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https://www.readbyqxmd.com/read/29145712/cartilage-microrna-dysregulation-during-the-onset-and-progression-of-mouse-osteoarthritis-is-independent-of-aggrecanolysis-and-overlaps-with-candidates-from-end-stage-human-disease
#1
Louise H W Kung, Varshini Ravi, Lynn Rowley, Constanza Angelucci, Amanda J Fosang, Katrina M Bell, Christopher B Little, John F Bateman
OBJECTIVE: To identify candidate microRNAs that potentially regulate the initiation and progression of osteoarthritis. METHODS: Osteoarthritis was induced in 10-12 week old male wild-type C57BL6 mice and in mice resistant to aggrecanase cleavage (Acan p.374ALGS→374NVYS) by destabilization of the medial meniscus (DMM). Osteoarthritis pathology was scored histologically. RNA from cartilage and subchondral bone were harvested in parallel by laser micro-dissection at 1 and 6 weeks post-surgery...
November 16, 2017: Arthritis & Rheumatology
https://www.readbyqxmd.com/read/29145629/the-reactome-pathway-knowledgebase
#2
Antonio Fabregat, Steven Jupe, Lisa Matthews, Konstantinos Sidiropoulos, Marc Gillespie, Phani Garapati, Robin Haw, Bijay Jassal, Florian Korninger, Bruce May, Marija Milacic, Corina Duenas Roca, Karen Rothfels, Cristoffer Sevilla, Veronica Shamovsky, Solomon Shorser, Thawfeek Varusai, Guilherme Viteri, Joel Weiser, Guanming Wu, Lincoln Stein, Henning Hermjakob, Peter D'Eustachio
The Reactome Knowledgebase (https://reactome.org) provides molecular details of signal transduction, transport, DNA replication, metabolism, and other cellular processes as an ordered network of molecular transformations-an extended version of a classic metabolic map, in a single consistent data model. Reactome functions both as an archive of biological processes and as a tool for discovering unexpected functional relationships in data such as gene expression profiles or somatic mutation catalogues from tumor cells...
November 14, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29145615/iptmnet-an-integrated-resource-for-protein-post-translational-modification-network-discovery
#3
Hongzhan Huang, Cecilia N Arighi, Karen E Ross, Jia Ren, Gang Li, Sheng-Chih Chen, Qinghua Wang, Julie Cowart, K Vijay-Shanker, Cathy H Wu
Protein post-translational modifications (PTMs) play a pivotal role in numerous biological processes by modulating regulation of protein function. We have developed iPTMnet (http://proteininformationresource.org/iPTMnet) for PTM knowledge discovery, employing an integrative bioinformatics approach-combining text mining, data mining, and ontological representation to capture rich PTM information, including PTM enzyme-substrate-site relationships, PTM-specific protein-protein interactions (PPIs) and PTM conservation across species...
November 14, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29145413/diffusion-based-neuromodulation-can-eliminate-catastrophic-forgetting-in-simple-neural-networks
#4
Roby Velez, Jeff Clune
A long-term goal of AI is to produce agents that can learn a diversity of skills throughout their lifetimes and continuously improve those skills via experience. A longstanding obstacle towards that goal is catastrophic forgetting, which is when learning new information erases previously learned information. Catastrophic forgetting occurs in artificial neural networks (ANNs), which have fueled most recent advances in AI. A recent paper proposed that catastrophic forgetting in ANNs can be reduced by promoting modularity, which can limit forgetting by isolating task information to specific clusters of nodes and connections (functional modules)...
2017: PloS One
https://www.readbyqxmd.com/read/29145252/identifications-of-potential-therapeutic-targets-and-drugs-in-angiotensin-ii-induced-hypertension
#5
Xiaoli Wu, Ruihua Fan
This study aimed to identify the underlying therapeutic targets of angiotensin II (AngII)-induced hypertension, and screen the related drugs.The gene expression profiles of GSE93579 and GSE75815 were used to identify differentially expressed genes (DEGs) between AngII-induced hypertension and control samples based on meta-analysis. These DEGs were analyzed using Gene-Ontology (GO) function and pathway enrichment methods. Subsequently, the weighed gene coexpression network analysis (WGCNA)-based meta-analysis was applied to determine transcriptional signature with DEGs...
November 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/29145121/role-of-acid-alkali-treatment-in-primary-sludge-anaerobic-fermentation-insights-into-microbial-community-structure-functional-shifts-and-metabolic-output-by-high-throughput-sequencing
#6
Xiao Huang, Wenyi Dong, Hongjie Wang, Yangyang Feng
This study aimed to investigate the effect of acid- or alkali-treatment on volatile fatty acids (VFAs) production and microbiological mechanism during primary sludge anaerobic fermentation. Seven fermentation experiments were conducted at different pH (3-12). Results showed that the optimal pH was 10 for accumulation of VFAs. High-throughput sequencing results indicated that acid and alkali treatment could inhibit Erysipelotrichaceae_UCG-004 and norank_p_Aminicenantes, instead of promoting Pseudomonas and Tissierella at acidic and alkaline condition, respectively...
November 4, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/29145093/proteomic-profile-and-toxicity-pathway-analysis-in-zebrafish-embryos-exposed-to-bisphenol-a-and-di-n-butyl-phthalate-at-environmentally-relevant-levels
#7
Xing Dong, Xuchun Qiu, Shunlong Meng, Hai Xu, Xiangyang Wu, Ming Yang
Bisphenol A (BPA) and di-n-butyl phthalate (DBP) are well-known endocrine-disrupting chemicals (EDCs) that have human health risks. Chronic exposure to BPA and DBP increases the occurrence of human disease. Despite the potential for exposure in embryonic development, the mechanism of action of BPA and DBP on vertebrate development and disease still remains unclear. In the present study, we identified proteins and protein networks that are perturbed by BPA and DBP during zebrafish (Danio rerio) development. Zebrafish embryos were exposed to environmentally relevant levels of BPA (10 μg/L) and DBP (50 μg/L) for 96 h...
November 10, 2017: Chemosphere
https://www.readbyqxmd.com/read/29144809/preserved-proinsulin-secretion-in-long-standing-type-1-diabetes
#8
Devin W Steenkamp, Jose M Cacicedo, Ayse Sahin-Efe, Catherine Sullivan, Elliot Sternthal
OBJECTIVE: Recent literature, has reported preserved residual beta cell function, (c-peptide "microsecretion") in many individuals with long standing type 1 diabetes. However, the concentrations of detectable insulin/c-peptide in the serum are usually very low, and beta cell mass is typically negligible. Proinsulin is measurable in the early years after diagnosis, consistent with the presence of residual functioning beta cells. However, individuals are not expected to secrete significant amounts of proinsulin beyond the early years after diagnosis...
November 16, 2017: Endocrine Practice
https://www.readbyqxmd.com/read/29144723/inorganic-strengthened-hydrogel-membrane-as-regenerative-periosteum
#9
Tianwen Xin, Yong Gu, Ruoyu Cheng, Jincheng Tang, Zhiyong Sun, Wenguo Cui, Liang Chen
Periosteum plays the pivotal role in neomineralization, vascularization and protection during bone tissue regeneration. However, many artificial periosteum focused only on protection and lacked of the osteogenesis and angiogenesis functional capacity. In this study, we developed a novelty inorganic strengthened gelatin hydrogel membrane via inorganic and organic co-cross-linked double network as artificial periosteum for enhancing the durable angiogenesis and osteogenesis in bone reconstruction. Mesoporous bioactive glass nanoparticles (MBGNs) chemically modified with photo-cross-linkable gelatin derivative (GelMA) were further incorporated into GelMA to fabricate an organic/inorganic co-cross-linked hydrogel membrane (GelMA-G-MBGNs)...
November 16, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29144501/novel-mechanisms-and-functions-of-complement
#10
REVIEW
George Hajishengallis, Edimara S Reis, Dimitrios C Mastellos, Daniel Ricklin, John D Lambris
Progress at the beginning of the 21st century transformed the perception of complement from that of a blood-based antimicrobial system to that of a global regulator of immunity and tissue homeostasis. More recent years have witnessed remarkable advances in structure-function insights and understanding of the mechanisms and locations of complement activation, which have added new layers of complexity to the biology of complement. This complexity is readily reflected by the multifaceted and contextual involvement of complement-driven networks in a wide range of inflammatory and neurodegenerative disorders and cancer...
November 16, 2017: Nature Immunology
https://www.readbyqxmd.com/read/29144390/rna-sequencing-and-coexpression-analysis-reveal-key-genes-involved-in-%C3%AE-linolenic-acid-biosynthesis-in-perilla-frutescens-seed
#11
Tianyuan Zhang, Chi Song, Li Song, Zhiwei Shang, Sen Yang, Dong Zhang, Wei Sun, Qi Shen, Degang Zhao
Perillafrutescen is used as traditional food and medicine in East Asia. Its seeds contain high levels of α-linolenic acid (ALA), which is important for health, but is scarce in our daily meals. Previous reports on RNA-seq of perilla seed had identified fatty acid (FA) and triacylglycerol (TAG) synthesis genes, but the underlying mechanism of ALA biosynthesis and its regulation still need to be further explored. So we conducted Illumina RNA-sequencing in seven temporal developmental stages of perilla seeds...
November 16, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29144388/hyperspectral-image-enhancement-and-mixture-deep-learning-classification-of-corneal-epithelium-injuries
#12
Siti Salwa Md Noor, Kaleena Michael, Stephen Marshall, Jinchang Ren
In our preliminary study, the reflectance signatures obtained from hyperspectral imaging (HSI) of normal and abnormal corneal epithelium tissues of porcine show similar morphology with subtle differences. Here we present image enhancement algorithms that can be used to improve the interpretability of data into clinically relevant information to facilitate diagnostics. A total of 25 corneal epithelium images without the application of eye staining were used. Three image feature extraction approaches were applied for image classification: (i) image feature classification from histogram using a support vector machine with a Gaussian radial basis function (SVM-GRBF); (ii) physical image feature classification using deep-learning Convolutional Neural Networks (CNNs) only; and (iii) the combined classification of CNNs and SVM-Linear...
November 16, 2017: Sensors
https://www.readbyqxmd.com/read/29144299/the-modelling-of-lead-removal-from-water-by-deep-eutectic-solvents-functionalized-cnts-artificial-neural-network-ann-approach
#13
Seef Saadi Fiyadh, Mohammed Abdulhakim AlSaadi, Mohamed Khalid AlOmar, Sabah Saadi Fayaed, Ako R Hama, Sharifah Bee, Ahmed El-Shafie
The main challenge in the lead removal simulation is the behaviour of non-linearity relationships between the process parameters. The conventional modelling technique usually deals with this problem by a linear method. The substitute modelling technique is an artificial neural network (ANN) system, and it is selected to reflect the non-linearity in the interaction among the variables in the function. Herein, synthesized deep eutectic solvents were used as a functionalized agent with carbon nanotubes as adsorbents of Pb(2+)...
November 2017: Water Science and Technology: a Journal of the International Association on Water Pollution Research
https://www.readbyqxmd.com/read/29144224/violence-exposure-and-neural-systems-underlying-working-memory-for-emotional-stimuli-in-youth
#14
Jessica L Jenness, Maya L Rosen, Kelly A Sambrook, Meg J Dennison, Hilary K Lambert, Margaret A Sheridan, Katie A McLaughlin
Violence exposure during childhood is common and associated with poor cognitive and academic functioning. However, little is known about how violence exposure influences cognitive processes that might contribute to these disparities, such as working memory, or their neural underpinnings, particularly for cognitive processes that occur in emotionally salient contexts. We address this gap in a sample of 54 participants aged 8 to 19 years (50% female), half with exposure to interpersonal violence. Participants completed a delayed match to sample task for emotional faces while undergoing functional magnetic resonance imaging scanning...
November 16, 2017: Development and Psychopathology
https://www.readbyqxmd.com/read/29144021/quantitative-extracellular-matrix-proteomics-suggests-cell-wall-reprogramming-in-host-specific-immunity-during-vascular-wilt-caused-by-fusarium-oxysporum-in-chickpea
#15
Eman Elagamey, Kanika Narula, Arunima Sinha, Sudip Ghosh, Magdi A E Abdellatef, Niranjan Chakraborty, Subhra Chakraborty
Extracellular matrix (ECM) is the unique organelle that perceives stress signals and reprograms molecular events of host cell during patho-stress. However, our understanding of how ECM dictates plant immunity is largely unknown. Vascular wilt caused by the soil borne filamentous fungus Fusarium oxysporum is a major impediment for global crop productivity. To elucidate the role of ECM proteins and molecular mechanism associated with cell wall mediated immunity, the temporal changes of ECM proteome was studied in vascular wilt resistant chickpea cultivar upon F...
November 16, 2017: Proteomics
https://www.readbyqxmd.com/read/29143946/multi-scale-account-of-the-network-structure-of-macaque-visual-cortex
#16
Maximilian Schmidt, Rembrandt Bakker, Claus C Hilgetag, Markus Diesmann, Sacha J van Albada
Cortical network structure has been extensively characterized at the level of local circuits and in terms of long-range connectivity, but seldom in a manner that integrates both of these scales. Furthermore, while the connectivity of cortex is known to be related to its architecture, this knowledge has not been used to derive a comprehensive cortical connectivity map. In this study, we integrate data on cortical architecture and axonal tracing data into a consistent multi-scale framework of the structure of one hemisphere of macaque vision-related cortex...
November 16, 2017: Brain Structure & Function
https://www.readbyqxmd.com/read/29143621/identification-and-characterization-of-regulatory-network-components-for-anthocyanin-synthesis-in-barley-aleurone
#17
Ksenia V Strygina, Andreas Börner, Elena K Khlestkina
BACKGROUND: Among natural populations, there are different colours of barley (Hordeum vulgare L.). The colour of barley grains is directly related to the accumulation of different pigments in the aleurone layer, pericarp and lemma. Blue grain colour is due to the accumulation of anthocyanins in the aleurone layer, which is dependent on the presence of five Blx genes that are not sequenced yet (Blx1, Blx3 and Blx4 genes clustering on chromosome 4HL and Blx2 and Blx5 on 7HL). Due to the health benefits of anthocyanins, blue-grained barley can be considered as a source of dietary food...
November 14, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/29143606/metabolic-pathways-and-genes-identified-by-rna-seq-analysis-of-barley-near-isogenic-lines-differing-by-allelic-state-of-the-black-lemma-and-pericarp-blp-gene
#18
Anastasiya Y Glagoleva, Nikolay A Shmakov, Olesya Y Shoeva, Gennady V Vasiliev, Natalia V Shatskaya, Andreas Börner, Dmitry A Afonnikov, Elena K Khlestkina
BACKGROUND: Some plant species have 'melanin-like' black seed pigmentation. However, the chemical and genetic nature of this 'melanin-like' black pigment have not yet been fully explored due to its complex structure and ability to withstand almost all solvents. Nevertheless, identification of genetic networks participating in trait formation is key to understanding metabolic processes involved in the expression of 'melanin-like' black seed pigmentation. The aim of the current study was to identify differentially expressed genes (DEGs) in barley near-isogenic lines (NILs) differing by allelic state of the Blp (black lemma and pericarp) locus...
November 14, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/29143429/an-overview-of-methods-to-mitigate-artifacts-in-optical-coherence-tomography-imaging-of-the-skin
#19
Saba Adabi, Audrey Fotouhi, Qiuyun Xu, Steve Daveluy, Darius Mehregan, Adrian Podoleanu, Mohammadreza Nasiriavanaki
BACKGROUND: Optical coherence tomography (OCT) of skin delivers three-dimensional images of tissue microstructures. Although OCT imaging offers a promising high-resolution modality, OCT images suffer from some artifacts that lead to misinterpretation of tissue structures. Therefore, an overview of methods to mitigate artifacts in OCT imaging of the skin is of paramount importance. Speckle, intensity decay, and blurring are three major artifacts in OCT images. Speckle is due to the low coherent light source used in the configuration of OCT...
November 16, 2017: Skin Research and Technology
https://www.readbyqxmd.com/read/29143418/identification-of-swallowing-disorders-in-early-and-mid-stage-parkinson-s-disease-using-pattern-recognition-of-pharyngeal-high-resolution-manometry-data
#20
C A Jones, M R Hoffman, L Lin, S Abdelhalim, J J Jiang, T M McCulloch
BACKGROUND: Parkinson's disease (PD) can cause severe dysphagia, especially later in disease progression. Early identification of swallowing dysfunction may lead to earlier intervention. Pharyngeal high-resolution manometry (HRM) provides complementary information to videofluoroscopy, with advantages of being quantitative and objective. Artificial neural network (ANN) classification can examine non-linear relationships among multiple variables with relatively low bias. We evaluated if ANN techniques could differentiate between patients with PD and healthy controls...
November 16, 2017: Neurogastroenterology and Motility: the Official Journal of the European Gastrointestinal Motility Society
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