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https://www.readbyqxmd.com/read/29786975/a-comparison-of-one-stage-vs-two-stage-individual-patient-data-meta-analysis-methods-a-simulation-study
#1
Evangelos Kontopantelis
BACKGROUND: Individual patient data (IPD) meta-analysis allows for the exploration of heterogeneity and can identify subgroups that most benefit from an intervention (or exposure), much more successfully than meta-analysis of aggregate data. One-stage or two-stage IPD meta-analysis is possible, with the former using mixed-effects regression models and the latter obtaining study-estimates through simpler regression models before aggregating using standard meta-analysis methodology. However, a comprehensive comparison of the two methods, in practice, is lacking...
May 22, 2018: Research Synthesis Methods
https://www.readbyqxmd.com/read/29786906/reversible-c-h-activation-facile-b-c-b-h-metathesis-and-apparent-hydroboration-catalysis-by-a-xanthene-based-frustrated-lewis-pair
#2
Petra Vasko, Ili A Zulkifly, M Ángeles Fuentes, Zhenbo Mo, Jamie Hicks, Paul C J Kämer, Simon Aldridge
A dimethylxanthene-based phosphine/borane frustrated Lewis pair (FLP) is shown to effect reversible C-H activation, cleaving phenylacetylene, PhCCH, to give an equilibrium mixture of the free FLP and phosphonium acetylide in CD₂Cl₂ solution at room temperature. This system also reacts with B-H bonds although in a different fashion: reactions with HBpin and HBcat proceed via C-B/B-H metathesis, leading to replacement of the -B(C₆F₅)₂ Lewis acid component by -Bpin/-Bcat, and transfer of HB(C₆F₅)₂ to the phosphine Lewis base...
May 22, 2018: Chemistry: a European Journal
https://www.readbyqxmd.com/read/29786897/targeted-next-generation-sequencing-for-the-diagnosis-of-patients-with-rare-congenital-anemias
#3
Noa Shefer Averbuch, Orna Steinberg-Shemer, Orly Dgany, Tanya Krasnov, Sharon Noy-Lotan, Joanne Yacobovich, Amir A Kuperman, Antonis Kattamis, Ayelet Ben Barak, Batia Roth-Jelinek, Evgeni Chubar, Evelyn Shabad, Gustavo Dufort, Martin Ellis, Ofir Wolach, Idit Pazgal, Abed Abu Quider, Hagit Miskin, Hannah Tamary
BACKGROUND: Most patients with anemia are diagnosed through clinical phenotype and basic laboratory testing. Nonetheless, in cases of rare congenital anemias, some patients remain undiagnosed despite undergoing an exhaustive workup. Genetic testing is complicated by the large number of genes involved in rare anemias and the similarities in the clinical presentation of the different syndromes. OBJECTIVE: We aimed to enhance the diagnosis of patients with congenital anemias by using targeted next-generation sequencing...
May 22, 2018: European Journal of Haematology
https://www.readbyqxmd.com/read/29786880/metagenomic-study-of-bacterial-microbiota-in-persistent-endodontic-infections-using-next-generation-sequencing
#4
G Sánchez-Sanhueza, H Bello-Toledo, G González-Rocha, A T Gonçalves, V Valenzuela, C Gallardo-Escárate
AIM: To determine the bacterial microbiota in root canals associated with persistent apical periodontitis and their relationship with the clinical characteristics of patients using next-generation sequencing (NGS). METHODOLOGY: Bacterial samples from root canals associated with teeth having persistent apical periodontitis were taken from 24 patients undergoing root canal retreatment. Bacterial DNA was extracted, and V3-V4 variable regions of the 16S rRNA gene were amplified...
May 22, 2018: International Endodontic Journal
https://www.readbyqxmd.com/read/29786868/cis-acting-allele-specific-expression-ase-differences-induced-by-alcohol-and-impacted-by-sex-as-well-as-parental-genotype-of-origin
#5
Chiao-Ling Lo, Lawrence Lumeng, Richard L Bell, Tiebing Liang, Amy C Lossie, Williams M Muir, Feng C Zhou
BACKGROUND: Alcohol use disorders (AUDs) are influenced by complex interactions between the genetics of the individual and their environment. We have previously identified hundreds of polygenic genetic variants between the selectively bred high and low alcohol drinking (HAD and LAD) rat lines. Here we report allele specific expression (ASE) differences, between the HAD2 and LAD2 rat lines. METHODS: The HAD2 and LAD2 rats which have been sequenced were reciprocally crossed to generate 10 litters of F1 progeny...
May 22, 2018: Alcoholism, Clinical and Experimental Research
https://www.readbyqxmd.com/read/29786863/acute-ammonia-toxicity-to-the-larvae-glochidia-of-the-tropical-australian-freshwater-mussel-velesunio-spp-using-a-modified-toxicity-test-protocol
#6
Linda S Kleinhenz, Melanie A Trenfield, Thomas J Mooney, Christopher L Humphrey, Rick A van Dam, Dayanthi Nugegoda, Andrew J Harford
Ammonia is recognised as a major pollutant worldwide, originating from natural and anthropogenic sources. Studies have reported that freshwater mussels are amongst the most sensitive taxa to ammonia, but there is a lack of data available on ammonia toxicity for the early life stages of freshwater mussels from tropical regions. This paper reports the modification of a 24-h acute toxicity test protocol for tropical freshwater mussels and application of the test using ammonia. Velesunio spp. from three different sites were used to assess the toxicity of ammonia at a targeted pH of 6...
May 22, 2018: Environmental Toxicology and Chemistry
https://www.readbyqxmd.com/read/29786795/protocols-for-studies-on-stromal-cells-in-prostate-cancer
#7
Damien A Leach, Grant Buchanan
Interactions between tumor cells and fibroblasts play a pivotal role in cancer development and progression. Indeed, the paracrine communication between these two cell types is known to have physiological effects that alter carcinogenic and metastatic potential. An often overlooked player in these interactions is the involvement of the extracellular matrix (ECM). The network of ECM proteins secreted from fibroblasts is reportedly altered with cancer initiation and progression, and in several cases has been associated with patient outcome...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29786783/a-xenograft-model-for-venous-malformation
#8
Jillian Goines, Xian Li, Yuqi Cai, Paula Mobberley-Schuman, Megan Metcalf, Steven J Fishman, Denise M Adams, Adrienne M Hammill, Elisa Boscolo
Vascular malformations are defects caused by the abnormal growth of the vasculature. Among them, venous malformation (VM) is an anomaly characterized by slow-flow vascular lesions with abnormally shaped veins, typically in sponge-like configuration. VMs can expand over years causing disfigurement, obstruction of vital structures, thrombosis, bleeding, and pain. Treatments have been very limited and primarily based on supportive care, compression garments, sclerotherapy, and/or surgical resection. Sirolimus treatment has recently shown efficacy in some patients with complicated vascular anomalies, including VMs...
May 21, 2018: Angiogenesis
https://www.readbyqxmd.com/read/29786756/backbone-nmr-assignments-of-hypf-n-under-conditions-generating-toxic-and-non-toxic-oligomers
#9
Jayneil R Patel, Yingqi Xu, Claudia Capitini, Fabrizio Chiti, Alfonso De Simone
The HypF protein is involved in the maturation and regulation of hydrogenases. The N-terminal domain of HypF (HypF-N) has served as a key model system to study the pathways of protein amyloid formation and the nature of the toxicity of pre-fibrilar protein oligomers. This domain can aggregate into two forms of oligomers having significantly different toxic effects when added to neuronal cultures. Here, NMR assignments of HypF-N backbone resonances are presented in its native state and under the conditions favouring the formation of toxic and non-toxic oligomers...
May 21, 2018: Biomolecular NMR Assignments
https://www.readbyqxmd.com/read/29786699/the-draft-genome-sequence-of-cork-oak
#10
António Marcos Ramos, Ana Usié, Pedro Barbosa, Pedro M Barros, Tiago Capote, Inês Chaves, Fernanda Simões, Isabl Abreu, Isabel Carrasquinho, Carlos Faro, Joana B Guimarães, Diogo Mendonça, Filomena Nóbrega, Leandra Rodrigues, Nelson J M Saibo, Maria Carolina Varela, Conceição Egas, José Matos, Célia M Miguel, M Margarida Oliveira, Cândido P Ricardo, Sónia Gonçalves
Cork oak (Quercus suber) is native to southwest Europe and northwest Africa where it plays a crucial environmental and economical role. To tackle the cork oak production and industrial challenges, advanced research is imperative but dependent on the availability of a sequenced genome. To address this, we produced the first draft version of the cork oak genome. We followed a de novo assembly strategy based on high-throughput sequence data, which generated a draft genome comprising 23,347 scaffolds and 953.3 Mb in size...
May 22, 2018: Scientific Data
https://www.readbyqxmd.com/read/29786656/temperature-effects-on-force-and-actin%C3%A2-myosin-interaction-in-muscle-a-look-back-on-some-experimental-findings
#11
REVIEW
K W Ranatunga
Observations made in temperature studies on mammalian muscle during force development, shortening, and lengthening, are re-examined. The isometric force in active muscle goes up substantially on warming from less than 10 °C to temperatures closer to physiological (>30 °C), and the sigmoidal temperature dependence of this force has a half-maximum at ~10 °C. During steady shortening, when force is decreased to a steady level, the sigmoidal curve is more pronounced and shifted to higher temperatures, whereas, in lengthening muscle, the curve is shifted to lower temperatures, and there is a less marked increase with temperature...
May 22, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29786618/acoustic-performance-of-dual-electrode-electrostatic-sound-generators-based-on-cvd-graphene-on-polyimide-film
#12
Kyoung-Ryul Lee, Sung Hwan Jang, Inhwa Jung
We investigated the acoustic performance of electrostatic sound-generating devices consisting of bilayer graphene on polyimide (PI) film. Total sound pressure level (SPL) of sound generated from the devices was measured as a function of source frequency by sweeping, and frequency spectra were measured at 1/3 octave band frequencies. The relationship between various operation conditions and total SPL was determined. In addition, the effects of changing voltage level, adding a DC offset, and using two pairs of electrodes were evaluated...
May 22, 2018: Nanotechnology
https://www.readbyqxmd.com/read/29786556/assessment-of-stem-cell-differentiation-based-on-genome-wide-expression-profiles
#13
REVIEW
Patricio Godoy, Wolfgang Schmidt-Heck, Birte Hellwig, Patrick Nell, David Feuerborn, Jörg Rahnenführer, Kathrin Kattler, Jörn Walter, Nils Blüthgen, Jan G Hengstler
In recent years, protocols have been established to differentiate stem and precursor cells into more mature cell types. However, progress in this field has been hampered by difficulties to assess the differentiation status of stem cell-derived cells in an unbiased manner. Here, we present an analysis pipeline based on published data and methods to quantify the degree of differentiation and to identify transcriptional control factors explaining differences from the intended target cells or tissues. The pipeline requires RNA-Seq or gene array data of the stem cell starting population, derived 'mature' cells and primary target cells or tissue...
July 5, 2018: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/29786465/trunk-stability-enabled-by-non-invasive-spinal-electrical-stimulation-after-spinal-cord-injury
#14
Mrinal Rath, Albert H Vette, Shyamsundar Ramasubramaniam, Kun Li, Joel Burdick, Victor Reggie Edgerton, Yury Gerasimenko, Dimitry Sayenko
Electrical neuromodulation of spinal networks improves the control of movement of the paralyzed limbs after spinal cord injury (SCI). However, the potential of non-invasive spinal stimulation to facilitate postural trunk control during sitting in humans with SCI has not been investigated. We hypothesized that transcutaneous electrical stimulation of the lumbosacral enlargement can improve trunk posture. Eight participants with non-progressive SCI, C3-T9, AIS A or C, performed different motor tasks during sitting...
May 22, 2018: Journal of Neurotrauma
https://www.readbyqxmd.com/read/29786431/ultrasonic-assisted-spin-coating-improved-junction-by-enhanced-permeation-of-coating-material-within-nanostructures
#15
Jong-Won Yun, Farman Ullah, Se-Jeong Jang, Do Hui Kim, Tri Khoa Nguyen, Ki Yeon Ryu, Shinuk Cho, Joon I Jang, Dooyong Lee, Sungkyun Park, Yong Soo Kim
Over the last decades, the spin coating (SC) technique has been widely used to prepare thin films of various materials in liquid phase on arbitrary substrates. The technique simply relies on centrifugal force to spread a coating solution radially outwards over the substrate. This mechanism works fairly well for solutions with low surface tension to form thin films of reasonable junctions on smooth substrates. Here, we present a modified SC technique, namely ultrasonic-assisted spin-coating (UASC), to form thin films of coating solution having high surface tension on rough substrates with excellent junctions...
May 22, 2018: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29786426/influence-of-enzyme-quantity-and-distribution-on-the-self-propulsion-of-non-janus-urease-powered-micromotors
#16
Tania Patiño, Natalia Feiner-Gracia, Xavier Arque, Albert Miguel-López, Anita Jannasch, Tom Stumpp, Erik Schäffer, Lorenzo Albertazzi, Samuel Sanchez
The use of enzyme catalysis to power micro and nanomachines offers unique features such as biocompatibility, versatili-ty and fuel bioavailability. Yet, the key parameters underlying the motion behavior of enzyme-powered motors are not completely understood. Here, we investigate the role of enzyme distribution and quantity on the generation of active mo-tion. Two different micromotor architectures based on either polystyrene (PS) or polystyrene coated with a rough silicon dioxide shell (PS@SiO2) were explored...
May 22, 2018: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/29786118/an-optimized-fed-batch-culture-strategy-integrated-with-a-one-step-fermentation-improves-l-lactic-acid-production-by-rhizopus-oryzae
#17
Yongqian Fu, Xiaolong Sun, Huayue Zhu, Ru Jiang, Xi Luo, Longfei Yin
In previous work, we proposed a novel modified one-step fermentation fed-batch strategy to efficiently generate L-lactic acid (L-LA) using Rhizopus oryzae. In this study, to further enhance efficiency of L-LA production through one-step fermentation in fed-batch cultures, we systematically investigated the initial peptone- and glucose-feeding approaches, including different initial peptone and glucose concentrations and maintained residual glucose levels. Based on the results of this study, culturing R. oryzae with initial peptone and glucose concentrations of 3...
May 21, 2018: World Journal of Microbiology & Biotechnology
https://www.readbyqxmd.com/read/29785975/utility-of-otoacoustic-emissions-and-olivocochlear-reflex-in-predicting-vulnerability-to-noise-induced-inner-ear-damage
#18
Sarantis Blioskas, Miltiadis Tsalighopoulos, George Psillas, Konstantinos Markou
Aim: The aim of the present study was to explore the possible utility of otoacoustic emissions (OAEs) and efferent system strength to determine vulnerability to noise exposure in a clinical setting. Materials and Methods: The study group comprised 344 volunteers who had just begun mandatory basic training as Hellenic Corps Officers Military Academy cadets. Pure-tone audiograms were obtained on both ears. Participants were also subjected to diagnostic transient-evoked otoacoustic emissions (TEOAEs)...
May 2018: Noise & Health
https://www.readbyqxmd.com/read/29785968/force-activatable-coating-enables-high-resolution-cellular-force-imaging-directly-on-regular-cell-culture-surfaces
#19
Anwesha Sarkar, Yuanchang Zhao, Yongliang Wang, Xuefeng Wang
Integrin-transmitted cellular forces are crucial mechanical signals regulating a vast range of cell functions. Although various methods have been developed to visualize and quantify cellular forces at the cell-matrix interface, a method with high performance and low technical barrier is still in demand. Here we developed force-activatable coating (FAC) which can be simply coated on regular cell culture apparatus's surfaces by physical adsorption, and turn these surfaces to force reporting platforms that enable cellular force mapping directly by fluorescence imaging...
May 22, 2018: Physical Biology
https://www.readbyqxmd.com/read/29785929/dissection-of-the-in-vitro-developmental-program-of-hammondia-hammondi-reveals-a-link-between-stress-sensitivity-and-life-cycle-flexibility-in-toxoplasma-gondii
#20
Sarah L Sokol, Abby S Primack, Sethu C Nair, Zhee S Wong, Maiwase Tembo, Shiv K Verma, Camila K Cerqueira-Cezar, J P Dubey, Jon P Boyle
Most eukaryotic parasites are obligately heteroxenous, requiring sequential infection of different host species in order to survive. Toxoplasma gondii is a rare exception to this rule, having a uniquely facultative heteroxenous life cycle. To understand the origins of this phenomenon, we compared development and stress responses in T. gondii to those of its its obligately heteroxenous relative, Hammondia hammondi and have identified multiple H. hammondi growth states that are distinct from those in T. gondii...
May 22, 2018: ELife
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