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https://www.readbyqxmd.com/read/28453576/a-novel-framework-for-the-identification-of-drug-target-proteins-combining-stacked-auto-encoders-with-a-biased-support-vector-machine
#1
Qi Wang, YangHe Feng, JinCai Huang, TengJiao Wang, GuangQuan Cheng
The identification of drug target proteins (IDTP) plays a critical role in biometrics. The aim of this study was to retrieve potential drug target proteins (DTPs) from a collected protein dataset, which represents an overwhelming task of great significance. Previously reported methodologies for this task generally employ protein-protein interactive networks but neglect informative biochemical attributes. We formulated a novel framework utilizing biochemical attributes to address this problem. In the framework, a biased support vector machine (BSVM) was combined with the deep embedded representation extracted using a deep learning model, stacked auto-encoders (SAEs)...
2017: PloS One
https://www.readbyqxmd.com/read/28449392/osmotic-stress-decreases-complexity-underlying-the-electrophysiological-dynamic-in-soybean
#2
G F R Saraiva, A S Ferreira, G M Souza
Research rationale: Studies on plant electrophysiology are mostly focused on specific traits of single cells. Inspired by the complexity of the signaling network in plants and by analogies with neurons in human brains, we have sought for evidences of high complexity in the electrical dynamics of plant signaling and a likely relation with environmental cues. Central methods: An EEG-like standard protocol was adopted for high-resolution measurements of the electrical signal in Glycine max seedlings. The signals were continuously recorded in the same plants before and after the osmotic stimuli with a -2 MPa mannitol solution...
April 27, 2017: Plant Biology
https://www.readbyqxmd.com/read/28448513/outdoor-activity-and-myopia-progression-in-4-year-follow-up-of-chinese-primary-school-children-the-beijing-children-eye-study
#3
Yin Guo, Li Juan Liu, Ping Tang, Yan Yun Lv, Yi Feng, Liang Xu, Jost B Jonas
PURPOSE: To investigate factors associated with ocular axial elongation and myopia progression during a 4-year follow-up in primary school children in Beijing. METHODS: This school-based study included 382 grade-1 children at baseline in 2011 (age:6.3±0.4 years) with 305 (79.8%) returning for the follow-up examination in 2015. At baseline and in yearly follow-up examinations, the children underwent a comprehensive eye examination including auto-refractometry, ocular biometry with measurement of axial length, and fundus photography...
2017: PloS One
https://www.readbyqxmd.com/read/28447876/intrinsic-mesenchymal-stem-cell-dysfunction-in-diabetes-mellitus-implications-for-autologous-cell-therapy
#4
Mari van de Vyver
Mesenchymal stem cells derived from bone marrow (BM-MSCs) have multi-functional properties that have made them a promising therapeutic agent for many regenerative, anti-inflammatory, and auto-immune applications. Under chronic pathological conditions, however, BM-MSCs can become functionally compromised due to long term exposure to changes in the systemic and localized stem cell niche micro-environments. In addition to the fact that functionally compromised BM-MSCs may be therapeutically ineffective, the impairment of BM-MSCs is potentially a contributing factor to disease progression and the development of co-morbidities...
April 27, 2017: Stem Cells and Development
https://www.readbyqxmd.com/read/28447402/is-extra-glandular-organ-damage-in-primary-sj%C3%A3-gren-s-syndrome-related-to-the-presence-of-systemic-auto-antibodies-and-or-hypergammaglobulinemia-a-long-term-cohort-study-with-110-patients-from-the-netherlands
#5
Evert-Jan Ter Borg, Johannes Cornelis Kelder
AIM: To test the hypothesis that systemic auto-antibodies or hypergammaglobulinemia are related to the prevalence of extra-glandular tissue organ damage (EGOD) in primary Sjögren's syndrome (SS). METHODS: A real practice-based investigation of a relatively large (n = 110) Dutch cohort of primary SS patients systematically followed up in a large non-academic hospital. RESULTS: After a follow up of mean 8.2 years a significant correlation was found between disease duration and the prevalence of EGOD...
April 26, 2017: International Journal of Rheumatic Diseases
https://www.readbyqxmd.com/read/28446863/peptides-as-quorum-sensing-molecules-measurement-techniques-and-obtained-levels-in-vitro-and-in-vivo
#6
REVIEW
Frederick Verbeke, Severine De Craemer, Nathan Debunne, Yorick Janssens, Evelien Wynendaele, Christophe Van de Wiele, Bart De Spiegeleer
The expression of certain bacterial genes is regulated in a cell-density dependent way, a phenomenon called quorum sensing. Both Gram-negative and Gram-positive bacteria use this type of communication, though the signal molecules (auto-inducers) used by them differ between both groups: Gram-negative bacteria use predominantly N-acyl homoserine lacton (AHL) molecules (autoinducer-1, AI-1) while Gram-positive bacteria use mainly peptides (autoinducer peptides, AIP or quorum sensing peptides). These quorum sensing molecules are not only involved in the inter-microbial communication, but can also possibly cross-talk directly or indirectly with their host...
2017: Frontiers in Neuroscience
https://www.readbyqxmd.com/read/28446439/pax3-foxo1-establishes-myogenic-super-enhancers-and-confers-bet-bromodomain-vulnerability
#7
Berkley E Gryder, Marielle E Yohe, Hsien-Chao Chou, Xiaohu Zhang, Joana Marques, Marco Wachtel, Beat Schaefer, Nirmalya Sen, Young K Song, Alberto Gualtieri, Silvia Pomella, Rossella Rota, Abigail Cleveland, Xinyu Wen, Sivasish Sindiri, Jun S Wei, Frederic G Barr, Sudipto Das, Thorkell Andresson, Rajarshi Guha, Madhu Lal-Nag, Marc Ferrer, Jack F Shern, Keji Zhao, Craig J Thomas, Javed Khan
Alveolar rhabdomyosarcoma is a life-threatening myogenic cancer of children and adolescent young adults, driven primarily by the chimeric transcription factor PAX3-FOXO1 (P3F). The mechanisms by which P3F dysregulates chromatin are unknown. We find P3F reprograms the cis-regulatory landscape by inducing (de novo) super enhancers (SEs). P3F uses SEs to setup auto-regulatory loops in collaboration with master transcription factors MYOG, MYOD and MYCN. This myogenic SE circuitry is consistent across cell lines and primary tumors...
April 26, 2017: Cancer Discovery
https://www.readbyqxmd.com/read/28446142/differences-in-peripheral-myelin-antigen-specific-t-cell-responses-and-t-memory-subsets-in-atypical-versus-typical-cidp
#8
M Staudt, J M Diederich, C Meisel, A Meisel, J Klehmet
BACKGROUND: Chronic inflammatory demyelinating polyneuropathy (CIDP) is presented by a large heterogeneity of clinical phenotypes. Around 50% of patients suffer from typical CIDP and show better therapy response than atypical variants. The goal of our study was to search for cellular immunological differences in typical versus atypical CIDP in comparison to controls. METHODS: We evaluated 26 (9 typical, 17 atypical) patients with mainly active-unstable CIDP using clinical and immunological examinations (enzyme-linked immunospot assay ELISPOT, fluorescence-activated cell sorting FACS) in comparison to 28 healthy, age-matched controls (HC)...
April 26, 2017: BMC Neurology
https://www.readbyqxmd.com/read/28445774/voxresnet-deep-voxelwise-residual-networks-for-brain-segmentation-from-3d-mr-images
#9
REVIEW
Hao Chen, Qi Dou, Lequan Yu, Jing Qin, Pheng-Ann Heng
Segmentation of key brain tissues from 3D medical images is of great significance for brain disease diagnosis, progression assessment and monitoring of neurologic conditions. While manual segmentation is time-consuming, laborious, and subjective, automated segmentation is quite challenging due to the complicated anatomical environment of brain and the large variations of brain tissues. We propose a novel voxelwise residual network (VoxResNet) with a set of effective training schemes to cope with this challenging problem...
April 23, 2017: NeuroImage
https://www.readbyqxmd.com/read/28444801/comprehensive-identification-and-structural-characterization-of-target-components-from-gelsemium-elegans-by-high-performance-liquid-chromatography-coupled-with-quadruopole-time-of-flight-mass-spectrometry-based-on-accurate-mass-databases-combined-with-ms-ms
#10
Yan-Chun Liu, Sa Xiao, Kun Yang, Li Ling, Zhi-Liang Sun, Zhao-Ying Liu
This study reports an applicable analytical strategy of comprehensive identification and structure characterization of target components from Gelsemium elegans by using high-performance liquid chromatography quadruopole time-of-flight mass spectrometry (LC-QqTOF MS) based on the use of accurate mass databases combined with MS/MS spectra. The databases created included accurate masses and elemental compositions of 204 components from Gelsemium and their structural data. The accurate MS and MS/MS spectra were acquired through data-dependent auto MS/MS mode followed by an extraction of the potential compounds from the LC-QqTOF MS raw data of the sample...
April 26, 2017: Journal of Mass Spectrometry: JMS
https://www.readbyqxmd.com/read/28444525/comparison-of-biometric-measurements-obtained-by-the-verion-image-guided-system-versus-the-auto-refracto-keratometer
#11
Cecilio Velasco-Barona, Guadalupe Cervantes-Coste, Erick Mendoza-Schuster, Claudia Corredor-Ortega, Nadia L Casillas-Chavarín, Alejandro Silva-Moreno, Manuel Garza-León, Roberto Gonzalez-Salinas
PURPOSE: To compare the biometric measurements obtained from the Verion Image-Guided System to those obtained by auto-refracto-keratometer in normal eyes. METHODS: This is a prospective, observational, comparative study conducted at the Asociación para Evitar la Ceguera en México I.A.P., Mexico. Three sets of keratometry measurements were obtained using the image-guided system to assess the coefficient of variation, the within-subject standard deviation and intraclass correlation coefficient (ICC)...
April 25, 2017: International Ophthalmology
https://www.readbyqxmd.com/read/28442530/breach-of-autoreactive-b-cell-tolerance-by-post-translationally-modified-proteins
#12
Jacqueline S Dekkers, Marije K Verheul, Jeroen N Stoop, Bisheng Liu, Andreea Ioan-Facsinay, Peter A van Veelen, Arnoud H de Ru, George M C Janssen, Martin Hegen, Steve Rapecki, Tom W J Huizinga, Leendert A Trouw, René E M Toes
OBJECTIVES: Over 50% of patients with rheumatoid arthritis (RA) harbour a variety of anti-modified protein antibodies (AMPA) against different post-translationally modified (PTM) proteins, including anti-carbamylated protein (anti-CarP) antibodies. At present, it is unknown how AMPA are generated and how autoreactive B cell responses against PTM proteins are induced. Here we studied whether PTM foreign antigens can breach B cell tolerance towards PTM self-proteins. METHODS: Serum reactivity towards five carbamylated proteins was determined for 160 patients with RA and 40 healthy individuals...
April 25, 2017: Annals of the Rheumatic Diseases
https://www.readbyqxmd.com/read/28442426/identification-of-a-wza-like-gene-involved-in-capsule-biosynthesis-pathogenicity-and-biofilm-formation-in-riemerella-anatipestifer
#13
Haibo Yi, Biao Yuan, Jibin Liu, Dekang Zhu, Ying Wu, Mingshu Wang, Renyong Jia, Kunfeng Sun, Qiao Yang, Shun Chen, Mafeng Liu, Xiaoyue Chen, Anchun Cheng
Duck infectious serositis is the most serious bacterial disease of ducks. It is caused by Riemerella anatipestifer (RA) infection. The capsule plays an important role in virulence of many pathogenic bacteria. In addition, the capsule has some key biological features. However, few studies have explored the characteristics of the RA capsule. In this study, we mainly constructed a capsular mutants of RA by inactivating the wza gene using homologous recombination. We found that the mutant was failed to produce a capsule layer...
April 22, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28439741/effect-of-victimization-on-impulse-control-and-binge-drinking-among-serious-juvenile-offenders-from-adolescence-to-young-adulthood
#14
Jordan P Davis, Tara M Dumas, Benjamin L Berey, Gabriel J Merrin, Joseph R Cimpian, Brent W Roberts
A vast literature has found longitudinal effects of early life stress on substance use and self-regulatory processes. These associations may vary by period-specific development among youth involved in the juvenile justice system. The current study used an accelerated longitudinal design and auto-regressive latent trajectory with structure residuals (ALT-SR) model to examine the within-person cross-lagged associations between binge drinking, impulse control, and victimization from 15 to 25 years of age. A large sample (N = 1100) of justice-involved youth were followed longitudinally for 7 years (M age baseline  = 15...
April 24, 2017: Journal of Youth and Adolescence
https://www.readbyqxmd.com/read/28438569/methylprednisolone-liver-toxicity-a-new-case-and-a-french-regional-pharmacovigilance-survey
#15
Jérôme Dumortier, Judith Cottin, Caroline Lavie, Olivier Guillaud, Valérie Hervieu, Christine Chambon-Augoyard, Jean-Yves Scoazec, Sandra Vukusic, Thierry Vial
Reported hepatotoxicity induced by corticosteroids is very rare, and the diagnosis is highly challenging in the context of auto-immune disease. We report here a case of high-dose methylprednisolone (MP)-induced acute hepatitis confirmed by liver histology in a patient with multiple sclerosis (MS) and a case series (n=4) notified to the French Pharmacovigilance center of Lyon. In all 5 cases, other common causes of hepatitis were excluded. The causal relationship with MP pulse therapy was supported by the fact that MP was the only culprit drug...
April 21, 2017: Clinics and Research in Hepatology and Gastroenterology
https://www.readbyqxmd.com/read/28436846/efficient-2d-and-3d-facade-segmentation-using-auto-context
#16
Raghudeep Gadde, Varun Jampani, Renaud Marlet, Peter Gehler
This paper introduces a fast and efficient segmentation technique for 2D images and 3D point clouds of building facades. Facades of buildings are highly structured and consequently most methods that have been proposed for this problem aim to make use of this strong prior information. Contrary to most prior work, we are describing a system that is almost domain independent and consists of standard segmentation methods. We train a sequence of boosted decision trees using auto-context features. This is learned using stacked generalization...
April 24, 2017: IEEE Transactions on Pattern Analysis and Machine Intelligence
https://www.readbyqxmd.com/read/28436843/fabrication-and-performance-of-a-miniaturized-and-integrated-endoscope-ultrasound-convex-array-for-digestive-tract-imaging
#17
Jue Peng, Xiaojian Peng, Hu Tang, Xiaozhen Li, Ruimin Chen, Yang Li, Tianfu Wang, Siping Chen, Koping Shung, Qifa Zhou
OBJECTIVE: This work presents the design, fabrication and testing of a miniaturized and integrated ultrasound endoscope for use as an in situ digestive diagnostic device to facilitate real-time ultrasound guidance of intervention treatments. METHODS: We designed an optimal structure to integrate an auto-focus 5-megapixel camera module with an 8-MHz, 64-element curvilinear ultrasonic array in one miniaturized package. A novel three-axis auto-focusing voice coil motor (VCM) was designed and manufactured for the camera module to move the lens position for auto-focusing and to adjust the lens tilt...
April 24, 2017: IEEE Transactions on Bio-medical Engineering
https://www.readbyqxmd.com/read/28436505/well-defined-functional-mesoporous-silica-polymer-hybrids-prepared-by-an-icar-atrp-technique-integrated-with-bio-inspired-polydopamine-chemistry-for-lithium-isotope-separation
#18
Yuekun Liu, Xuegang Liu, Gang Ye, Yang Song, Fei Liu, Xiaomei Huo, Jing Chen
Mesoporous silica/polymer hybrids with well-preserved mesoporosity were prepared by integrating the initiators for continuous activator regeneration (ICAR) atom transfer radical polymerization (ATRP) technique with the bio-inspired polydopamine (PDA) chemistry. By manipulating the auto-oxidative polymerization of dopamine, uniform PDA layers were deposited on the surfaces and pore walls of ordered mesoporous silicas (OMSs), thereby promoting the immobilization of ATRP initiators. Poly(glycidyl methacrylate) (PGMA) brushes were then grown from the OMSs by using the ICAR ATRP technique...
April 24, 2017: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/28436222/influence-of-nitric-acid-on-the-helium-ion-radiolysis-of-aqueous-butanal-oxime-solutions
#19
Amaury Costagliola, Laurent Venault, Arnaud Deroche, Jackie Vermeulen, Florian Duval, Guillaume Blain, Johan Vandenborre, Massoud Fattahi-Vanani, Nicolas Vigier
Samples of butanal oxime in aqueous nitric acid solutions have been irradiated with the helium ion (4He2+) beam of the CEMHTI (Orléans, France) cyclotrons. The consumption yield of butanal oxime has been measured by gas-chromatography coupled with mass spectrometry. Gaseous products (mainly H2 and N2O) have also been monitored by micro gas-chromatography. Yields of liquid phase products (hydrogen peroxide and nitrous acid) have been determined by colorimetric methods. The influence of nitric acid on the radiation chemical behavior of butanal oxime depends on the nitric acid concentration...
April 24, 2017: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/28436004/engineering-of-an-h2-o2-auto-scavenging-in-vivo-cascade-for-pinoresinol-production
#20
Yongkun Lv, Xiaozhong Cheng, Guocheng Du, Jingwen Zhou, Jian Chen
Pinoresinol is a natural lignan with a high market value that has potential pharmacological and food supplement applications. Pinoresinol is currently isolated from plants, which suffers from low efficiency and yield. To produce pinoresinol from inexpensive and industrially available eugenol, an in vivo enzymatic cascade composed of vanillyl alcohol oxidase and peroxidase was designed, which scavenges H2 O2 automatically and eliminates protein purification and cofactor addition. Two peroxidases were screened and identified from Escherichia coli BL21 (DE3), and tested in the enzymatic cascade...
April 24, 2017: Biotechnology and Bioengineering
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