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https://www.readbyqxmd.com/read/28534775/learning-rotation-invariant-local-binary-descriptor
#1
Yueqi Duan, Jiwen Lu, Jianjiang Feng, Jie Zhou
In this paper, we propose a rotation-invariant local binary descriptor (RI-LBD) learning method for visual recognition. Compared with hand-crafted local binary descriptors such as LBP and its variants which require strong prior knowledge, local binary feature learning methods are more efficient and dataadaptive. Unlike existing learning-based local binary descriptors such as compact binary face descriptor (CBFD) and simultaneous local binary feature learning and encoding (SLBFLE) which are susceptible to rotations, our RI-LBD first categorizes each local patch into a rotational binary pattern (RBP), and then jointly learns the orientation for each pattern and the projection matrix to obtain rotation-invariant local binary descriptors...
May 16, 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
https://www.readbyqxmd.com/read/28531099/vitamin-a-status-of-women-and-children-in-yaound%C3%A3-and-douala-cameroon-is-unchanged-one-year-after-initiation-of-a-national-vitamin-a-oil-fortification-program
#2
Reina Engle-Stone, Martin Nankap, Alex Ndjebayi, Marie-Madeleine Gimou, Avital Friedman, Marjorie J Haskell, Ann Tarini, Kenneth H Brown
Vitamin A (VA) fortification of cooking oil is considered a cost-effective strategy for increasing VA status, but few large-scale programs have been evaluated. We conducted representative surveys in Yaoundé and Douala, Cameroon, 2 years before and 1 year after the introduction of a mandatory national program to fortify cooking oil with VA. In each survey, 10 different households were selected within each of the same 30 clusters (n = ~300). Malaria infection and plasma indicators of inflammation and VA (retinol-binding protein, pRBP) status were assessed among women aged 15-49 years and children aged 12-59 months, and casual breast milk samples were collected for VA and fat measurements...
May 20, 2017: Nutrients
https://www.readbyqxmd.com/read/28529064/analysis-of-post-transcriptional-regulation-during-cancer-progression-using-a-donor-derived-isogenic-model-of-tumorigenesis
#3
Laura S Bisogno, Jack D Keene
Post-transcriptional regulation of gene expression by RNA binding proteins (RBPs) and non-coding RNAs plays an important role in global gene expression. Many post-transcriptional regulators are misexpressed and misregulated in cancers, resulting in altered programs of protein biosynthesis that can drive tumor progression. While comparative studies of several RBPs and microRNAs expressed in various cancer types have been reported, a model system that can be used to quantify RBP regulation and functional outcomes during the initiation and early stages of tumorigenesis is lacking...
May 18, 2017: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/28516119/affinity-pulldown-of-biotinylated-rna-for-detection-of-protein-rna-complexes
#4
Amaresh C Panda, Jennifer L Martindale, Myriam Gorospe
RNA-binding proteins (RBPs) have recently emerged as crucial players in the regulation of gene expression. The interactions of RBPs with target mRNAs control the levels of gene products by altering different regulatory steps, including pre-mRNA splicing and maturation, nuclear mRNA export, and mRNA stability and translation (Glisovic et al., 2008). There are several methodologies available today to identify RNAs bound to specific RBPs; some detect only recombinant molecules in vitro, others detect recombinant and endogenous molecules, while others detect only endogenous molecules...
December 20, 2016: Bio-protocol
https://www.readbyqxmd.com/read/28505839/explosive-percolation-on-a-scale-free-multifractal-weighted-planar-stochastic-lattice
#5
M M Rahman, M K Hassan
In this article, we investigate explosive bond percolation (EBP) with the product rule, formally known as the Achlioptas process, on a scale-free multifractal weighted planar stochastic lattice. One of the key features of the EBP transition is the delay, compared to the corresponding random bond percolation (RBP), in the onset of the spanning cluster. However, when it happens, it happens so dramatically that initially it was believed, although ultimately proved wrong, that explosive percolation (EP) exhibits a first-order transition...
April 2017: Physical Review. E
https://www.readbyqxmd.com/read/28499807/evaluation-of-insulin-like-growth-factor-igf-1-and-retinol-binding-protein-rbp-4-levels-in-patients-with-newly-diagnosed-pancreatic-adenocarcinoma-pdac
#6
Barbara Wlodarczyk, Anita Gasiorowska, Anna Borkowska, Ewa Malecka-Panas
BACKGROUND/OBJECTIVES: The elevation of insulin-like growth factor 1 (IGF-1) and adipokine retinol-binding protein 4 (RBP-4) is known to be associated with the risk of many cancers. The aim of this study was to evaluate the serum concentrations of IGF-1 and RBP-4 in patients with PDAC and chronic pancreatitis (CP). METHODS: The study included 43 patients with PDAC, 39 patients with CP and 10 controls. The concentrations of IGF-1 and RBP-4 were obtained using the ELISA method (Corgenix UK Ltd R&D Systems)...
April 4, 2017: Pancreatology: Official Journal of the International Association of Pancreatology (IAP) ... [et Al.]
https://www.readbyqxmd.com/read/28495450/rho-guanine-nucleotide-exchange-factor-rgnef-is-a-prosurvival-factor-under-stress-conditions
#7
Kevin Cheung, Cristian A Droppelmann, Adam MacLellan, Ian Cameron, Benjamin Withers, Danae Campos-Melo, Kathryn Volkening, Michael J Strong
Rho guanine nucleotide exchange factor (RGNEF) is a 190kDa RNA binding protein (RBP) that also contains a Dbl/PH domain capable of RhoA activation. Consistent with a key role in the pathogenesis of amyotrophic lateral sclerosis (ALS), RGNEF forms pathological neuronal cytoplasmic inclusions in degenerating spinal motor neurons. To further understand the role of RGNEF in the stress response, we first observed that the expression of RGNEF is upregulated in murine spinal motor neurons following distal sciatic nerve injury...
May 8, 2017: Molecular and Cellular Neurosciences
https://www.readbyqxmd.com/read/28493549/transcription-factor-rbp-j-mediated-signaling-regulates-basophil-s-immunoregulatory-function-in-mouse-asthma-model
#8
Shuo-Yao Qu, Ya-Long He, Jian Zhang, Chang-Gui Wu
Basophils (BAs) play an important role in the promotion of aberrant Th2 immune response in asthma. It is not only the effective cell, but also modulates initiation of Th2 immune responses. We earlier demonstrated that Notch signaling regulates the biological function of BAs in vitro. However, whether this pathway plays the same role in vivo is not clear. The purpose of the present study was to investigate the effect of Notch signaling on BA's function in the regulation of allergic airway inflammation in a murine model of asthma...
May 11, 2017: Immunology
https://www.readbyqxmd.com/read/28487411/a-microrna-129-5p-rbfox-crosstalk-coordinates-homeostatic-downscaling-of-excitatory-synapses
#9
Marek Rajman, Franziska Metge, Roberto Fiore, Sharof Khudayberdiev, Ayla Aksoy-Aksel, Silvia Bicker, Cristina Ruedell Reschke, Rana Raoof, Gary P Brennan, Norman Delanty, Michael A Farrell, Donncha F O'Brien, Sebastian Bauer, Braxton Norwood, Morten T Veno, Marcus Krüger, Thomas Braun, Jørgen Kjems, Felix Rosenow, David C Henshall, Christoph Dieterich, Gerhard Schratt
Synaptic downscaling is a homeostatic mechanism that allows neurons to reduce firing rates during chronically elevated network activity. Although synaptic downscaling is important in neural circuit development and epilepsy, the underlying mechanisms are poorly described. We performed small RNA profiling in picrotoxin (PTX)-treated hippocampal neurons, a model of synaptic downscaling. Thereby, we identified eight microRNAs (miRNAs) that were increased in response to PTX, including miR-129-5p, whose inhibition blocked synaptic downscaling in vitro and reduced epileptic seizure severity in vivo Using transcriptome, proteome, and bioinformatic analysis, we identified the calcium pump Atp2b4 and doublecortin (Dcx) as miR-129-5p targets...
May 9, 2017: EMBO Journal
https://www.readbyqxmd.com/read/28487372/structure-function-analysis-of-rbpj-interacting-and-tubulin-associated-rita-reveals-regions-critical-for-repression-of-notch-target-genes
#10
Nassif Tabaja, Zhenyu Yuan, Franz Oswald, Rhett A Kovall
The Notch pathway is a cell-to-cell signaling mechanism that is essential for tissue development and maintenance, and aberrant Notch signaling has been implicated in various cancers, congenital defects, and cardiovascular diseases. Notch signaling activates the expression of target genes, which are regulated by the transcription factor (CBF1/RBP-J, Su(H), Lag-1). CSL interacts with both transcriptional corepressor and coactivator proteins, functioning as both a repressor and activator, respectively. While Notch activation complexes are relatively well understood at the structural level, less is known about how CSL interacts with corepressors...
May 9, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28477234/tnf-and-bone-remodeling
#11
REVIEW
Baohong Zhao
PURPOSE OF REVIEW: The mechanisms involved in the TNF-mediated deregulated bone remodeling are little appreciated. This review will discuss and summarize the impact of TNF, Notch, and RBP-J signaling on bone remodeling. RECENT FINDINGS: The integrity of the adult skeleton undergoes constant and dynamic remodeling throughout life to maintain a proper bone homeostasis, which is achieved by the essential tight control of coupling between osteoclast-mediated bone resorption and osteoblast-mediated bone formation...
May 5, 2017: Current Osteoporosis Reports
https://www.readbyqxmd.com/read/28476754/the-rna-binding-protein-syncrip-promotes-leukemogenesis
#12
(no author information available yet)
Depletion of the RNA-binding protein (RBP) SYNCRIP promotes leukemic cell differentiation and apoptosis.
May 5, 2017: Cancer Discovery
https://www.readbyqxmd.com/read/28467899/high-resolution-rna-maps-suggest-common-principles-of-splicing-and-polyadenylation-regulation-by-tdp-43
#13
Gregor Rot, Zhen Wang, Ina Huppertz, Miha Modic, Tina Lenče, Martina Hallegger, Nejc Haberman, Tomaž Curk, Christian von Mering, Jernej Ule
Many RNA-binding proteins (RBPs) regulate both alternative exons and poly(A) site selection. To understand their regulatory principles, we developed expressRNA, a web platform encompassing computational tools for integration of iCLIP and RNA motif analyses with RNA-seq and 3' mRNA sequencing. This reveals at nucleotide resolution the "RNA maps" describing how the RNA binding positions of RBPs relate to their regulatory functions. We use this approach to examine how TDP-43, an RBP involved in several neurodegenerative diseases, binds around its regulated poly(A) sites...
May 2, 2017: Cell Reports
https://www.readbyqxmd.com/read/28445618/ficolin-3-adiponectin-ratio-for-the-prediction-of-gestational-diabetes-mellitus-in-pregnant-women
#14
Xiao-Song Yuan, Hui Shi, Hui-Yan Wang, Bin Yu, Jian Jiang
AIMS/INTRODUCTION: To establish that the ficolin-3/adiponectin ratio is a predictor for gestational diabetes mellitus (GDM) and was eligible for screening tests for GDM. MATERIALS AND METHODS: A prospective cohort study of 86 pregnant women who developed GDM and 273 normal glucose tolerance (NGT) participants was performed. Maternal serum ficolin-3, adiponectin levels were investigated at 16-18 weeks gestation using ELISA. RESULTS: Compared to the NGT group, the GDM group showed significantly higher levels of ficolin-3 and the ratio of ficolin-3/adiponectin; and decreased levels of adiponectin between 16 to 18 weeks of gestation (P < 0...
April 26, 2017: Journal of Diabetes Investigation
https://www.readbyqxmd.com/read/28445440/micronutrient-status-among-pregnant-women-in-zinder-niger-and-risk-factors-associated-with-deficiency
#15
K Ryan Wessells, Césaire T Ouédraogo, Rebecca R Young, M Thierno Faye, Alex Brito, Sonja Y Hess
Anemia and micronutrient (MN) deficiencies in pregnant women are associated with adverse pregnancy outcomes. In Niger, 58.6% of pregnant women are anemic; however, MN statuses are unknown. The study objectives were to estimate the prevalence of MN deficiencies among pregnant women in Zinder, Niger and explore associated risk factors. Pregnant women living in randomly selected rural villages (n = 88) were included. Capillary and venous blood samples (n = 770) were analyzed for hemoglobin (Hb) and plasma ferritin, soluble transferrin receptor (sTfR), zinc (pZn), retinol binding protein (RBP), folate and vitamin B12...
April 26, 2017: Nutrients
https://www.readbyqxmd.com/read/28443890/the-characteristic-landscape-of-lncrnas-classified-by-rbp-lncrna-interactions-across-10-cancers
#16
Qiang Zhang, Yunzhen Wei, Zichuang Yan, Cheng Wu, Zhiqiang Chang, Yinling Zhu, Kun Li, Yan Xu
RNA-binding proteins (RBPs) are key regulators of gene expression. Some long non-coding RNAs (lncRNAs) affect gene expression by interacting with RBPs. However, whether this influences the biological characteristics of lncRNAs in diseases still remains unknown. Here, we classify lncRNAs into two categories, using the interaction information between lncRNAs and RBPs: the lncRNAs that interact with RBPs (Rlncs) and the lncRNAs that do not interact with RBPs (NRlncs). Then we systematically analyze the basic attributes and functions of the two categories of lncRNAs across 10 cancers...
April 26, 2017: Molecular BioSystems
https://www.readbyqxmd.com/read/28442784/the-rna-binding-protein-marf1-promotes-cortical-neurogenesis-through-its-rnase-activity-domain
#17
Yoshitaka Kanemitsu, Masashi Fujitani, Yuki Fujita, Suxiang Zhang, You-Qiang Su, Yukio Kawahara, Toshihide Yamashita
Cortical neurogenesis is a fundamental process of brain development that is spatiotemporally regulated by both intrinsic and extrinsic cues. Although recent evidence has highlighted the significance of transcription factors in cortical neurogenesis, little is known regarding the role of RNA-binding proteins (RBPs) in the post-transcriptional regulation of cortical neurogenesis. Here, we report that meiosis arrest female 1 (MARF1) is an RBP that is expressed during neuronal differentiation. Cortical neurons expressed the somatic form of MARF1 (sMARF1) but not the oocyte form (oMARF1)...
April 25, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28441533/a-global-view-of-rna-protein-interactions-identifies-post-transcriptional-regulators-of-root-hair-cell-fate
#18
Shawn W Foley, Sager J Gosai, Dongxue Wang, Nur Selamoglu, Amelia C Sollitti, Tino Köster, Alexander Steffen, Eric Lyons, Fevzi Daldal, Benjamin A Garcia, Dorothee Staiger, Roger B Deal, Brian D Gregory
The Arabidopsis thaliana root epidermis is comprised of two cell types, hair and nonhair cells, which differentiate from the same precursor. Although the transcriptional programs regulating these events are well studied, post-transcriptional factors functioning in this cell fate decision are mostly unknown. Here, we globally identify RNA-protein interactions and RNA secondary structure in hair and nonhair cell nuclei. This analysis reveals distinct structural and protein binding patterns across both transcriptomes, allowing identification of differential RNA binding protein (RBP) recognition sites...
April 24, 2017: Developmental Cell
https://www.readbyqxmd.com/read/28439834/an-assessment-of-the-next-generation-of-animal-mirna-target-prediction-algorithms
#19
Thomas Bradley, Simon Moxon
The advent of genome-wide next-generation sequencing technologies has revolutionized the genomic and transcriptomic fields. New technologies also present an opportunity for greater discovery and understanding of post-transcriptional processes, in particular, translational inhibition of transcripts by miRBP (microRNA-RNA binding protein) complexes. Not only have novel methodologies been developed for the direct sequencing of RBP-bound RNA, but a new class of miRNA (microRNA) target prediction algorithms trained on this data has emerged...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28438765/longitudinal-characterization-of-renal-proximal-tubular-markers-in-normotensive-and-preeclamptic-pregnancies
#20
Elisabeth Codsi, Vesna D Garovic, Maria L Gonzalez-Suarez, Natasa Milic, Kristi S Borowski, Carl H Rose, Norman P Davies, Kianoush Kashani, John C Lieske, Wendy M White
Glomerular damage is common in preeclampsia (PE), but the extent and etiology of tubular injury are not well understood. The aim of this study was to evaluate tubular injury in patients with PE and to assess whether it predates clinical disease. We performed a prospective cohort study of 315 pregnant women who provided urine samples at the end of the second trimester and at delivery. This analysis included women who developed PE (n=15), gestational hypertension (GH) (n=14), and normotensive controls (NC) (n=44)...
April 24, 2017: American Journal of Physiology. Regulatory, Integrative and Comparative Physiology
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