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https://www.readbyqxmd.com/read/29228516/refining-prediction-in-treatment-resistant-depression-results-of-machine-learning-analyses-in-the-trd-iii-sample
#1
Alexander Kautzky, Markus Dold, Lucie Bartova, Marie Spies, Thomas Vanicek, Daniel Souery, Stuart Montgomery, Julien Mendlewicz, Joseph Zohar, Chiara Fabbri, Alessandro Serretti, Rupert Lanzenberger, Siegfried Kasper
OBJECTIVE: The study objective was to generate a prediction model for treatment-resistant depression (TRD) using machine learning featuring a large set of 47 clinical and sociodemographic predictors of treatment outcome. METHOD: 552 Patients diagnosed with major depressive disorder (MDD) according to DSM-IV criteria were enrolled between 2011 and 2016. TRD was defined as failure to reach response to antidepressant treatment, characterized by a Montgomery-Asberg Depression Rating Scale (MADRS) score below 22 after at least 2 antidepressant trials of adequate length and dosage were administered...
December 5, 2017: Journal of Clinical Psychiatry
https://www.readbyqxmd.com/read/29228474/controlled-electrospray-generation-of-non-spherical-alginate-microparticles
#2
Morteza Jeyhani, Sze Yi Mak, Stephen Sammut, Ho Cheung Shum, Dae Kun Hwang, Scott Tsai
Electrospraying is a technique used to generate microparticles in a high throughput manner. For biomedical applications, a biocompatible electrosprayed material is often desirable. Using polymers, such as alginate hydrogels, makes it possible to create biocompatible and biodegradable microparticles that can be used for cell encapsulation, to be employed as drug carriers, and for use in 3D cell culturing. Evidence in the literature suggests that the morphology of the biocompatible microparticles is relevant in controlling the dynamics of the microparticles in drug delivery and 3D cell culturing applications...
December 11, 2017: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
https://www.readbyqxmd.com/read/29228471/mass-spectrometry-for-protein-sialoglycosylation
#3
REVIEW
Qiwei Zhang, Zack Li, Yawei Wang, Qi Zheng, Jianjun Li
Sialic acids are a family of structurally unique and negatively charged nine-carbon sugars, normally found at the terminal positions of glycan chains on glycoproteins and glycolipids. The glycosylation of proteins is a universal post-translational modification in eukaryotic species and regulates essential biological functions, in which the most common sialic acid is N-acetyl-neuraminic acid (2-keto-5-acetamido-3,5-dideoxy-D-glycero-D-galactononulopyranos-1-onic acid) (Neu5NAc). Because of the properties of sialic acids under general mass spectrometry (MS) conditions, such as instability, ionization discrimination, and mixed adducts, the use of MS in the analysis of protein sialoglycosylation is still challenging...
December 11, 2017: Mass Spectrometry Reviews
https://www.readbyqxmd.com/read/29228454/new-semiparametric-method-for-predicting-high-cost-patients
#4
Adam Maidman, Lan Wang
Motivated by the Medical Expenditure Panel Survey containing data from individuals' medical providers and employers across the United States, we propose a new semiparametric procedure for predicting whether a patient will incur high medical expenditure. Problems of the same nature arise in many other important applications where one would like to predict if a future response occurs at the upper (or lower) tail of the response distribution. The common practice is to artificially dichotomize the response variable and then apply an existing classification method such as binomial regression or a classification tree...
December 11, 2017: Biometrics
https://www.readbyqxmd.com/read/29228445/the-protective-effect-and-its-mechanism-of-3-n-butylphthalide-pretreatment-on-cerebral-ischemia-reperfusion-injury-in-rats
#5
R-Y Yan, S-J Wang, G-T Yao, Z-G Liu, N Xiao
OBJECTIVE: To investigate the potential effect of 3-n-butylphthalide (NBP) pretreatment on the cerebral ischemia/reperfusion injury in rats and the relevant mechanism. MATERIALS AND METHODS: A total of 90 rats was divided into three groups: Sham operation group (Sham group), ischemia-reperfusion group (I-R group), and NBP pretreatment group (NBP group 75 mg·kg-1·d-1 gavage). Pre-treatment was given once a day within 1 week before establishing the rat model of cerebral ischemia-reperfusion injury...
November 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29228441/correlation-between-individual-inflammation-genetic-profile-and-platelet-rich-plasma-efficacy-in-hair-follicle-regeneration-a-pilot-study-reveals-prognostic-value-of-il-1a-polymorphism
#6
F Rossano, S Di Martino, L Iodice, M Di Paolo, S Misso, R Tomeo, A M Marini, R Brugnone, S Marlino, A Santorelli, R Di Francia
OBJECTIVE: Hair loss generates severe psychosocial implications. To date, exploring the prognostic factors of possible clinical benefit of autologous blood concentrate platelet rich plasma (PRP) was failed. The aim of our pilot study was to explore the correlation between the individual inflammation genetic profile and PRP efficacy in the treatment of hair follicle regeneration. PATIENTS AND METHODS: 41 volunteers (25 men, 16 women) took part in this retrospective study...
November 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29228430/mediation-of-inflammation-obesity-and-fatty-liver-disease-by-advanced-glycation-endoproducts
#7
D-D Xiong, M Zhang, N Li, J-F Gai, L Mao, M Li
OBJECTIVE: Fatty liver may induce various complications including chronic hepatitis or liver cirrhosis, and is frequently occurred in obesity individuals. Advanced glycosylation end products (AGEs) were known to play a critical role in multiple liver diseases. This study, therefore, aimed to study the effect of AGEs on obesity, related liver cirrhosis and inflammation, on an obesity fatty liver rat model. MATERIALS AND METHODS: A total of 60 Sprague Dawley (SD) rats were randomly divided into control, model and AGEs inhibitor groups (n=20 each)...
November 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29228372/a-novel-tomographic-imaging-probe-for-rapid-diagnosis-of-fungal-keratitis
#8
Min Hee Lee, Gregory Wiedman, Steven Park, Arkady Mustaev, Yanan Zhao, David S Perlin
Fungal keratitis is a leading cause of ocular morbidity and blindness in developing countries. Diagnosing fungal keratitis currently relies on a comparative evaluation of corneal biopsy or scraping using a direct microscopy and culture results. These methods not only carry the risk of developing complications due to the invasive tissue sampling but also are largely limited by diagnostic speed and accuracy, making it difficult to initiate timely appropriate antifungal therapy. Therefore, rapid and noninvasive diagnostic tools are a pressing need for improved outcomes for fungal keratitis...
December 8, 2017: Medical Mycology: Official Publication of the International Society for Human and Animal Mycology
https://www.readbyqxmd.com/read/29228340/hydrophobicity-diversity-in-globular-and-nonglobular-proteins-measured-with-the-gini-index
#9
Oliviero Carugo
Amino acids and their properties are variably distributed in proteins and different compositions determine all protein features, ranging from solubility to stability and functionality. Gini index, a tool to estimate distribution uniformity, is widely used in macroeconomics and has numerous statistical applications. Here, Gini index is used to analyze the distribution of hydrophobicity in proteins and to compare hydrophobicity distribution in globular and intrinsically disordered proteins. Based on the analysis of carefully selected high-quality data sets of proteins extracted from the Protein Data Bank (http://www...
December 5, 2017: Protein Engineering, Design & Selection: PEDS
https://www.readbyqxmd.com/read/29228337/triplex-forming-oligonucleotides-a-third-strand-for-dna-nanotechnology
#10
Arun Richard Chandrasekaran, David A Rusling
DNA self-assembly has proved to be a useful bottom-up strategy for the construction of user-defined nanoscale objects, lattices and devices. The design of these structures has largely relied on exploiting simple base pairing rules and the formation of double-helical domains as secondary structural elements. However, other helical forms involving specific non-canonical base-base interactions have introduced a novel paradigm into the process of engineering with DNA. The most notable of these is a three-stranded complex generated by the binding of a third strand within the duplex major groove, generating a triple-helical ('triplex') structure...
December 8, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29228312/susceptibility-of-lobesia-botrana-lepidoptera-tortricidae-to-chlorantraniliprole-in-the-emilia-romagna-region-of-northeast-italy
#11
Stefano Pasquini, Marie Odile Haxaire-Lutun, Jean-Luc Rison, Wilbert G Flier, Luis A Teixeira
The European grapevine moth, Lobesia botrana (Denis & Schiffermüller) (Lepidoptera: Tortricidae), is regarded as the most important insect pest of wine grapes in Europe. If not properly controlled, it can cause significant direct and indirect yield losses due to secondary infections of grape berries by Botrytis cinerea. For these reasons, it is important to preserve the activity of insecticides used against this pest, as the number of insecticidal mode of actions available to control Lepidoptera species on wine grapes in Europe is limited...
December 8, 2017: Journal of Economic Entomology
https://www.readbyqxmd.com/read/29228311/a-new-method-for-post-translationally-labeling-proteins-in-live-cells-for-fluorescence-imaging-and-tracking
#12
M Hinrichsen, M Lenz, J M Edwards, O K Miller, S G J Mochrie, P S Swain, U Schwarz-Linek, L Regan
We present a novel method to fluorescently label proteins, post-translationally, within live Saccharomycescerevisiae. The premise underlying this work is that fluorescent protein (FP) tags are less disruptive to normal processing and function when they are attached post-translationally, because target proteins are allowed to fold properly and reach their final subcellular location before being labeled. We accomplish this post-translational labeling by expressing the target protein fused to a short peptide tag (SpyTag), which is then covalently labeled in situ by controlled expression of an open isopeptide domain (SpyoIPD, a more stable derivative of the SpyCatcher protein) fused to an FP...
December 7, 2017: Protein Engineering, Design & Selection: PEDS
https://www.readbyqxmd.com/read/29228300/dna-synthesis-by-fragment-assembly-using-extra-cellular-dna-delivered-by-artificial-controlled-horizontal-transfer
#13
Shinya Kaneko, Hiromi Fukushima, Misako Nakahama, Satomi Asano, Yasumasa Miyazaki, Yasunori Aizawa, Mitsuhiro Itaya
DNA synthesis in the Bacillus subtilis cells has become possible using extra-cellular DNA. Generally, purified DNAs in a test tube have been required to introduce into the host cells for molecular cloning technology in the laboratory. We have developed a cell lysis technique for natural transformation using stable extra-cellular plasmid DNAs, in which the extra-cellular plasmid DNAs are released from lysed Escherichia coli cells. DNA synthesis then proceeds by fragment assembly using the stable extracellular DNAs, without biochemical purification...
December 7, 2017: Journal of Biochemistry
https://www.readbyqxmd.com/read/29228278/zinc-finger-protein-274-regulates-imprinted-expression-of-transcripts-in-prader-willi-syndrome-neurons
#14
Maéva Langouët, Heather R Glatt-Deeley, Michael S Chung, Clémence M Dupont-Thibert, Elodie Mathieux, Erin C Banda, Christopher E Stoddard, Leann Crandall, Marc Lalande
Prader-Willi syndrome (PWS) is characterized by neonatal hypotonia, developmental delay and hyperphagia/obesity and is caused by the absence of paternal contribution to chromosome 15q11-q13. Using induced pluripotent stem cell (iPSC) models of PWS, we previously discovered an epigenetic complex that is comprised of the zinc-finger protein ZNF274 and the SET domain bifurcated 1 (SETDB1) histone H3 lysine 9 (H3K9) methyltransferase and that silences the maternal alleles at the PWS locus. Here, we have knocked out ZNF274 and rescued the expression of silent maternal alleles in neurons derived from PWS iPSC lines, without affecting DNA methylation at the PWS-Imprinting Center (PWS-IC)...
December 7, 2017: Human Molecular Genetics
https://www.readbyqxmd.com/read/29228269/electroactive-haloalkaliphiles-exhibit-exceptional-tolerance-to-free-ammonia
#15
Pablo Ledezma, Yang Lu, Stefano Freguia
Electrochemical activity in bacteria has been observed in numerous environments and conditions. However, enrichments in circumneutral freshwater media where acetate is the main electron donor seem to invariably lead to the dominance of Geobacter spp. Here we report on an electroactive bacterial consortium which was enriched on acetate as electron donor, but in a medium which reproduces hydrolysed urine (high pH, high salinity and high free ammonia). The consortium was found to be free of Geobacter species, whereas a previously undescribed community dominated by species closely related to Pseudomonas and Desulfuromonas was established...
December 4, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/29228206/airway-and-hard-tissue-dimensions-in-children-treated-with-early-and-later-timed-cervical-headgear-a-randomized-controlled-trial
#16
Johanna Julku, Kirsi Pirilä-Parkkinen, Pertti Pirttiniemi
Background: A Kloehn-type cervical headgear (CH) aims to correct skeletal jaw discrepancy in Class II children. A few studies have reported CH treatment effects on airway dimensions, but none of them have been randomized according to timing. Objectives: To evaluate related craniofacial structures and pharyngeal airway dimensions in children with a Class II occlusion treated with CH and randomized into early and late treatment groups. Trial design: Randomized, parallel-group, prospective controlled trial...
December 8, 2017: European Journal of Orthodontics
https://www.readbyqxmd.com/read/29228192/quantitative-analysis-of-o2-and-fe2-profiles-in-gradient-tubes-for-cultivation-of-microaerophilic-iron-ii-oxidizing-bacteria
#17
U Lueder, G Druschel, D Emerson, A Kappler, C Schmidt
The classical approach for cultivation of neutrophilic microaerophilic Fe(II)-oxidizing bacteria are agar-based gradient tubes where these bacteria find optimal growth conditions in opposing gradients of oxygen (O2) and dissolved Fe(II) (Fe2+). The goals of this study were to quantify the temporal development of O2 and Fe2+ concentrations over time, to compare abiotic and microbially-inoculated tubes, and to test the suitability of different Fe(II)-sources for cultivation of freshwater and marine microaerophilic Fe(II)-oxidizers...
December 5, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/29228181/the-promises-of-microalgae-still-a-long-way-to-go
#18
Daniel P Kiesenhofer, Silvia Fluch
Over the past decades, interest in microalgae has grown exponentially. Especially industrial applications, such as biodiesel production from microalgae were hyped in the early 2000s. But since the first attempts to commercialize microalgae derived products for energy applications, only a few developments made it to the market. What is hindering the full exploitation of this valuable resource for food, feed, and energy applications? This opinion paper reflects on the state of the art of industrial microalgae culturing and the knowledge gaps that still need to be filled jointly by academia and industry...
December 6, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/29228175/sana-netgo-a-combinatorial-approach-to-using-gene-ontology-go-terms-to-score-network-alignments
#19
Wayne B Hayes, Nil Mamano
Motivation: Gene Ontology (GO) terms are frequently used to score alignments between protein-protein interaction (PPI) networks. Methods exist to measure GO similarity between proteins in isolation, but proteins in a network alignment are not isolated: each pairing is dependent on every other via the alignment itself. Existing measures fail to take into account the frequency of GO terms across networks, instead imposing arbitrary rules on when to allow GO terms. Results: Here we develop NetGO, a new measure that naturally weighs infrequent, informative GO terms more heavily than frequent, less informative GO terms, without arbitrary cutoffs, instead downweighting GO terms according to their frequency in the networks being aligned...
December 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29228171/gene-graphics-a-genomic-neighborhood-data-visualization-web-application
#20
Katherine J Harrison, Valérie de Crécy-Lagard, Rémi Zallot
Summary: The examination of gene neighborhood is an integral part of comparative genomics but no tools to produce publication quality graphics of gene clusters are available. Gene Graphics is a straightforward web application for creating such visuals. Supported inputs include National Center for Biotechnology Information (NCBI) gene and protein identifiers with automatic fetching of neighboring information, GenBank files and data extracted from the SEED database. Gene representations can be customized for many parameters including gene and genome names, colors and sizes...
December 7, 2017: Bioinformatics
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