino Sirignano, Vittorio Fineschi, Paola Frati, Giovanna Ricci, Francesco Speziale
INTRODUCTION: The aim of this review is to assess if late mortality after endovascular repair (EVAR) of abdominal aortic aneurysms (AAA) is a real problem, and whether it could be an issue in the case of medical litigation. MATERIAL AND METHODS: A review of all English language literature was performed on PubMed web-site, looking for all papers reporting EVAR long-term mortality rate. EVAR performances were reviewed also from an ethical and medico-legal point of view, based on current Italian laws...
April 2017: Annals of Medicine and Surgery
https://www.readbyqxmd.com/read/28269639/predicting-rapid-cognitive-decline-in-alzheimer-s-disease-patients-using-quantitative-eeg-markers-and-neuropsychological-test-scores
#13
Carmina Reyes-Coronel, Markus Waser, Heinrich Garn, Manfred Deistler, Peter Dal-Bianco, Thomas Benke, Gerhard Ransmayr, Dieter Grossegger, Reinhold Schmidt
Alzheimer's Disease (AD) can take different courses: some patients remain relatively stable while others decline rapidly within a given period of time. Losing more than 3 Mini-Mental State Examination (MMSE) points in one year is classified as rapid cognitive decline (RCD). This study used neuropsychological test scores and quantitative EEG (QEEG) markers obtained at a baseline examination to identify if an AD patient will be suffering from RCD. Data from 68 AD patients of the multi-centric cohort study PRODEM-Austria were applied...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28267753/impact-of-arteriovenous-fistula-blood-flow-on-serum-il-6-cardiovascular-events-and-death-an-ambispective-cohort-analysis-of-64-chinese-hemodialysis-patients
#14
Zhizhi Hu, Fengmin Zhu, Nan Zhang, Chunxiu Zhang, Guangchang Pei, Pengge Wang, Juan Yang, Yujiao Guo, Meng Wang, Yuxi Wang, Qian Yang, Han Zhu, Wenhui Liao, Zhiguo Zhang, Ying Yao, Rui Zeng, Gang Xu
Flows (Qa) of arteriovenous fistula (AVF) impact the dialysis adequacy in hemodialysis (HD) patients. However, data for different access flow levels on outcomes related to long-term dialysis patients, especially in Chinese patients, are limited. Herein, we performed an ambispective, mono-centric cohort study investigating the association between the AVF flows and inflammation, cardiovascular events and deaths in Chinese hemodialysis patients bearing a radio-cephalic fistula (AVF) from 2009 to 2015. Twenty-three patients (35...
2017: PloS One
https://www.readbyqxmd.com/read/28264557/full-qm-calculation-of-rna-energy-using-electrostatically-embedded-generalized-molecular-fractionation-with-conjugate-caps-method
#15
Xinsheng Jin, John Z H Zhang, Xiao He
In this study, the electrostatically embedded generalized molecular fractionation with conjugate caps (concaps) method (EE-GMFCC) was employed for efficient linear-scaling quantum mechanical (QM) calculation of total energies of RNAs. In the EE-GMFCC approach, the total energy of RNA is calculated by taking a proper combination of the QM energy of each nucleotide-centric fragment with large caps or small caps (termed EE-GMFCC-LC and EE-GMFCC-SC, respectively) deducted by the energies of concaps. The two-body QM interaction energy between non-neighboring ribonucleotides which are spatially in close contact are also taken into account for the energy calculation...
March 16, 2017: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/28263869/does-aging-alter-the-molecular-substrate-of-ionotropic-neurotransmitter-receptors-in-the-rostral-ventral-lateral-medulla-a-short-communication
#16
Hitesh N Pawar, Sivasai Balivada, Michael J Kenney
Aging alters sympathetic nervous system (SNS) regulation, although central mechanisms are not well understood. In young rats the rostral ventral lateral medulla (RVLM) is critically involved in central SNS regulation and RVLM neuronal activity is mediated by a balance of excitatory and inhibitory ionotropic neurotransmitters and receptors, providing the foundation for hypothesizing that with advanced age the molecular substrate of RVLM ionotropic receptors is characterized by upregulated excitatory and downregulated inhibitory receptor subunits...
March 2, 2017: Experimental Gerontology
https://www.readbyqxmd.com/read/28263022/the-importance-of-patient-centred-care-to-overcome-barriers-in-the-management-of-actinic-keratosis
#17
REVIEW
R Cerio
Visible actinic keratosis (AK) lesions and subclinical (non-visible) sun damage in the field of cancerization are associated with risk of both non-melanoma skin cancer, including basal cell carcinoma (BCC) and squamous cell carcinoma (SCC), and, more rarely, melanoma. As the incidences of AK and skin cancer are increasing, effective prevention and treatment of AK is essential to minimize disease burden and improve patient quality of life. Currently, AK lesions are often left untreated and field therapies are underused...
March 2017: Journal of the European Academy of Dermatology and Venereology: JEADV
https://www.readbyqxmd.com/read/28262426/toward-an-integrated-root-ideotype-for-irrigated-systems
#18
REVIEW
Jennifer E Schmidt, Amélie C M Gaudin
Breeding towards root-centric ideotypes can be a relatively quick trait-based strategy to improve crop resource use efficiency. Irrigated agriculture represents a crucial and expanding sector, but its unique parameters require traits distinct from previously proposed rainfed ideotypes. We propose a novel irrigated ideotype that integrates traits across multiple scales to enhance resource use efficiency in irrigated agroecosystems, where resources are concentrated in a relatively shallow 'critical zone'. Unique components of this ideotype include rapid transplant recovery and establishment, enhanced exploitation of localized resource hotspots, adaptive physiological regulation, maintenance of hydraulic conductivity, beneficial rhizosphere interactions, and salinity/waterlogging avoidance...
March 2, 2017: Trends in Plant Science
https://www.readbyqxmd.com/read/28258717/distribution-centric-3-parameter-thermodynamic-models-of-partition-gas-chromatography
#19
Leonid M Blumberg
If both parameters (the entropy, ΔS, and the enthalpy, ΔH) of the classic van't Hoff model of dependence of distribution coefficients (K) of analytes on temperature (T) are treated as the temperature-independent constants then the accuracy of the model is known to be insufficient for the needed accuracy of retention time prediction. A more accurate 3-parameter Clarke-Glew model offers a way to treat ΔS and ΔH as functions, ΔS(T) and ΔH(T), of T. A known T-centric construction of these functions is based on relating them to the reference values (ΔSref and ΔHref) corresponding to a predetermined reference temperature (Tref)...
March 31, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/28253982/clinical-aspects-of-glucose-metabolism-and-chronic-disease
#20
J W Culberson
The burden of chronic disease is an emerging world health problem. Advances made in the treatment of individual disease states often fail to consider multimorbidity patterns in clinical research models. Adjusting for age as a confounder ignores its contribution as a powerful risk factor for most chronic diseases. Sarcopenia is an age-related loss of skeletal muscle mass, which is accelerated by chronic inflammation and its resulting cascade of cytokines. Skeletal muscle loss results in insulin resistance, hyperglycemia, and altered mitochondrial glucose signaling pathways...
2017: Progress in Molecular Biology and Translational Science
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