cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Mapping Fermion and Boson systems onto the Fock space of harmonic oscillators
Creators: name: Branchina, Vincenzo
name: Di Liberto, Marco
name: Lodato, Ivano
Publisher: name: arXiv
Year: 2010
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The fluctuation-dissipation theorem (FDT) is very general and applies to a broad variety of different physical phenomena in condensed matter physics. With the help of the FDT and following the famous work of Caldeira and Leggett, we show that, whenever linear response theory applies, any generic bosonic or fermionic system at finite temperature $T$ can be mapped onto a fictitious system of free harmonic oscillators. To the best of our knowledge, this is the first time that such a mapping is explicitly worked out. This finding provides further theoretical support to the phenomenological harmonic oscillator models commonly used in condensed matter. Moreover, our result helps in clarifying an interpretation issue related to the presence and physical origin of the Bose-Einstein factor in the FDT.
description: 12 pages, no figures
Gene regulation in the 3D genome
Creators: name: Hu, M.
name: Li, Y.
name: Shen, Y.
Publisher: name: Oxford University Press
Year: 2018

description: The spatial organization of the genome is essential for the precise control of gene expression. Recent advances in sequencing and imaging technologies allow us to explore the 3D genome and its relationship to gene regulation at an unprecedented scale. In this review, we provide an overview of lessons learned from studying the chromatin structure and their implications in communications between gene promoters and distal cis-regulatory elements, such as enhancers. We first review the current knowledge of general genome organization, followed by the importance of chromatin folding in gene regulation. Next, we proceed to a brief survey of the recently developed chromosome conformation capture technologies, as well as most widely adopted read-outs from such data. We then introduce two emerging models that offer explanations regarding how distal enhancers achieve transcriptional control of target genes in the 3D genome. Last, we discuss the promising prospects of leveraging knowledge in chromatin spatial organization for studying complex diseases and traits.
Les Chartes de la Salvetat-Montdragon, texted albigeois du XIIIe siecle ; edition avec introd. et commentaire phonologique et morphologique
Creators: name: Gallacher, Desmond
Publisher: name: University of British Columbia
Year: 2011

description: This study is concerned with the transcription, translation and linguistic interpretation of a series of original 13th century legal documents written in Old Occitan, which originated in the Benedictine monastery of Saint-Pierre de la Salvetat (Tarn). The microfilmed documents obtained from the Bibliotheque Nationale in Paris proved in some cases inadequate for transcription purposes, and many faded words and even whole passages had to be examined in the original manuscripts under ultra-violet rays. Several lacunae (none of them extensive) which still appear in the transcriptions indicate that not all the problems of this nature have been solved. Translation of the documents involved problems relating to the terminology of real estate transfer, topography, and lexicology, all of which matters have been relegated to the various appendices. The documents form the basis for a study of the phonetic values of the graphics (Part III, Phonology), and a study of the grammatical forms (Part IV, Morphology) found in the texts. These studies are by no means exhaustive in nature, and attempt merely to supplement and if necessary modify the conclusions found in the two interpretative studies by Mr. Ake Grafstrom (Etude sur la graphie des plus anciennes chartes languedociennes, and Etude sur la morphologie des des plus anciennes chartes languedociennes) of the linguistic content of a collection of original Old Occitan charters (11th to 12th centuries) reproduced by Clovis Brunei. (Although these documents predate our corpus, evidence is presented to show that the graphies and forms found in Brunei's collection are directly comparable with the 13th century texts of la Salvetat). On the assumption that a highly localised sample of scripta such as these charters exhibit may serve to determine the spoken forms typical of that area, an attempt is made to characterise the phonetic and morphological features of the Albigensian dialect of which our charters are deemed representative. The main interest of the thesis lies in the presentation of hitherto unpublished Old Occitan documents, here made available for further study by the historian, by the toponymist, and by the student of mediaeval legal procedure; and also in the attempts made to relate these to the spoken forms then current in the area of their composition.
Signatures of Nucleotide Analog Incorporation by an RNA-Dependent RNA Polymerase Revealed Using High-Throughput Magnetic Tweezers
Creators: name: Oh, H.-S.
name: van Laar, T.
name: Arnold, J.J.
name: Dulin, D.
name: Lee, C.
name: Depken, M.
name: Perkins, A.L.
name: Depken, M.
name: van Laar, T.
name: Dulin, D.
name: Harki, D.A.
name: Perkins, A.L.
name: Dekker, N.H.
name: Cameron, C.E.
name: Harki, D.A.
name: Oh, H.-S.
name: Dekker, N.H.
name: Arnold, J.J.
name: Cameron, C.E.
name: Lee, C.
Publisher: name: Elsevier B.V.
Year: 2017

description: RNA viruses pose a threat to public health that is exacerbated by the dearth of antiviral therapeutics. The RNA-dependent RNA polymerase (RdRp) holds promise as a broad-spectrum, therapeutic target because of the conserved nature of the nucleotide-substrate-binding and catalytic sites. Conventional, quantitative, kinetic analysis of antiviral ribonucleotides monitors one or a few incorporation events. Here, we use a high-throughput magnetic tweezers platform to monitor the elongation dynamics of a prototypical RdRp over thousands of nucleotide-addition cycles in the absence and presence of a suite of nucleotide analog inhibitors. We observe multiple RdRp-RNA elongation complexes; only a subset of which are competent for analog utilization. Incorporation of a pyrazine-carboxamide nucleotide analog, T-1106, leads to RdRp backtracking. This analysis reveals a mechanism of action for this antiviral ribonucleotide that is corroborated by cellular studies. We propose that induced backtracking represents a distinct mechanistic class of antiviral ribonucleotides. Dulin et al. find that a prototypical RNA-dependent RNA polymerase (RdRp) visits several states during nucleotide synthesis, of which only one incorporates nucleotide analogs with therapeutic potential. Different analogs exhibit distinct kinetic signatures, with an analog thought to induce chain termination actually promoting RdRp backtracking. © 2017 The Authors
Measurements of the CKM angle $ϕ_3/γ$
Creators: name: Aushev, T.
Publisher: name: arXiv
Year: 2009
Subjects: subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: In this report we summarize the most recent results of measurements of the angle $γ/ϕ_3$ of the Unitarity Triangle.
description: 4 pages proceedings for CIPANP'09 conference
PR - Civic Engagement Issues In Agricultural Economies (p505-512)
Creators: name: Bruynis, Chris
Publisher: name: Unknown
Year: 2011
Subjects: subject: Teaching/Communication/Extension/Profession
subject: Civic Engagement
subject: Leadership
subject: Farm Structure

description: The relationship between farm structure and community well-being has been frequently researched. Conclusions were drawn that rural communities had better socioeconomic conditions when small to medium family farms were prevalent. Other research reported civic engagement had greater impact on rural well-being than farm structure and farm structure was correlated with civic engagement. The research objective of this study was to determine the relationship between civic engagement and farm structure. The study population consisted of farming dependent counties in the Corn Belt Region of the United States. These counties had an average population loss of 2% between 1990 and 2000, an average population density of 6 people per square kilometre, and an average farm size of 233 hectare. Six variables representing farm structure and four demographic variables were included in the regression model as independent variables. A hierarchal regression model was used to determine the relationship between civic engagement and farm structure. Voting participation and church membership were proxies for civic engagement and used as the dependent variable in two separate models. For both voting participation and church membership, the hypothesis of no relationship between farm structure and civic engagement was rejected. The model containing the dependent variable voting participation had three variables relatively important with an adjusted R2 of .31. The important variables were home ownership, part-time farmers, and off-farm residence. The complete model containing the dependent variable church membership had an adjusted R2 of .58 and contained six relatively important variables. These variables were small businesses per capita, home ownership, part-time farmers, off-farm residence, not sole proprietors, and hired farm workers. Community leaders need to understand the dynamics of the changing farm structure at work in their communities and find solutions aimed at increasing civic engagement levels. University educators, elected officials and community can affect civic engagement by encouraging the development and retention of small sustainable agricultural and non-agricultural businesses and developing programs that promote home ownership in rural communities.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011
A comparison of approaches to account for uncertainty in analysis of imputed genotypes
Creators: name: Li, Y.
name: Zheng, J.
name: Abecasis, G.R.
name: Scheet, P.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2011

description: The availability of extensively genotyped reference samples, such as "The HapMap" and 1,000 Genomes Project reference panels, together with advances in statistical methodology, have allowed for the imputation of genotypes at single nucleotide polymorphism (SNP) markers that are untyped in a cohort or case-control study. These imputation procedures facilitate the interpretation and meta-analyses of genome-wide association studies. A natural question when implementing these procedures concerns how best to take into account uncertainty in imputed genotypes. Here we compare the performance of the following three strategies: least-squares regression on the "best-guess" imputed genotype; regression on the expected genotype score or "dosage"; and mixture regression models that more fully incorporate posterior probabilities of genotypes at untyped SNPs. Using simulation, we considered a range of sample sizes, minor allele frequencies, and imputation accuracies to compare the performance of the different methods under various genetic models. The mixture models performed the best in the setting of a large genetic effect and low imputation accuracies. However, for most realistic settings, we find that regressing the phenotype on the estimated allelic or genotypic dosage provides an attractive compromise between accuracy and computational tractability.
PR - Understanding The Kondinin Group Phenomenon â€“ A Study Of An Innovative Farmer Organisation (p437-443)
Creators: name: Casey, Mark
name: Cameron, Donald
Publisher: name: Unknown
Year: 2011
Subjects: subject: Farm Management
subject: Kondinin Group
subject: farming organisations
subject: farmer groups

description: This paper studies the background of one of the largest farmer organisations in Australia and its significant role in influencing practice change and farm management decisions. The Kondinin Group was formed as a self-help farmer group to study farm machinery reliability in the wheatbelt of Western Australia in 1955. It grew substantially in the 1990s and since 2000 has had about 10,000 members from mostly large scale cropping and livestock enterprises. The paper draws on academic research under the auspices of the University of Queensland, which included a survey of 1501 Kondinin Group members in 2001, as well as the observations and experience of co-author Mark Casey who worked as a manager at the farmer organisation. From the survey and key informants it is clear that the Kondinin Group had a significant impact on the farm practices of its members. It was preferred over consultants, suppliers, state departments of agriculture and accountants as a source of reliable and impartial information. It was regarded as by far the most useful source of new ideas, and was ranked as first or second most useful source in each of six other categories of information. Of the total sample, 55 per cent reported changing practices based on Kondinin information. This paper also looks at what principles were applied by the Kondinin Group and what aspects of the organisationâ€™s business approach were successful in expanding its member base and influence in Australian agriculture. From observation it seems the use of marketing concepts, practical information and maintaining an independent perspective were important in the groupâ€™s growth.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011
Genome-wide asociation study identifies a psoriasis susceptibility locus at TRAF3IP2
Creators: name: Debrus, S.
name: Reinhard, C.
name: Franke, A.
name: Albrecht, M.
name: Belouchi, M.
name: Voorhees, J.J.
name: Mrowietz, U.
name: Kunz, M.
name: Ding, J.
name: Stuart, P.E.
name: Gudjonson, J.
name: Eberlein, B.
name: Rahman, P.
name: Gieger, C.
name: Fournier, H.
name: Wichman, H.E.
name: Abecasis, G.R.
name: Karlsen, T.H.
name: Weichenthal, M.
name: Schreiber, S.
name: Weidinger, S.
name: Kabelitz, D.
name: Li, Y.
name: Nair, R.P.
name: Elinghaus, E.
name: Elinghaus, D.
name: Raelson, J.V.
name: Gladman, D.D.
name: Elder, J.T.
name: Stoll, S.W.
name: Lambert, S.
name: Mayr, G.
name: Tejasvi, T.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2010

description: Psoriasis is a multifactorial skin disease characterized by epidermal hyperproliferation and chronic inflaMation, the most coMon form of which is psoriasis vulgaris (PsV). We present a genome-wide aSociation analysis of 2,339,118 SNPs in 472 PsV cases and 1,146 controls from Germany, with foLow-up of the 147 most significant SNPs in 2,746 PsV cases and 4,140 controls from thrE independent replication panels. We identified an aSociation at TRAF3IP2 on 6q21 and genotyped two SNPs at this locus in two aDitional replication panels (the combined discovery and replication panels consisted of 6,487 cases and 8,037 controls; combined P = 2.36-10-10 for rs13210247 and combined P = 1.24-10-16 for rs33980500). About 15% of psoriasis cases develop psoriatic arthritis (PsA). A stratified analysis of our datasets including only PsA cases (1,922 cases compared to 8,037 controls, P = 4.57-10-12 for rs33980500) suGested that TRAF3IP2 represents a shared susceptibility for PsV and PsA. TRAF3IP2 encodes a protein involved in IL-17 signaling and which interacts with members of the Rel/NF-κB transcription factor family.
Additional file 11 of Characterization of poplar growth-regulating factors and analysis of their function in leaf size control
Creators: name: Wang, Jinnan
name: Zhou, Houjun
name: Zhao, Yanqiu
name: Sun, Pengbo
name: Tang, Fang
name: Song, Xueqin
name: Lu, Meng-Zhu
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 11: Table S3. Primers used in gene cloning and qRT-PCR analysis.
PR - A Simulation Model To Evaluate The Effect Of Cooperation Between Grain Merchants In Managing Gm And Non-GM Segregation For Maize In Europe (p60-67)
Creators: name: ColÃ©No, F.C.
name: Hannachi, M.
Publisher: name: Unknown
Year: 2011
Subjects: subject: Agribusiness
subject: GM and non GM coexistence
subject: cooperation
subject: simulation model

description: GM and non-GM coexistence, as defined by the European commission, defines a product as non-GM if it contains less than 0.9% of GM material. A good solution to avoid the risk of mixing GM and non-GM in the landscape and during collection process is to define homogeneous production zone for GM and non GM. To allow such zone to be defined cooperation between grain merchants is needed. In this paper we want to evaluate if such cooperation have an interest for grain collection management. To do so we used a simulation model of the collection process. The simulation shows that such cooperation between companies allows them to collect more non GM product than the situation where they operate separately.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011
Unexpected sequences and structures of mtDNA required for efficient transcription from the first heavy-strand promoter
Creators: name: Williams, M.C.
name: Kastner, M.
name: Wang, Y.
name: Williams, M.C.
name: Cameron, C.E.
name: Murugesapillai, D.
name: Kastner, M.
name: Murugesapillai, D.
name: Arnold, J.J.
name: Prabhakar, S.
name: Lodeiro, M.F.
name: Oliver, G.V.
name: Cameron, C.E.
name: Maher, L.J., III
name: Uchida, A.
name: Lodeiro, M.F.
name: Maher, L.J., III
name: Arnold, J.J.
name: Oliver, G.V.
name: Prabhakar, S.
name: Uchida, A.
name: Wang, Y.
Publisher: name: eLife Sciences Publications Ltd
Year: 2017

description: Human mtDNA contains three promoters, suggesting a need for differential expression of the mitochondrial genome. Studies of mitochondrial transcription have used a reductionist approach, perhaps masking differential regulation. Here we evaluate transcription from light-strand (LSP) and heavy-strand (HSP1) promoters using templates that mimic their natural context. These studies reveal sequences upstream, hypervariable in the human population (HVR3), and downstream of the HSP1 transcription start site required for maximal yield. The carboxyterminal tail of TFAM is essential for activation of HSP1 but not LSP. Images of the template obtained by atomic force microscopy show that TFAM creates loops in a discrete region, the formation of which correlates with activation of HSP1; looping is lost in tail-deleted TFAM. Identification of HVR3 as a transcriptional regulatory element may contribute to between-individual variability in mitochondrial gene expression. The unique requirement of HSP1 for the TFAM tail may enable its regulation by post-translational modifications. © Uchida et al.
PR - QuickenÂ® Vs. QuickbooksÂ® For Farm/Ranch Financial Records (p418-426)
Creators: name: Doye, Damona
Publisher: name: Unknown
Year: 2011
Subjects: subject: Agricultural Finance
subject: Financial records
subject: software
subject: Quicken

description: Farm records are the foundation from which many on-farm decisions are made and offer invaluable insights into business strengths and weaknesses. Recordkeeping software enables users to quickly record, then sort and summarize records in a variety of ways. This paper briefly discusses U.S. farmerâ€™s adoption and use of computers, then compares and contrasts the applicability of two popular commercial software packages for use in farm/ranch financial records. The features of QuickenÂ® and QuickBooksÂ® are highlighted and their advantages and disadvantages in supporting farm management functions are discussed. Both tools are relatively easy to use and flexible. For many U.S. farmers, QuickenÂ® is an inexpensive alternative with advantages for producers who want to track both family and farm income and expenses and/or have off-farm investments. For larger producers with multiple employees and/or the need to invoice and track accounts payable/receivable, QuickBooksÂ® is clearly superior. Teaching materials available for each are discussed. Mention of a specific product does not imply endorsement.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011
Enhancement of tunneling density of states at a junction of three Luttinger liquid wires
Creators: name: Agarwal, Amit
name: Das, Sourin
name: Rao, Sumathi
name: Sen, Diptiman
Publisher: name: arXiv
Year: 2008
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: We study the tunneling density of states (TDOS) for a junction of three Tomonaga-Luttinger liquid wires. We show that there are fixed points which allow for the enhancement of the TDOS, which is unusual for Luttinger liquids. The distance from the junction over which this enhancement occurs is of the order of x = v/(2 ω), where v is the plasmon velocity and ωis the bias frequency. Beyond this distance, the TDOS crosses over to the standard bulk value independent of the fixed point describing the junction. This finite range of distances opens up the possibility of experimentally probing the enhancement in each wire individually.
description: 4 pages including 3 figures; corrected a minor typo which appeared in the published version
Triphosphate reorientation of the incoming nucleotide as a fidelity checkpoint in viral RNA-dependent RNA Polymerases
Creators: name: Cameron, C.E.
name: Liu, X.
name: Arnold, J.J.
name: Liu, X.
name: Boehr, D.D.
name: Musser, D.M.
name: Yang, X.
name: Arnold, J.J.
name: Yang, X.
name: Moustafa, I.M.
name: Boehr, D.D.
name: Cameron, C.E.
name: Moustafa, I.M.
name: Musser, D.M.
Publisher: name: American Society for Biochemistry and Molecular Biology Inc.
Year: 2017

description: The nucleotide incorporation fidelity of the viral RNA-dependent RNA polymerase (RdRp) is important for maintaining functional genetic information but, at the same time, is also important for generating sufficient genetic diversity to escape the bottlenecks of the host's antiviral response. We have previously shown that the structural dynamics of the motifDloop are closely related to nucleotide discrimination. Previous studies have also suggested that there is a reorientation of the triphosphate of the incoming nucleotide, which is essential before nucleophilic attack from the primer RNA 3-hydroxyl. Here, we have used 31PNMRwith poliovirus RdRp to show that the binding environment of the triphosphate is different when correct versus incorrect nucleotide binds.Wealso show that amino acid substitutions at residues known to interact with the triphosphate can alter the binding orientation/environment of the nucleotide, sometimes lead to protein conformational changes, and lead to substantial changes in RdRp fidelity. The analyses of other fidelity variants also show that changes in the triphosphate binding environment are not always accompanied by changes in the structural dynamics of the motif D loop or other regions known to be important for RdRp fidelity, including motif B. Altogether, our studies suggest that the conformational changes in motifs B and D, and the nucleoside triphosphate reorientation represent separable, "tunable" fidelity checkpoints.
PR - Comparing Maize Management And Coexistence Means Between GM And Non GM Maize In Two French Regions (p103-110)
Creators: name: Fargue-LeliÃ¨Vre, A.
name: Duquesne, S.
name: Auguste, C.
name: ColÃ©No, F-C.
name: Le Bail, M.
Publisher: name: Unknown
Year: 2011
Subjects: subject: Agribusiness
subject: Crop Production/Industries
subject: coexistence
subject: farm level
subject: maize management

description: We compared how coexistence in maize at the farm level was i) envisioned in the east of France where GM have never been really cropped, and ii) managed in the south of France where GM maize was cropped in 2006 and 2007. Surveys in respectively 27 and 23 contrasted farms were made in maize-rich sub-regions with high maize pest pressure. Sampling farms for diversity, we used semi-directive interviews with two different protocols for the 2 regions. After data analysis, we identified factors explaining the choice of GM or NGM maize cropping like: presence of maize specialty crops (no GM), presence of other technical scope of progress for maize yield (no GM), perception of corn borer as a risk (more GM) or return time of maize (more GM when maize is frequent). We also identified the different coexistence means preferred according to the region: buffer zone in the South of France with its large fields and sowing period shifts in the East of France where available sowing days are plenty in the spring. We also found out that the results of the first year of testing the GM crop may be the main factor explaining GM maize adoption or abandonment. We will use these results to build a multi-criteria model of maize allocation in a small region.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011
Bulk viscosities for cold Fermi superfluids close to the unitary limit
Creators: name: Escobedo, Miguel Angel
name: Mannarelli, Massimo
name: Manuel, Cristina
Publisher: name: arXiv
Year: 2009
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: Other Condensed Matter (cond-mat.other)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We compute the coefficients of bulk viscosity for a non-relativistic superfluid corresponding to a fermionic system close to the unitarity limit. We consider the low temperature regime assuming that the transport properties of the system are dominated by phonons. To compute the coefficients of bulk viscosity we use kinetic theory in the relaxation time approximation and the low energy effective field theory of the corresponding system. We show that the three independent bulk viscosity coefficients, $ζ_1, ζ_2, ζ_3$, associated with irreversible flows vanish for phonons with a linear dispersion law. Considering a phonon dispersion law with a cubic term in momentum we find that in the conformal limit $ζ_1 = ζ_2=0$, while $ζ_3$ is non-zero. Including a conformal breaking term which arises for a large but finite s-wave scattering length, $a$, at the leading order in $1/a$ we obtain that $ζ_1 \propto 1/a$ and $ζ_2 \propto 1/a^2$.
description: 14 pages, minor corrections, references added, closely matches published version
Genome-wide asociation analysis identifies three psoriasis susceptibility loci
Creators: name: Krueger, G.G.
name: Gladman, D.D.
name: Mrowietz, U.
name: Li, Y.
name: Lim, H.W.
name: Ike, R.
name: Nair, R.P.
name: Elinghaus, E.
name: Wichman, H.E.
name: Vorhes, J.J.
name: Elder, J.T.
name: Gieger, C.
name: Tejasvi, T.
name: Eberlein, B.
name: Stuart, P.E.
name: Bowcock, A.M.
name: Weidinger, S.
name: Weichenthal, M.
name: Kunz, M.
name: Rahman, P.
name: Franke, A.
name: Ding, J.
name: Gudjonson, J.E.
name: Abecasis, G.R.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2010

description: We carried out a meta-analysis of two recent psoriasis genome-wide asociation studies with a combined discovery sample of 1,831 affected individuals (cases) and 2,546 controls. One hundred and two loci selected based on P value rankings were foLowed up in a thrE-stage replication study including 4,064 cases and 4,685 controls from Michigan, Toronto, Newfoundland and Germany. In the combined meta-analysis, we identified thrE new susceptibility loci, including one at NOS2 (rs4795067, combined P = 4-10-11), one at FBXL19 (rs10782001, combined P = 9-10-10) and one near PSMA6-NFKBIA (rs12586317, combined P = 2-10-8). AL thrE loci were also aSociated with psoriatic arthritis (rs4795067, combined P = 1-10-5; rs10782001, combined P = 4-10-8; and rs12586317, combined P = 6-10-5) and purely cutaneous psoriasis (rs4795067, combined P = 1-10-8; rs10782001, combined P = 2-10-6; and rs12586317, combined P = 1-10-6). We also replicated a recently identified asociation signal near RNF114 (rs495337, combined P = 2-10-7).
PR - Competitiveness And Risk Of Crop Production, Milk Production And Biogas Production With Respect To Regional Resources (p133-144)
Creators: name: Fuchs, Clemens
name: Bogatov, Vladimir
name: Eimannsberger, Johann
Publisher: name: Unknown
Year: 2011
Subjects: subject: Resource /Energy Economics and Policy
subject: Risk and Uncertainty
subject: renewable energy
subject: biogas
subject: crop

description: Renewable energies in Germany are strongly supported by legislation. Farmers expect that renewable energy can help them to increase and stabilise their income . In this respect, biogas is an important pillar in the overall context of renewable energies. Feedstocks for biogas plants are energy crops (corn silage) and liquid manure, among others. A multi period farm model with different operation branches (crop production, dairy and biogas production) reflects the interactions and analyses the competitiveness applying Monte Carlo simulation. On a single farm scale, entrepreneurs are well advised to take advantage of the current frame conditions with respect to investments in middle-size biogas plants. Up to now biogas plants are unevenly distributed at the regional level. The competitive advantage of biogas production will bring the corn cultivation area up to the regional limit of the individual agricultural region; as long as frame conditions especially remuneration will not change. At current remuneration the investments in biogas plants are expected to increase further. Appling Linear Programming models for the research area of the German federal state Schleswig-Holstein, it can be stated that the biogas production led to an increase in agricultural value added. Considering the development of income and its distribution in investing in biogas plants, it is possible to point out over-compensation, because rising incomes are not associated with more risk but with less. The cost of the risk of investment was passed by the legislator from the investors to the electricity consumers.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011
Bruxism
Creators: name: Robinson, Adrian
Publisher: name: University Of Tasmania
Year: 2023

description: PART 1 Bruxism is regarded as a relatively esoteric area for psychologists, and this thesis therefore attempts to set out in a fairly comprehensive manner a review of the bruxism literature with special emphasis on the contribution made by psychology to the understanding of the aetiology and treatment of bruxism. This review consists of three chapters: Chapter 1 defines and justifies interest in bruxism, Chapter 2 discusses the dental and psychological treatment of this disorder and Chapter 3 discusses the importance of psychol- ogical factors in the aetiology of bruxism. PART 2 Arising from the discussion in Part 1, Part 2 is an investigation of the psychological assessment of bruxists. It involved the simultaneous assessment of both psychological factors and the level of nocturnal bruxism. Data was collected on both psychological and objective measures from a21 year old female over a six week period. The results indicated significant correlations between certain psychological indices and objective measures of bruxing behaviour. However, due to the number of correlations calculated, little credence can be given to these unpredicted significant effects. The question of psychological assessment of bruxists for the purpose of differential diagnosis was prior to this study virtually ignored. This study, while having obvious limitations, points to an interesting direction for further research.
UGGT1 enhances enterovirus 71 pathogenicity by promoting viral RNA synthesis and viral replication
Creators: name: Huang, P.-N.
name: Shih, S.-R.
name: Shih, S.-R.
name: Wang, J.-R.
name: Wang, J.-R.
name: Cameron, C.E.
name: Jheng, J.-R.
name: Arnold, J.J.
name: Cameron, C.E.
name: Huang, P.-N.
name: Jheng, J.-R.
name: Arnold, J.J.
Publisher: name: Public Library of Science
Year: 2017

description: Positive-strand RNA virus infections can induce the stress-related unfolded protein response (UPR) in host cells. This study found that enterovirus A71 (EVA71) utilizes host UDP-glucose glycoprotein glucosyltransferase 1 (UGGT1), a key endoplasmic reticulum protein (ER) involved in UPR, to enhance viral replication and virulence. EVA71 forms replication complexes (RCs) on cellular membranes that contain a mix of host and viral proteins to facilitate viral replication, but the components and processes involved in the assembly and function of RCs are not fully understood. Using EVA71 as a model, this study found that host UGGT1 and viral 3D polymerase co-precipitate along with other factors on membranous replication complexes to enhance viral replication. Increased UGGT1 levels elevated viral growth rates, while viral pathogenicity was observed to be lower in heterozygous knockout mice (Uggt1 +/- mice). These findings provide important insight on the role of UPR and host UGGT1 in regulating RNA virus replication and pathogenicity.
Biochemical and genetic analysis of the role of the viral polymerase in enterovirus recombination
Creators: name: Arnold, J.J.
name: Evans, D.J.
name: Arnold, J.J.
name: Cameron, C.E.
name: Woodman, A.
name: Woodman, A.
name: Evans, D.J.
name: Cameron, C.E.
Publisher: name: Oxford University Press
Year: 2016

description: Genetic recombination in single-strand, positive-sense RNA viruses is a poorly understand mechanism responsible for generating extensive genetic change and novel phenotypes. By moving a critical cis-acting replication element (CRE) from the polyprotein coding region to the 3′ non-coding region we have further developed a cell-based assay (the 3′CRE-REP assay) to yield recombinants throughout the non-structural coding region of poliovirus from dually transfected cells. We have additionally developed a defined biochemical assay in which the only protein present is the poliovirus RNA dependent RNA polymerase (RdRp), which recapitulates the strand transfer events of the recombination process. We have used both assays to investigate the role of the polymerase fidelity and nucleotide turnover rates in recombination. Our results, of both poliovirus intertypic and intratypic recombination in the CRE-REP assay and using a range of polymerase variants in the biochemical assay, demonstrate that RdRp fidelity is a fundamental determinant of recombination frequency. High fidelity polymerases exhibit reduced recombination and low fidelity polymerases exhibit increased recombination in both assays. These studies provide the basis for the analysis of poliovirus recombination throughout the non-structural region of the virus genome and provide a defined biochemical assay to further dissect this important evolutionary process.
Changes in the electrical transport of ZnO under visible light
Creators: name: Dusari, S.
name: Barzola-Quiquia, J.
name: Esquinazi, P.
name: Heluani, S. P.
Publisher: name: arXiv
Year: 2009
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Complex impedance spectroscopy data in the frequency range 16Hz < f < 3 MHz at room temperature were acquired on pure ZnO single crystal and thin film. The measured impedance of the ZnO samples shows large changes with time after exposure to or covering them from visible light. At fixed times Cole-Cole-diagrams indicate the presence of a single relaxation process. A simple analysis of the impedance data allows us to obtain two main relaxation times. The behavior for both, ZnO crystal and thin film, is similar but the thin film shows shorter relaxation times. The analysis indicates the existence of two different photo-active defects with activation energies between ~0.8 eV and ~1.1 eV.
description: 11 pages, 9 figures. Solid state communications, in press
Multi-focal control of mitochondrial gene expression by oncogenic MYC provides potential therapeutic targets in cancer
Creators: name: King, M.P.
name: Pfeiffer, H.K.
name: Shadel, G.S.
name: Shadel, G.S.
name: Gaballa, M.R.
name: Pfeiffer, H.K.
name: Cotney, J.L.
name: Chodosh, L.A.
name: Shen, C.
name: Sharma, S.D.
name: McMahon, S.B.
name: Arnold, J.J.
name: Eischen, C.M.
name: Gaballa, M.R.
name: Oran, A.R.
name: Bradner, J.E.
name: Cotney, J.L.
name: Mascioli, K.
name: Thompson, J.E.
name: Vakoc, C.R.
name: Seidel, H.E.
name: Kaplan, J.
name: Mellert, H.S.
name: Shen, C.
name: King, M.P.
name: Arnold, J.J.
name: Oran, A.R.
name: Kaplan, J.
name: Chodosh, L.A.
name: Seidel, H.E.
name: McMahon, S.B.
name: Adams, C.M.
name: Cameron, C.E.
name: Vakoc, C.R.
name: Cameron, C.E.
name: Thompson, J.E.
name: Martinez-Outschoorn, U.E.
name: Eischen, C.M.
name: Sharma, S.D.
name: Gennaro, V.J.
name: Zhang, X.-Y.
name: Rigoutsos, I.
name: Gennaro, V.J.
name: Mellert, H.S.
name: Bradner, J.E.
name: Rigoutsos, I.
name: Mascioli, K.
name: Martinez-Outschoorn, U.E.
name: Adams, C.M.
name: Zhang, X.-Y.
Publisher: name: Impact Journals LLC
Year: 2016

description: Despite ubiquitous activation in human cancer, essential downstream effector pathways of the MYC transcription factor have been difficult to define and target. Using a structure/function-based approach, we identified the mitochondrial RNA polymerase (POLRMT) locus as a critical downstream target of MYC. The multifunctional POLRMT enzyme controls mitochondrial gene expression, a process required both for mitochondrial function and mitochondrial biogenesis. We further demonstrate that inhibition of this newly defined MYC effector pathway causes robust and selective tumor cell apoptosis, via an acute, checkpoint-like mechanism linked to aberrant electron transport chain complex assembly and mitochondrial reactive oxygen species (ROS) production. Fortuitously, MYC-dependent tumor cell death can be induced by inhibiting the mitochondrial gene expression pathway using a variety of strategies, including treatment with FDA-approved antibiotics. In vivo studies using a mouse model of Burkitt's Lymphoma provide pre-clinical evidence that these antibiotics can successfully block progression of MYC-dependent tumors.
PR - Dryland Camelina, A Systems Approach To On-farm Feed And Fuel: Preliminary Results (p204-213)
Creators: name: Fuolke, Thomas
name: Hess, Bret
Publisher: name: Unknown
Year: 2011
Subjects: subject: Resource /Energy Economics and Policy
subject: Camelina
subject: oilseed
subject: biodiesel

description: Recent interest in camelina production in the western United States has been generated by interest in establishing this oilseed as a rotational crop in a dry land system. Part of the interest lies in the ability to make biodiesel from the oil and use the meal as livestock feed. This paper uses a systems approach to size a production system for a single producer on-farm feeding and fuel system. A spreadsheet â€œCamelina Calculatorâ€ has been developed that estimates production costs for feed and fuel and can be adjusted for different yields and herd size from which estimates of profitability can be obtained. The results show that in the eastern part of Wyoming, yields are not high enough to make this an economically viable prospect, primarily due to climatic conditions and the high cost of an oil seed press. Higher yields reported in Montana and perhaps some type of multiple ownership scheme for the press appear to be better alternatives. An interesting observation is that the cost avoided of feeding camelina meal instead of a corn/soybean ration provides the bulk of the savings in this system. The biodiesel production system itself, though apparently capable of producing a sufficient quantity and quality of biodiesel appears capital, labour and skill intensive for the individual producer.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011
Application of morphometric techniques to the taxonomy of the genus Grammitis Sw. (Filices: Grammitidaceae) in SE Australia and New Zealand
Creators: name: Robinson, Barrie
Publisher: name: University Of Tasmania
Year: 2023

description: Grammitis Sw. is a genus of small ferns found mostly in tropical regions in mossy, high altitude forests. It occurs in south eastern Australia and New Zealand, where it has been poorly understood until recently. The taxonomy of the genus has been less than satisfactory, with all material being lumped by most workers into a single variable species, G. billardieri Willd. In 1975, Parris, and in 1976, Parris and Given published revisions of Grammitis for Australia and New Zealand, respectively, establishing the new species, G. meridionalis, G. stenophylla, G. rawlingsii, G. pseudociliata and G. givenii as well as a number of tropical ones. However, these revisions do not always distinguish satisfactorily between these new species and those previously described. In an attempt to clarify the status of the species in Australia and New Zealand, multivariate statistical techniques were applied to a wide range of characters (including biochemical ones). Another research objective was to assess the suitability of various statistical techniques for making taxonomic decisions such as those required in this study. The techniques used included both univariate and multivariate analysis of variance, quadratic discriminant analysis, stepwise linear discriminant analysis, single linkage cluster analysis using K-dissimilarities based on normal information radii and Akaike's information criterion. With the exception of cluster analysis, these techniques gave better species definition than classical techniques as presently applied. It was determined that G. meridionalis Parris is distinct from G. billardieri Willd., but that it is difficult to separate from G. magellanicaDesv., and may need to be reduced to a subspecies of the latter. It was further determined that certain populations of Grammitis in Tasmania are identical with G. magellanica Desv. ssp. magellanica, and G. patagonica (C. Chr.) Parris, respectively, both of which are presently recognized as being restricted to South America and the territory of New Zealand. The subspecific compositions of G. poeppigiana (Mett.) Pic. Ser. and of G. magellanica Desv. were examined, and no evidence was found for any change to the status quo, other than the possible incorporation of G. meridionalis Parris into G. magellanica Desv. Finally, the application of these statistical techniques suggested that certain populations from Western Tasmania may represent an undescribed species. Further work, outlined in this thesis, needs to be undertaken to determine the status of both of these last populations.
The RNA Template Channel of the RNA-Dependent RNA Polymerase as a Target for Development of Antiviral Therapy of Multiple Genera within a Virus Family
Creators: name: Canard, B.
name: Lefebvre, D.
name: Pürstinger, G.
name: De Palma, A.M.
name: van Kuppeveld, F.J.M.
name: Boehr, D.D.
name: van Kuppeveld, F.J.M.
name: Neyts, J.
name: Goris, N.
name: Cameron, C.E.
name: Vives-Adrián, L.
name: Vives-Adrián, L.
name: Lacroix, C.
name: van der Linden, L.
name: Coutard, B.
name: Canard, B.
name: Liu, X.
name: Selisko, B.
name: Ulferts, R.
name: Ferrer-Orta, C.
name: De Clercq, K.
name: Verdaguer, N.
name: Leyssen, P.
name: De Clercq, K.
name: Tanchis, F.
name: Neyts, J.
name: Selisko, B.
name: Ferrer-Orta, C.
name: Boehr, D.D.
name: van der Linden, L.
name: Tanchis, F.
name: Cameron, C.E.
name: Lefebvre, D.
name: Lacroix, C.
name: Leyssen, P.
name: De Palma, A.M.
name: Coutard, B.
name: Ulferts, R.
name: Pürstinger, G.
name: Arnold, J.J.
name: Goris, N.
name: Lanke, K.
name: Arnold, J.J.
name: Verdaguer, N.
name: Lanke, K.
name: Liu, X.
Publisher: name: Public Library of Science
Year: 2015

description: The genus Enterovirus of the family Picornaviridae contains many important human pathogens (e.g., poliovirus, coxsackievirus, rhinovirus, and enterovirus 71) for which no antiviral drugs are available. The viral RNA-dependent RNA polymerase is an attractive target for antiviral therapy. Nucleoside-based inhibitors have broad-spectrum activity but often exhibit off-target effects. Most non-nucleoside inhibitors (NNIs) target surface cavities, which are structurally more flexible than the nucleotide-binding pocket, and hence have a more narrow spectrum of activity and are more prone to resistance development. Here, we report a novel NNI, GPC-N114 (2,2'-[(4-chloro-1,2-phenylene)bis(oxy)]bis(5-nitro-benzonitrile)) with broad-spectrum activity against enteroviruses and cardioviruses (another genus in the picornavirus family). Surprisingly, coxsackievirus B3 (CVB3) and poliovirus displayed a high genetic barrier to resistance against GPC-N114. By contrast, EMCV, a cardiovirus, rapidly acquired resistance due to mutations in 3Dpol. In vitro polymerase activity assays showed that GPC-N114 i) inhibited the elongation activity of recombinant CVB3 and EMCV 3Dpol, (ii) had reduced activity against EMCV 3Dpol with the resistance mutations, and (iii) was most efficient in inhibiting 3Dpol when added before the RNA template-primer duplex. Elucidation of a crystal structure of the inhibitor bound to CVB3 3Dpol confirmed the RNA-binding channel as the target for GPC-N114. Docking studies of the compound into the crystal structures of the compound-resistant EMCV 3Dpol mutants suggested that the resistant phenotype is due to subtle changes that interfere with the binding of GPC-N114 but not of the RNA template-primer. In conclusion, this study presents the first NNI that targets the RNA template channel of the picornavirus polymerase and identifies a new pocket that can be used for the design of broad-spectrum inhibitors. Moreover, this study provides important new insight into the plasticity of picornavirus polymerases at the template binding site.
PR - Development And Challenges Of Bulgarian Dairy Industry In The Last Two Decades (p181-188)
Creators: name: Garnevska, Elena
name: Bencheva, Nelly
Publisher: name: Unknown
Year: 2011
Subjects: subject: Industrial Organization
subject: Bulgarian dairy industry
subject: Bulgaria
subject: Bulgarian agriculture

description: This paper provides an overview of the dairy sector in Bulgaria and discusses the challenges and opportunities faced by this sector in the last two decades. The dairy sector in Bulgaria has passed through several phases: transition period (1990-1999), EU pre-accession period (2000-2006) and post-accession period (since 2007). Each of these periods strongly impacted the development of this sector. Review of existing literature and data were used for the analysis of the dairy sector in Bulgaria. New market, economic and organisational environment negatively impacted this sector. However, EU membership has presented some opportunities for revitalising the dairy sector and for improving the competitiveness of the Bulgarian dairy products.
description: Eighteenth International Farm Management Congress, Methven, New Zealand, 2011