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The denitrification paradox: The role of O 2 in sediment N 2 O production

Jonathan Barnes, Robert C. Upstill-Goddard
2018 Estuarine, Coastal and Shelf Science  
This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International licence Newcastle University ePrints Barnes J, Upstill-Goddard RC.  ...  N2O analysis used an Electron Capture Detector (ECD) with a 63 Ni source at 350 o C.  ...  Incubation experiments We carried out seven sediment incubation experiments on individual sediments, all at a laboratory temperature of 22 ± 0.5 o C (Table 1 ).  ... 
doi:10.1016/j.ecss.2017.11.018 fatcat:n6xasvl5ybbldhwgfvhek3lrwq

Functional characterization of the human 1-acylglycerol-3-phosphate-O-acyltransferase isoform 10/glycerol-3-phosphate acyltransferase isoform 3

Suja Sukumaran, Robert I Barnes, Abhimanyu Garg, Anil K Agarwal
2009 Journal of Molecular Endocrinology  
This cDNA has been recently identified as glycerol-3-phosphate-O-acyltransferase isoform 3 (GPAT3).  ...  Several 1-acylglycerol-3-phosphate-O-acyltransferases (AGPATs) acylate lysophosphatidic acid (LPA) at the sn-2 (carbon 2) position to produce phosphatidic acid (PA).  ...  The product formed (LPA) was resolved on thin layer chromatography (TLC) using chloroform:methanol:acetic acid:H 2 O (50:25:8:4) as mobile phase.  ... 
doi:10.1677/jme-09-0010 pmid:19318427 pmcid:PMC5070603 fatcat:bzn5it4njrgzzpqlqaridanfjm

Achieving Centimetre-level Positioning Accuracy in Urban Canyons with Locata Technology

J.-P. Montillet, X. Meng, G.W. Roberts, A. Taha, C. Hancock, O. Ogundipe, J. Barnes
2007 Journal of Global Positioning Systems  
Jimmy LaMance from Locata Corp; Mr Noni Politi (from the UNSW), Mr Huib De Ligt and Mr Richard Barnes (from the IESSG) for their help during the experiments.  ...  (Barnes et al., 2006) .  ...  The aim of the project is to meet this recognized need to precisely map buried assets in urban areas (Roberts et al., 2006) .  ... 
doi:10.5081/jgps.6.2.158 fatcat:p6b7wttx25f3vaau4ehpbmw3xa

Decreased Gray Matter Concentration in the Lateral Geniculate Nuclei in Human Amblyopes

Gareth R. Barnes, Xingfeng Li, Benjamin Thompson, Krishna D. Singh, Serge O. Dumoulin, Robert F. Hess
2010 Investigative Ophthalmology and Visual Science  
PURPOSE. In a group of humans with strabismic amblyopia, the relationship was examined between the structure and function of different brain regions. Three question were addressed: (1) Is the lateral geniculate nucleus (LGN) in humans with amblyopia structurally as well as functionally abnormal? (2) Do structural anomalies in the visual cortex correlate with the previously reported cortical functional losses? (3) Is there a link between the functional anomalies in the visual cortex and any
more » ... tural anomalies in the geniculate? METHODS. The structure was compared by using voxel-based morphometry (VBM) and the function by functional magnetic resonance imaging (fMRI). RESULTS. The results showed that the geniculate is structurally abnormal in humans with strabismic amblyopia. CONCLUSIONS. These findings add further weight to the role of the LGN in the cortical deficits exhibited in human strabismic amblyopes. (Invest Ophthalmol Vis Sci.
doi:10.1167/iovs.09-3931 pmid:19875650 fatcat:me45xksncrckncrgmj7teeq2am


1954 Endocrinology  
BARNES, ROBERT O. STAFFORD, MARILYN E. GUILD, LOU C. THOLE and KENNETH J.  ...  O.. Suppl. J. Roy. Slat. Soc.. IV: No. 1:1. 1937. Kaasenaar, a. a. H., D. W. van Bekkum and A. Querido: Acta Endo. 12: 153. 1953. Kenyon, A. T., K. Knowlton and I. Sandiford; Ann. Int.  ... 
doi:10.1210/endo-55-1-77 pmid:13173417 fatcat:ktx2cuzbfrdy3itolrhboipca4

BMRF-Net: a software tool for identification of protein interaction subnetworks by a bagging Markov random field-based method: Fig. 1

Xu Shi, Robert O. Barnes, Li Chen, Ayesha N. Shajahan-Haq, Leena Hilakivi-Clarke, Robert Clarke, Yue Wang, Jianhua Xuan
2015 Bioinformatics  
Identification of protein interaction subnetworks is an important step to help us understand complex molecular mechanisms in cancer. In this paper, we develop a BMRF-Net package, implemented in Java and Cþþ, to identify protein interaction subnetworks based on a bagging Markov random field (BMRF) framework. By integrating gene expression data and protein-protein interaction data, this software tool can be used to identify biologically meaningful subnetworks. A user friendly graphic user
more » ... e is developed as a Cytoscape plugin for the BMRF-Net software to deal with the input/output interface. The detailed structure of the identified networks can be visualized in Cytoscape conveniently. The BMRF-Net package has been applied to breast cancer data to identify significant subnetworks related to breast cancer recurrence. Availability and implementation: The BMRF-Net package is available at The package is tested under Ubuntu 12.04 (64-bit), Java 7, glibc 2.15 and Cytoscape 3.1.0.
doi:10.1093/bioinformatics/btv137 pmid:25755273 pmcid:PMC4495295 fatcat:x45x6p6nnjcnflyzf4bngogizi

David James Mearns Anderson John Malcolm Barnes Deb Kumar Bose William ("Bill") Kerr Noble Brown Bidhan Chandra Chatterjee Marion Angela Crawford Margaret Anne Dickinson Sir John Rogers Ellis David Idris Harries James Henderson Levack John Sumner Stead David Stephen Peck

D J Poll, W O Roberts, A. Chaudhuri, C. K Brown, L R Payne, E O Lundholm, D. Slater, K. Dickinson, C. Ellis, G. Harries, I. Drever, M. Stead (+1 others)
1998 BMJ (Clinical Research Edition)  
[W O Roberts] Deb Kumar Bose General practitioner Wolverhampton 1966 -96 (b 1933 q Calcutta 1958 James Henderson Levack Former consultant surgeon Southern General Hospital, Glasgow (b Leuchars, Fife  ...  John Malcolm Barnes Consultant orthopaedic surgeon Ysbyty Gwynedd Bangor, 1980 Bangor, -96 (b 1943 to a father who was a professor of orthopaedic surgery; q Middlesex 1967; FRCS), died from carcinoma  ... 
doi:10.1136/bmj.317.7163.952 pmid:9756833 pmcid:PMC1114002 fatcat:uniynkfcabfkxpbzecj7y74aty

Actions to halt biodiversity loss generally benefit the climate

Yunne-Jai Shin, Guy F. Midgley, Emma Archer, Almut Arneth, David K.A. Barnes, Lena Chan, Shizuka Hashimoto, Ove Hoegh-Guldberg, Gregory Insarov, Paul Leadley, Lisa A. Levin, Hien T. Ngo (+7 others)
2021 Zenodo  
., 2016; Roberts et al., 2017; Sala 303 et al., 2021).  ...  At sea, ecological representation and connectivity between marine protected areas would 304 require at least 30% of sea protected, with a focus on areas most affected by human activities (Roberts et 305  ... 
doi:10.5281/zenodo.5235533 fatcat:jmpbxs6udrcnjfylxncq5pfjmi

Delays, fears and training needs: Perspectives of health workers on clinical management of snakebite revealed by a qualitative study in Kitui County, Kenya

Kieran Barnes, Cecelia Ngari, Stanley Parkurito, Leo Wood, Denis Otundo, Robert Harrison, George O. Oluoch, Anna Trelfa, Clare Baker
2021 Toxicon: X  
u r n a l P r e -p r o o f  ...  u r n a l P r e -p r o o f facilities and the focus was on management within healthcare (Gutiérrez et al., 2017) .  ... 
doi:10.1016/j.toxcx.2021.100078 fatcat:wvcj6lkccneufdkndixobz2vxa

The Reflective Plant Breeding Paradigm: A Robust System of Germplasm Development to Support Strategic Diversification of Agroecosystems

Bryan C. Runck, Michael B. Kantar, Nicholas R. Jordan, James A. Anderson, Donald L. Wyse, James O. Eckberg, Richard J. Barnes, Clarence L. Lehman, Lee R. DeHaan, Robert M. Stupar, Craig C. Sheaffer, Paul M. Porter
2014 Crop science  
doi:10.2135/cropsci2014.03.0195 fatcat:qx27izsjnjfznf3mh3rep7c6ji


Daniel A. Dale, Gillian D. Beltz-Mohrmann, Arika A. Egan, Alan J. Hatlestad, Laura J. Herzog, Andrew S. Leung, Jacob N. McLane, Christopher Phenicie, Jareth S. Roberts, Kate L. Barnes, Médéric Boquien, Daniela Calzetti (+4 others)
2015 Astronomical Journal  
Photometric uncertainties ǫ total are computed by summing in quadrature the calibration error ǫ cal and two uncertainties ǫ sky,local and ǫ sky,global based on the measured sky fluctuations, i.e., ǫ total  ...  = ǫ 2 cal + ǫ 2 sky,local + ǫ 2 sky,global (1) with ǫ sky,local = σ sky,local Ω pix N pix (2) and ǫ sky,global = σ sky,global Ω pix N pix (3) where σ sky,local is the standard deviation of the sky values  ... 
doi:10.3847/0004-6256/151/1/4 fatcat:fmfzzgx7lbggvllsvhiukqrcmi

Precipitation-induced surface brightenings seen on Titan by Cassini VIMS and ISS

Jason W Barnes, Bonnie J Buratti, Elizabeth P Turtle, Jacob Bow, Paul A Dalba, Jason Perry, Robert H Brown, Sebastien Rodriguez, Stéphane Le Mouélic, Kevin H Baines, Christophe Sotin, Ralph D Lorenz (+8 others)
2013 Planetary Science  
l m e d M o n t e s Ech oria th Mo ntes Kajsa Undae N ot us U nd ae B o re a s U n d a e Notu s Und ae Eu ru s Un da e Rer ir Mon tes Ang mar Mon tes Gra m Mon tes  ...  Two mountain ranges, inferred from subtle blue deviations from the equatorial bright spectrum of the sort discovered empirically by Barnes et al. 2007 [3] , cross the area.  ... 
doi:10.1186/2191-2521-2-1 fatcat:jwrvp7nmqbblfevrzscv5meieq

Transmission dynamics of pandemic influenza A(H1N1)pdm09 virus in humans and swine in backyard farms in Tumbes, Peru

Yeny O. Tinoco, Joel M. Montgomery, Mathew R. Kasper, Martha I. Nelson, Hugo Razuri, Maria C. Guezala, Eduardo Azziz-Baumgartner, Marc-Alain Widdowson, John Barnes, Robert H. Gilman, Daniel G. Bausch, Armando E. Gonzalez
2015 Influenza and Other Respiratory Viruses  
Addendum Marc-AlainWiddowson and John Barnes, U.S. Centers for Disease Control and Prevention, Atlanta, GA, U.S.A., involved in interpretation of the data and revising the intellectual content.  ... 
doi:10.1111/irv.12329 pmid:26011186 pmcid:PMC4687498 fatcat:7vxame4ix5bcthjwpadpndy5bq

A Novel Point Mutation of theRETProtooncogene Involving the Second Intracellular Tyrosine Kinase Domain in a Family with Medullary Thyroid Carcinoma

Camilo Jimenez, Gerald T. Dang, Pamela N. Schultz, Adel El-Naggar, Suzanne Shapiro, Elizabeth A. Barnes, Douglas B. Evans, Rena Vassilopoulou-Sellin, Robert F. Gagel, Gilbert J. Cote, Ana O. Hoff
2004 Journal of Clinical Endocrinology and Metabolism  
Hereditary medullary thyroid carcinoma, a tumor that arises from the parafollicular cells of the thyroid gland, occurs in isolation (as in familial medullary thyroid carcinoma), in association with hyperparathyroidism and pheochromocytoma (as in multiple endocrine neoplasia type 2A), or in association with pheochromocytoma, marfanoid habitus, and mucosal neuromas (as in multiple endocrine neoplasia type 2B). These genetic syndromes are associated with germline-activating mutations of the RET
more » ... tooncogene, a cell surface tyrosine kinase receptor, which is believed to modulate specific intracellular signaling pathways involved in the regulation of C cell proliferation and apoptosis. RET-activating mutations in-volve two important functional areas of the receptor: the cysteine-rich extracellular domain and the intracellular tyrosine kinase domain. Multiple endocrine neoplasia type 2A and familial medullary thyroid carcinoma are more commonly associated with mutations in the cysteine-rich extracellular domain, whereas multiple endocrine neoplasia type 2B is exclusively associated with mutations involving the second intracellular tyrosine kinase domain. Here, we describe a novel missense mutation of the RET protooncogene that substitutes arginine for proline at codon 912 of the intracellular tyrosine kinase domain in a family with medullary thyroid carcinoma. (J Clin Endocrinol Metab 89: 3521-3526, 2004) Abbreviations: MTC, Medullary thyroid carcinoma; FMTC, familial MTC; MEN, multiple endocrine neoplasia; TK, tyrosine kinase. JCEM is published monthly by The Endocrine Society (http://www., the foremost professional society serving the endocrine community.
doi:10.1210/jc.2004-0073 pmid:15240641 fatcat:olhsg25nffcyjhadichpiavl2y

NeuroML: A Language for Describing Data Driven Models of Neurons and Networks with a High Degree of Biological Detail

Padraig Gleeson, Sharon Crook, Robert C. Cannon, Michael L. Hines, Guy O. Billings, Matteo Farinella, Thomas M. Morse, Andrew P. Davison, Subhasis Ray, Upinder S. Bhalla, Simon R. Barnes, Yoana D. Dimitrova (+2 others)
2010 PLoS Computational Biology  
Biologically detailed single neuron and network models are important for understanding how ion channels, synapses and anatomical connectivity underlie the complex electrical behavior of the brain. While neuronal simulators such as NEURON, GENESIS, MOOSE, NEST, and PSICS facilitate the development of these data-driven neuronal models, the specialized languages they employ are generally not interoperable, limiting model accessibility and preventing reuse of model components and cross-simulator
more » ... idation. To overcome these problems we have used an Open Source software approach to develop NeuroML, a neuronal model description language based on XML (Extensible Markup Language). This enables these detailed models and their components to be defined in a standalone form, allowing them to be used across multiple simulators and archived in a standardized format. Here we describe the structure of NeuroML and demonstrate its scope by converting into NeuroML models of a number of different voltage-and ligand-gated conductances, models of electrical coupling, synaptic transmission and short-term plasticity, together with morphologically detailed models of individual neurons. We have also used these NeuroML-based components to develop an highly detailed cortical network model. NeuroML-based model descriptions were validated by demonstrating similar model behavior across five independently developed simulators. Although our results confirm that simulations run on different simulators converge, they reveal limits to model interoperability, by showing that for some models convergence only occurs at high levels of spatial and temporal discretisation, when the computational overhead is high. Our development of NeuroML as a common description language for biophysically detailed neuronal and network models enables interoperability across multiple simulation environments, thereby improving model transparency, accessibility and reuse in computational neuroscience.
doi:10.1371/journal.pcbi.1000815 pmid:20585541 pmcid:PMC2887454 fatcat:d5p7flo4znc3pjmh3wiucfnau4
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