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https://www.readbyqxmd.com/read/27915232/quantitative-profiling-of-selective-sox-pou-pairing-on-hundreds-of-sequences-in-parallel-by-coop-seq
#1
Yiming K Chang, Yogesh Srivastava, Caizhen Hu, Adam Joyce, Xiaoxiao Yang, Zheng Zuo, James J Havranek, Gary D Stormo, Ralf Jauch
Cooperative binding of transcription factors is known to be important in the regulation of gene expression programs conferring cellular identities. However, current methods to measure cooperativity parameters have been laborious and therefore limited to studying only a few sequence variants at a time. We developed Coop-seq (cooperativity by sequencing) that is capable of efficiently and accurately determining the cooperativity parameters for hundreds of different DNA sequences in a single experiment. We apply Coop-seq to 12 dimer pairs from the Sox and POU families of transcription factors using 324 unique sequences with changed half-site orientation, altered spacing and discrete randomization within the binding elements...
December 2, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27914119/fibrinogen-and-d-dimer-levels-elevate-in-advanced-hepatocellular-carcinoma-high-pretreatment-fibrinogen-levels-predict-poor-outcomes
#2
Zhikun Liu, Haijun Guo, Feng Gao, Qiaonan Shan, Jie Li, Haiyang Xie, Lin Zhou, Xiao Xu, Shusen Zheng
AIM: Plasma fibrinogen and D-dimer have been reported to predict survival in several types of malignancies. The aim of this study is to investigate their predictive value in patients with hepatocellular carcinoma (HCC). METHODS: We retrospectively analyzed plasma fibrinogen and D-dimer levels from 252 subjects: control (n = 20), hepatitis (n = 20), cirrhosis (n = 20), and HCC (n = 192) subjects. The clinical involvement and prognostic value of fibrinogen and D-dimer was analyzed in HCC subjects...
December 3, 2016: Hepatology Research: the Official Journal of the Japan Society of Hepatology
https://www.readbyqxmd.com/read/27914014/experimental-and-theoretical-investigation-of-sodiated-multimers-of-steroid-epimers-with-ion-mobility-mass-spectrometry
#3
Christopher D Chouinard, Vinícius Wilian D Cruzeiro, Adrian E Roitberg, Richard A Yost
Ion mobility-mass spectrometry (IM-MS) has recently seen increased use in the analysis of small molecules, especially in the field of metabolomics, for increased breadth of information and improved separation of isomers. In this study, steroid epimers androsterone and trans-androsterone were analyzed with IM-MS to investigate differences in their relative mobilities. Although sodiated monomers exhibited very similar collision cross-sections (CCS), baseline separation was observed for the sodiated dimer species (RS = 1...
December 2, 2016: Journal of the American Society for Mass Spectrometry
https://www.readbyqxmd.com/read/27913745/the-association-of-uric-acid-with-leukoaraiosis
#4
Jun-Jing Li, Yin-Hui Huang, You-Yu Lin, Mi-Mi Li, Ya-Fang Chen, Ruo-Wei Cai
OBJECTIVE: To explore the possible correlation between uric acid levels and leukoaraiosis (LA). METHODS: This cross-sectional study enrolled patients who presented with some neurological discomfort (e.g. dizziness, headache, mild cognitive impairment). Potential demographic and clinical risk factors associated with LA, including sex, age, hypertension, diabetes mellitus, smoking, alcohol consumption, dyslipidaemia, plasma fibrinogen, D-dimer, uric acid, and homocysteine, were investigated using univariate and multivariate logistic regression analyses...
December 2, 2016: Journal of International Medical Research
https://www.readbyqxmd.com/read/27913684/transporter-oligomerization-form-and-function
#5
REVIEW
Yilmaz Alguel, Alexander D Cameron, George Diallinas, Bernadette Byrne
Transporters are integral membrane proteins with central roles in the efficient movement of molecules across biological membranes. Many transporters exist as oligomers in the membrane. Depending on the individual transport protein, oligomerization can have roles in membrane trafficking, function, regulation and turnover. For example, our recent studies on UapA, a nucleobase ascorbate transporter, from Aspergillus nidulans, have revealed both that dimerization of this protein is essential for correct trafficking to the membrane and the structural basis of how one UapA protomer can affect the function of the closely associated adjacent protomer...
December 15, 2016: Biochemical Society Transactions
https://www.readbyqxmd.com/read/27913507/diagnosis-of-suspected-venous-thromboembolism
#6
Clive Kearon
The primary goal of diagnostic testing for venous thromboembolism (VTE) is to identify all patients who could benefit from anticoagulant therapy. Test results that identify patients as having a ≤2% risk of VTE in the next 3 months are judged to exclude deep vein thrombosis (DVT) or pulmonary embolism (PE). Clinical evaluation, with assessment of: (1) clinical pretest probability (CPTP) for VTE; (2) likelihood of important alternative diagnoses; and (3) the probable yield of D-dimer and various imaging tests, guide which tests should be performed...
December 2, 2016: Hematology—the Education Program of the American Society of Hematology
https://www.readbyqxmd.com/read/27911985/hemorrhagic-hemostatic-and-thromboelastometric-disorders-in-35-dogs-with-a-clinical-diagnosis-of-leptospirosis-a-prospective-study
#7
A Barthélemy, M Magnin, C Pouzot-Nevoret, J-M Bonnet-Garin, M Hugonnard, I Goy-Thollot
BACKGROUND: Leptospirosis in dogs is occasionally associated with a hemorrhagic syndrome, the pathophysiology of which is not fully understood. HYPOTHESIS/OBJECTIVES: To characterize hematologic, hemostatic, and thromboelastometric abnormalities in dogs with leptospirosis and to study their association with hemorrhagic diatheses and outcomes. ANIMALS: Thirty-five client-owned dogs. METHODS: A prospective observational single cohort study was conducted...
December 2, 2016: Journal of Veterinary Internal Medicine
https://www.readbyqxmd.com/read/27910244/total-syntheses-of-sarcandrolide%C3%A2-j-and-shizukaol%C3%A2-d-lindenane-sesquiterpenoid-4-2-dimers
#8
Changchun Yuan, Biao Du, Heping Deng, Yi Man, Bo Liu
The syntheses of members of a family of lindenane sesquiterpenoid [4+2] dimers led to the total syntheses of sarcandrolide J and shizukaol D. Inspired by a modified biosynthetic pathway, a cascade featuring furan formation/alkene isomerization/Diels-Alder cycloaddition was devised to construct the congested polycyclic architecture of the target molecules with the correct stereochemistry. This study presents a pioneering synthetic entry to this family of natural products and paves the way for fully exploring their biological functions...
December 2, 2016: Angewandte Chemie
https://www.readbyqxmd.com/read/27908134/understanding-the-microsolvation-of-radicals-infrared-spectroscopy-of-benzyl-radical-water-clusters
#9
Daniel Leicht, Matin Kaufmann, Raffael Schwan, Jan Schäfer, Gerhard Schwaab, Martina Havenith
The IR spectrum of benzyl radical:water clusters was recorded. Benzyl radicals were produced by vacuum flash pyrolysis and trapped in superfluid helium nanodroplets. The infrared spectrum of benzyl radical water aggregates in the range 2585-2820 cm(-1) was recorded by subsequent addition of deuterated water. A total of seven peaks are observed at 2766, 2750, 2656, 2638, 2633, 2598, and 2593 cm(-1). Based on pressure dependent measurements and comparison to accompanying ab initio calculations, five of these bands are assigned to distinct O-D stretch vibrations of benzyl:water clusters with one and two water molecules...
November 28, 2016: Journal of Chemical Physics
https://www.readbyqxmd.com/read/27905031/modern-approaches-to-studies-of-new-osteogenic-biomaterials-on-the-model-of-regeneration-of-critical-size-cranial-defects-in-rats
#10
M S Bartov, A V Gromov, M S Poponova, D M Savina, K E Nikitin, T M Grunina, V N Manskikh, O A Gra, V G Lunin, A S Karyagina, A L Gintsburg
Osteoinductive characteristics of new osteoplastic materials based on demineralized bone matrix of xenogenic origin with high and controlled degree of purification were studied on the model of regeneration of critical-size cranial defects in rats using modern approaches, including histological analysis, evaluation of morphological parameters of the bone tissue obtained by micro-computed tomography, and estimation of bone tissue growth rate using in vivo fluorochrome label. Demineralized bone matrix and, to a much greater extent, its activated form containing modified recombinant growth factor rhBMP-2 with high content of the dimeric form exhibited osteoinductive activity...
December 1, 2016: Bulletin of Experimental Biology and Medicine
https://www.readbyqxmd.com/read/27904905/idarucizumab-does-not-have-procoagulant-effects-assessment-of-thrombosis-biomarkers-in-healthy-volunteers
#11
Michael Schmohl, Stephan Glund, Akiko Harada, Susumu Imazu, Marina De Smet, Viktoria Moschetti, Steven Ramael, Ippei Ikushima, Fredrik Grünenfelder, Paul Reilly, Joachim Stangier
Idarucizumab, a humanised monoclonal antibody fragment, binds dabigatran with high affinity and immediately, completely and sustainably reverses dabigatran-induced changes on blood coagulation. The present analysis focuses on the evaluation of potential procoagulant properties of idarucizumab when administered in the absence of dabigatran. As part of two Phase I studies conducted in healthy Caucasian and Japanese male volunteers, the effect of idarucizumab (8 g as a 1-hour [h] infusion and 4 g as a 5-minute [min] infusion) and placebo on calibrated automated thrombography (CAT) was assessed using platelet-poor plasma samples...
December 1, 2016: Thrombosis and Haemostasis
https://www.readbyqxmd.com/read/27904853/effects-of-postoperative-parenteral-nutrition-with-different-lipid-emulsions-in-patients-undergoing-major-abdominal-surgery
#12
Seher Demirer, Ali Sapmaz, Ahmet Serdar Karaca, Ilknur Kepenekci, Semih Aydintug, Deniz Balci, Pinar Sonyurek, Kenan Kose
PURPOSE: This study was designed to investigate the effects of total parenteral nutrition (PN) using different lipid emulsions in patients undergoing major abdominal surgery. METHODS: Fifty-two patients were randomized to receive soybean oil + medium chain triglycerides (MCT) (group I), soybean oil + olive oil (group II), soybean oil + olive oil + fish oil (group III) as a lipid source. PN was started on postoperative day 1 and patients were maintained on PN for a minimum period of 4 days...
December 2016: Annals of Surgical Treatment and Research
https://www.readbyqxmd.com/read/27904094/design-and-synthesis-of-functional-molecules-based-on-complexation-and-their-biological-applications
#13
Yosuke Hisamatsu
 In this review, we introduce the development of supermolecules, host-guest complexes, and metal complexes formed from the combination of non-covalent interactions and/or coordination bonds, as well as their biological applications. An adenine selective host molecule 1 provides a correctly oriented array of complementary hydrogen bonding sites for the adenine nucleobase. Furthermore, the new DDAA (D: hydrogen bond donor, A: hydrogen bond acceptor) module 4 and ADDA module 7 have been developed as quadruple hydrogen-bonding modules...
2016: Yakugaku Zasshi: Journal of the Pharmaceutical Society of Japan
https://www.readbyqxmd.com/read/27903463/her2-transmembrane-mutations-v659-g660-that-stabilize-homo-and-hetero-dimerization-are-rare-oncogenic-drivers-in-lung-adenocarcinoma-that-respond-to-afatinib
#14
Sai-Hong Ignatius Ou, Alexa B Schrock, Eduard V Bocharov, Samuel J Klempner, Carolina Kawamura Haddad, Gary Steinecker, Melissa Johnson, Barbara J Gitlitz, Jon Chung, Paulo V Campregher, Jeffrey S Ross, Philip J Stephens, Vincent A Miller, James H Suh, Siraj M Ali, Vamsidhar Velcheti
INTRODUCTION: HER2 transmembrane domain (TMD) mutations (HER2(V659E), HER2(G660D)) have previously been identified in lung adenocarcinomas, but their frequency and clinical significance is unknown. METHODS: We prospectively analyzed 8,551 consecutive lung adenocarcinomas using hybrid-capture based comprehensive genomic profiling (CGP) at the request of the individual treating physicians for the purpose of making therapy decisions. RESULTS: We identified 15 cases (0...
November 26, 2016: Journal of Thoracic Oncology
https://www.readbyqxmd.com/read/27900321/genome-wide-transcriptional-regulation-and-chromosome-structural-arrangement-by-galr-in-e-coli
#15
Zhong Qian, Andrei Trostel, Dale E A Lewis, Sang Jun Lee, Ximiao He, Anne M Stringer, Joseph T Wade, Thomas D Schneider, Tim Durfee, Sankar Adhya
The regulatory protein, GalR, is known for controlling transcription of genes related to D-galactose metabolism in Escherichia coli. Here, using a combination of experimental and bioinformatic approaches, we identify novel GalR binding sites upstream of several genes whose function is not directly related to D-galactose metabolism. Moreover, we do not observe regulation of these genes by GalR under standard growth conditions. Thus, our data indicate a broader regulatory role for GalR, and suggest that regulation by GalR is modulated by other factors...
2016: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/27894116/intrarenal-vascular-resistance-is-associated-with-a-prothrombotic-state-in-hypertensive-patients
#16
Cristiana Catena, GianLuca Colussi, Marileda Novello, Valentina Fagotto, Leonardo A Sechi
BACKGROUND/AIMS: Hypertensive nephroangiosclerosis is associated with progressive increase of intrarenal vascular resistance. In addition to blood pressure, other factors can contribute to hypertensive renal damage including a prothrombotic state. We investigated the relationship between hemostatic markers and intrarenal vascular resistance in hypertension. METHODS: In 115 untreated, nondiabetic, hypertensive subjects free of cardiovascular complications and advanced renal function impairment, we measured 24-hour creatinine clearance (GFR) and urinary albumin excretion (UAE), fasting plasma glucose, HOMA-index, and plasma levels of fibrinogen, D-dimer, prothrombin fragment 1+2, plasminogen activator inhibitor-1, homocysteine, and lipoprotein(a)...
November 29, 2016: Kidney & Blood Pressure Research
https://www.readbyqxmd.com/read/27889551/endothelial-dysfunction-and-cardiovascular-risk-factors-in-childhood-acute-lymphoblastic-leukemia-survivors
#17
Paola Giordano, Paola Muggeo, Maurizio Delvecchio, Santa Carbonara, Alberto Romano, Maria Altomare, Gabriella Ricci, Federica Valente, Annapaola Zito, Pietro Scicchitano, Luciano Cavallo, Marco Matteo Ciccone, Nicola Santoro, Maria Felicia Faienza
BACKGROUND: Childhood acute lymphoblastic leukemia (ALL) survivors have increased risk of obesity, metabolic alterations and cardiovascular disease (CVD). Vascular endothelial function has been studied in adult cancers. Limited data exist regarding CVD risk factors among childhood ALL survivors. We aimed to assess endothelial function, metabolic and cardiovascular risk factors in young survivors of childhood ALL. METHODS: Auxological parameters, blood pressure, glucose, lipid profile, hemostatic markers (total adiponectin and high-molecular-weight subfraction, endothelin-1, von Willebrand factor antigen, thrombin-antithrombin complex, D-dimers, fibrinogen), high sensitive C-reactive protein and ultrasound parameters of endothelial function (flow-mediated dilation-FMD, common carotid intima-media thickness-C-IMT, and antero-posterior diameter of infra-renal abdominal aorta-APAO) were assessed in 52 ALL survivors and 34 sex and age-matched controls...
November 9, 2016: International Journal of Cardiology
https://www.readbyqxmd.com/read/27887965/muropeptide-signature-of-inhibitors-of-protein-synthesis-correlates-with-%C3%AE-lactam-synergism-against-methicillin-resistant-staphylococcus-aureus
#18
Bertrand Guignard, Paul A Majcherczyk, Cédric Monachon, Jacques Vouillamoz, Philippe Moreillon
Quinupristin/dalfopristin (Q/D) and β-lactams interact positively against methicillin-resistant Staphylococcus aureus (MRSA). The effect extends to other inhibitors of protein synthesis, but not to inhibitors of polynucleotide synthesis or assembly, or to Q/D plus non-β-lactam cell wall inhibitors. Moreover, electron microscopy studies have correlated this effect with a thickened cell wall. In this study, we sought to determine whether inhibitors of protein synthesis might produce a specific peptidoglycan muropeptide signature that would correlate with their positive β-lactam interaction...
November 16, 2016: International Journal of Antimicrobial Agents
https://www.readbyqxmd.com/read/27885107/a-systematic-review-of-clinical-prediction-scores-for-deep-vein-thrombosis
#19
REVIEW
Marina Kafeza, Joseph Shalhoub, Nina Salooja, Lucy Bingham, Konstantina Spagou, Alun H Davies
OBJECTIVE: Diagnosis of deep vein thrombosis remains a challenging problem. Various clinical prediction rules have been developed in order to improve diagnosis and decision making in relation to deep vein thrombosis. The purpose of this review is to summarise the available clinical scores and describe their applicability and limitations. METHODS: A systematic search of PubMed, MEDLINE and EMBASE databases was conducted in accordance with Preferred Reporting Items for Systematic Reviews and Meta-Analyses guidance using the keywords: clinical score, clinical prediction rule, risk assessment, clinical probability, pretest probability, diagnostic score and medical Subject Heading terms: 'Venous Thromboembolism/diagnosis' OR 'Venous Thrombosis/diagnosis'...
November 24, 2016: Phlebology
https://www.readbyqxmd.com/read/27885044/blood-clotting-behavior-is-innately-modulated-in-ursus-americanus-during-early-and-late-denning-relative-to-summer-months
#20
Tinen L Iles, Timothy G Laske, David L Garshelis, Paul A Iaizzo
Remarkably, American black bears (Ursus Americanus) are capable of varying their heart rates to coincide with their breathing, creating pauses of 30 seconds or more, yet they do not appear to suffer from embolic events. We evaluated some features of the clotting cascade of black bears, providing novel insights on the underlying mechanisms they evoke for embolic protection during hibernation.We measured activated clotting times, prothrombin times, and activated partial thromboplastin times during early-denning (December), late-denning (March), and summer (August)...
November 24, 2016: Journal of Experimental Biology
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