cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Presented in partial Fulfillment of the requirements for the Degree of Master of Science in Accounting and Finance
Creators: name: Endale Tessema
Publisher: name: Zenodo
Year: 2016

description: This paper presents an empirical study of selection criteria employed by multiple bank users. The study chose to sample a specific consumer segment in Addis Ababa, namely business person and employees. The purpose of this study is to examine the significance of bank selection criteria on multiple bank users and how customers rank the factors based on their importance level to patronize multiple banks and banking services. Both quantitative and qualitative methodology, incorporating 193 respondents is employed in the analysis. A non-probability convenience sampling was used due to the unavailability of sampling frame of bank customers’ or infinite population and data was factor analyzed to reduce the number of total variables in to manageable way. Findings show that Branch location and Availability of ATM are influential and significantly more important in prompting choice of multiple banks. This finding indicates that bank customers’ place great emphasis on the attribute of saving time and many customers place great emphasis on their banks offering locational convenience. Proximity and Service provision are also significantly more important in prompting multiple banks. Therefore; such factors should be considered seriously by the commercial banks in designing their marketing strategies by expanding their branches and ATM availability with convenient location and providing good customers services to customers.
Three-loop Neutrino Mass Model with Doubly Charged Particles from Iso-Doublets
Creators: name: Okada, Hiroshi
name: Yagyu, Kei
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We propose a new type of a three-loop induced neutrino mass model with dark matter candidates which are required for the neutrino mass generation. The smallness of neutrino masses can be naturally explained without introducing super heavy particles, namely, much heavier than a TeV scale and quite small couplings as compared to the gauge couplings. We find that as a bonus, the anomaly of the muon anomalous magnetic moment can simultaneously be explained by loop effects of new particles. In our model, there are doubly charged scalar bosons and leptons from isospin doublet fields which give characteristic collider signatures. In particular, the doubly charged scalar bosons can decay into the same-sign dilepton with its chirality of both right-handed or left- and right-handed. This can be a smoking gun signature to identify our model and be useful to distinguish other models with doubly charged scalar bosons at collider experiments.
description: Version accepted in Physical Review D
Additional file 1 of Role of pelitinib in the regulation of migration and invasion of hepatocellular carcinoma cells via inhibition of Twist1
Creators: name: Lee, Sewoong
name: Kang, Eunjeong
name: Lee, Unju
name: Cho, Sayeon
Publisher: name: figshare
Year: 2023
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Pharmacology
classificationCode: 39999
subject: Chemical Sciences not elsewhere classified
classificationCode: 69999
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer

description: Additional file 1: Supplementary Figure 1. Suppressive effects of pelitinib on cell migration and viability in Hep3B and SNU449. Supplementary Figure 2. Inhibition of pelitinib on Twist1 protein levels in Hep3B and SNU449. Supplementary Figure 3. Inhibitory effects of pelitinib on the activation of Akt and MAPK signaling pathways. Supplementary Figure 4. Confirmation of reduced Twist1 protein levels in Twist1-siRNA transfected cells.
On the Role of Conductance, Geography and Topology in Predicting Hashtag Virality
Creators: name: Bora, Siddharth
name: Singh, Harvineet
name: Sen, Anirban
name: Bagchi, Amitabha
name: Singla, Parag
Publisher: name: arXiv
Year: 2015
Subjects: subject: Social and Information Networks (cs.SI)
subject: Physics and Society (physics.soc-ph)
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences

description: We focus on three aspects of the early spread of a hashtag in order to predict whether it will go viral: the network properties of the subset of users tweeting the hashtag, its geographical properties, and, most importantly, its conductance-related properties. One of our significant contributions is to discover the critical role played by the conductance based features for the successful prediction of virality. More specifically, we show that the first derivative of the conductance gives an early indication of whether the hashtag is going to go viral or not. We present a detailed experimental evaluation of the effect of our various categories of features on the virality prediction task. When compared to the baselines and the state of the art techniques proposed in the literature our feature set is able to achieve significantly better accuracy on a large dataset of 7.7 million users and all their tweets over a period of month, as well as on existing datasets.
title: Le départ prématuré des infirmiers en milieu hospitalier
title: Le départ prématuré des infirmiers en milieu hospitalier
titleType: AlternativeTitle
Creators: name: Ajvazi, Sabina
name: Burion, Mégane
name: Nohpae, Naïké
Publisher: name: Unknown
Year: 0
Subjects: subject: Profession infirmière
subject: Pénurie
subject: Départ anticipé

description: La pénurie d’infirmiers, qui se chiffrait à 5,9 millions en 2020 dans le monde, est un enjeu majeur auquel plusieurs établissements de santé sont confrontés aujourd’hui. D’ici 2030, il est estimé que 10,6 millions d’infirmiers seront nécessaires à la palliation déficitaire des infirmiers dans le monde. Malgré que cette problématique soit connue et défendue par les professionnels de la santé, elle ne cesse de persister et de rester un enjeu majeur actuel. Le manque de personnel infirmier peut avoir d’importantes répercussions et ceci à plusieurs niveaux, que ce soit sur les systèmes de santé, les infirmiers, les patients ou encore sur la population. C’est pourquoi il serait pertinent d’identifier et de comprendre les facteurs prédictifs au départ prématuré des professionnels de la santé afin de proposer diverses interventions qui permettraient la rétention des infirmiers dans la profession.
Ramanujan Coverings of Graphs
Creators: name: Hall, Chris
name: Puder, Doron
name: Sawin, William F.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Combinatorics (math.CO)
subject: Group Theory (math.GR)
subject: FOS: Mathematics
subject: 05C25 05C50 20F55

description: Let $G$ be a finite connected graph, and let $ρ$ be the spectral radius of its universal cover. For example, if $G$ is $k$-regular then $ρ=2\sqrt{k-1}$. We show that for every $r$, there is an $r$-covering (a.k.a. an $r$-lift) of $G$ where all the new eigenvalues are bounded from above by $ρ$. It follows that a bipartite Ramanujan graph has a Ramanujan $r$-covering for every $r$. This generalizes the $r=2$ case due to Marcus, Spielman and Srivastava (2013). Every $r$-covering of $G$ corresponds to a labeling of the edges of $G$ by elements of the symmetric group $S_{r}$. We generalize this notion to labeling the edges by elements of various groups and present a broader scenario where Ramanujan coverings are guaranteed to exist. In particular, this shows the existence of richer families of bipartite Ramanujan graphs than was known before. Inspired by Marcus-Spielman-Srivastava, a crucial component of our proof is the existence of interlacing families of polynomials for complex reflection groups. The core argument of this component is taken from a recent paper of them (2015). Another important ingredient of our proof is a new generalization of the matching polynomial of a graph. We define the $r$-th matching polynomial of $G$ to be the average matching polynomial of all $r$-coverings of $G$. We show this polynomial shares many properties with the original matching polynomial. For example, it is real rooted with all its roots inside $\left[-ρ,ρ\right]$.
description: 38 pages, 4 figures, journal version (minor changes from previous arXiv version). Shortened version appeared in STOC 2016
Calcium, Electrolytes and Markers in Downer Cow  Predictions and Monitoring
Creators: name: A. Thamizharasi1, M. Veeraselvam2, N. Premalatha3 and S. Senthilkumar4
Publisher: name: The Science world a Monthly e magazine
Year: 2023

description: Blood tests play a crucial role in diagnosing and managing downer cows in dairy farming. This abstract summarizes key diagnostic markers and their significance in assessing the health and prognosis of downer cows. Creatine Phosphokinase (CPK) and Aspartate Transferase (AST) serve as specific indicators of muscle damage, while Non-Esterified Fatty Acid (NEFA) levels detect fatty liver. Serum electrolyte imbalances, particularly hypocalcemia and hypokalemia, are associated with prolonged recumbency. Serum magnesium and phosphorus levels are also considered. Ornithine Carbamoyltranferase (OCT) and Glutamate Dehydrogenase (GDH) values provide insights into the severity of fatty liver and hepatocellular damage. These blood tests aid in diagnosing underlying issues, guiding treatment, and improving the prognosis of downer cows in dairy herds.
Electronic Supplementary Material for Hensley et al. 2018 from Phenotypic evolution shaped by current enzyme function in the bioluminescent courtship signals of sea fireflies.
Creators: name: Nicholai M. Hensley
name: Ellis, Emily A.
name: Gerrish, Gretchen A.
name: Torres, Elizabeth
name: Frawley, John P.
name: Oakley, Todd H.
name: Rivers, Trevor J.
Publisher: name: The Royal Society
Year: 2019
Subjects: subject: Biochemistry
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 60801 Animal Behaviour

description: Written explanations, notes, extra analyses, and supplementary figures that provide additional context for main results of the paper.
Multiple sampling and interpolation in the classical Fock space
Creators: name: Borichev, Alexander
name: Hartmann, Andreas
name: Kellay, Karim
name: Massaneda, Xavier
Publisher: name: arXiv
Year: 2015
Subjects: subject: Complex Variables (math.CV)
subject: FOS: Mathematics

description: We study multiple sampling, interpolation and uniqueness for the classical Fock space in the case of unbounded mul-tiplicities.
Black hole spectroscopy from Loop Quantum Gravity models
Creators: name: Barrau, Aurelien
name: Cao, Xiangyu
name: Noui, Karim
name: Perez, Alejandro
Publisher: name: arXiv
Year: 2015
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Using Monte Carlo simulations, we compute the integrated emission spectra of black holes in the framework of Loop Quantum Gravity (LQG). The black hole emission rates are governed by the entropy whose value, in recent holographic loop quantum gravity models, was shown to agree at leading order with the Bekenstein-Hawking entropy. Quantum corrections depend on the Barbero-Immirzi parameter $γ$. Starting with black holes of initial horizon area $A \sim 10^2$ in Planck units, we present the spectra for different values of $γ$. Each spectrum clearly decomposes in two distinct parts: a continuous background which corresponds to the semi-classical stages of the evaporation and a series of discrete peaks which constitutes a signature of the deep quantum structure of the black hole. We show that $γ$ has an effect on both parts that we analyze in details. Finally, we estimate the number of black holes and the instrumental resolution required to experimentally distinguish between the considered models.
description: 11 pages, 9 figures
Additional file 1 of Similar skills, different frames: a thematic analysis exploring conceptualizations held by community-based organization practitioners and academics regarding skills to use evidence-based interventions to address cancer inequities
Creators: name: Ramanadhan, Shoba
name: Cruz, Jennifer L.
name: Weese, Maggie
name: Naveed, Natasha
name: Kirk, Shinelle
name: Rivard, Madison K.
name: Kirk, Judi
name: Whitaker, Albert
name: Peterson, Karen
name: Eisenkraft, Arthur
Publisher: name: figshare
Year: 2023
Subjects: subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
classificationCode: 69999
subject: Biological Sciences not elsewhere classified
subject: Science Policy

description: Additional file 1.
IPBES Data Management Workshop for the authors of the Transformative Change Assessment - November 2022
Creators: name: Niamir, Aidin
Publisher: name: Zenodo
Year: 2022

description: The IPBES technical support unit on knowledge and data organized the second data management workshop for the authors of the Transformative Change Assessment.
 The slides prepared for the live session can be downloaded from this repository. If you have any questions about the material, please contact us at tsu.data@ipbes.net.
DiffSplice: the genome-wide detection of differential splicing events with RNA-seq
Creators: name: Orellana, Christian F.
name: Liu, Jinze
name: Du, Ying
name: Makowski, Liza
name: Hu, Yin
name: Chiang, Derek Y.
name: Hammond, Scott M.
name: Jones, Corbin
name: Hayes, D. Neil
name: Prins, Jan F.
name: Johnson, Amy R.
name: Huang, Yan
name: Randell, Scott H.
name: Singh, Darshan
name: Liu, Yufeng
name: Kuan, Pei Fen
name: Monroy, Anaïs
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: The RNA transcriptome varies in response to cellular differentiation as well as environmental factors, and can be characterized by the diversity and abundance of transcript isoforms. Differential transcription analysis, the detection of differences between the transcriptomes of different cells, may improve understanding of cell differentiation and development and enable the identification of biomarkers that classify disease types. The availability of high-throughput short-read RNA sequencing technologies provides in-depth sampling of the transcriptome, making it possible to accurately detect the differences between transcriptomes. In this article, we present a new method for the detection and visualization of differential transcription. Our approach does not depend on transcript or gene annotations. It also circumvents the need for full transcript inference and quantification, which is a challenging problem because of short read lengths, as well as various sampling biases. Instead, our method takes a divide-and-conquer approach to localize the difference between transcriptomes in the form of alternative splicing modules (ASMs), where transcript isoforms diverge. Our approach starts with the identification of ASMs from the splice graph, constructed directly from the exons and introns predicted from RNA-seq read alignments. The abundance of alternative splicing isoforms residing in each ASM is estimated for each sample and is compared across sample groups. A non-parametric statistical test is applied to each ASM to detect significant differential transcription with a controlled false discovery rate. The sensitivity and specificity of the method have been assessed using simulated data sets and compared with other state-of-the-art approaches. Experimental validation using qRT-PCR confirmed a selected set of genes that are differentially expressed in a lung differentiation study and a breast cancer data set, demonstrating the utility of the approach applied on experimental biological data sets. The software of DiffSplice is available at http://www.netlab.uky.edu/p/bioinfo/DiffSplice.
Detecting Photon-Photon Interactions in a Superconducting Circuit
Creators: name: Jin, Li-Jing
name: Houzet, Manuel
name: Meyer, Julia S.
name: Baranger, Harold U.
name: Hekking, Frank W. J.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: A local interaction between photons can be engineered by coupling a nonlinear system to a transmission line. The required high impedance transmission line can be conveniently formed from a chain of Josephson junctions. The nonlinearity is generated by side-coupling this chain to a Cooper pair box. We propose to probe the resulting photon-photon interactions via their effect on the current-voltage characteristic of a voltage-biased Josephson junction connected to the transmission line. Considering the Cooper pair box to be in the weakly anharmonic regime, we find that the dc current through the probe junction yields features around the voltages $2eV=n\hbarω_s$, where $ω_s$ is the plasma frequency of the superconducting circuit. The features at $n\ge 2$ are a direct signature of the photon-photon interaction in the system.
description: 10 pages, 7 figures
Improved methods for creating migratable Holliday junction substrates
Creators: name: Hsieh, Tao Shih
name: Plank, Jody L.
name: Griffith, Jack D.
name: Willcox, Smaranda
name: Chen, Stefanie Hartman
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Previously, we published a method for creating a novel DNA substrate, the double Holliday junction substrate. This substrate contains two Holliday junctions that are mobile, topologically constrained and separated by a distance comparable with conversion tract lengths. Although useful for studying late stage homologous recombination in vitro, construction of the substrate requires significant effort. In particular, there are three bottlenecks: (i) production of large quantities of single-stranded DNA; (ii) the loss of a significant portion of the DNA following the recombination step; and (iii) the loss of DNA owing to inefficient gel extraction. To address these limitations, we have made the following changes to the protocol: (i) use of a helper plasmid, rather than exogenous helper phage, to produce single-stranded DNA; (ii) use of the unidirectional ϕC31 integrase system in place of the bidirectional Cre recombinase reaction; and (iii) gel extraction by DNA diffusion. Here, we describe the changes made to the materials and methods and characterize the substrates that can be produced, including migratable single Holliday junctions, hemicatenanes and a quadruple Holliday junction substrate.
Improved Chemical Tracer Simulation by MIROC4.0-based Atmospheric Chemistry-Transport Model (MIROC4-ACTM)
Creators: name: Prabir K. Patra, Masayuki Takigawa
Publisher: name: Zenodo
Year: 2022
Subjects: MIROC4-ACTM

description: The accuracy of chemical tracer simulations by atmospheric general circulation model (AGCM)-based chemistry-transport models (ACTMs) depends on the quality of AGCM transport properties, even when the meteorology is nudged towards the reanalysis fields. Here we show that significant improvements in tracer distribution are achieved when hybrid vertical coordinate is implemented in MIROC4.0 AGCM, compared to its predecessors AGCM5.7b based on sigma coordinate. Only explicitly resolved gravity waves are propagated into the stratosphere in MIROC4- ACTM. The MIROC4-ACTM produces “age-of-air” up to about 5 years in the tropical upper stratosphere (~1 hPa) and about 6 years in the polar middle stratosphere (~10 hPa), in agreement with observational estimates. Comparisons of MIROC4-ACTM simu- lation with observed sulphur hexafluoride (SF6) in the troposphere also show remarkable improvements over the AGCM57b-ACTM simulation. MIROC4-ACTM is characterized by weaker convec- tive mass flux and thus older age of air in the tropical troposphere, relative to AGCM57b-ACTM. The role of convective transport on tracer simulations is depicted using vertical cross-sections of 222Rn (radon) distributions. Both the ACTM versions show similar results when compared with 222Rn measurements at remote sites. All aspects of tracer transport in MIROC4-ACTM is promising for inverse modelling of greenhouse gases sources and sinks at reduced bias. Citation: Patra, P. K., M. Takigawa, S. Watanabe, N. Chandra, K. Ishijima, and Y. Yamashita, 2018: Improved chemical tracer simulation by MIROC4.0-based Atmospheric Chemistry-Transport Model (MIROC4-ACTM). SOLA, 14, 91−96, doi:10.2151/sola. 2018-016.
description: Citation: Patra, P. K., M. Takigawa, S. Watanabe, N. Chandra, K. Ishijima, and Y. Yamashita, 2018: Improved chemical tracer simulation by MIROC4.0-based Atmospheric Chemistry-Transport Model (MIROC4-ACTM). SOLA, 14, 91−96, doi:10.2151/sola. 2018-016.
Electronic Supplementary Material for Hensley et al. 2018 from Phenotypic evolution shaped by current enzyme function in the bioluminescent courtship signals of sea fireflies
Creators: name: Nicholai M. Hensley
name: Ellis, Emily A.
name: Gerrish, Gretchen A.
name: Torres, Elizabeth
name: Frawley, John P.
name: Oakley, Todd H.
name: Rivers, Trevor J.
Publisher: name: The Royal Society
Year: 2018
Subjects: subject: Biochemistry
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 60801 Animal Behaviour

description: Written explanations, notes, extra analyses, and supplementary figures that provide additional context for main results of the paper.
Improving detection of copy-number variation by simultaneous bias correction and read-depth segmentation
Creators: name: Wang, Wei
name: Sullivan, Patrick F.
name: Wang, Waibo
name: Szatkiewicz, Jin P.
name: Sun, Wei
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Structural variation is an important class of genetic variation in mammals. High-throughput sequencing (HTS) technologies promise to revolutionize copy-number variation (CNV) detection but present substantial analytic challenges. Converging evidence suggests that multiple types of CNV-informative data (e.g. read-depth, read-pair, split-read) need be considered, and that sophisticated methods are needed for more accurate CNV detection. We observed that various sources of experimental biases in HTS confound read-depth estimation, and note that bias correction has not been adequately addressed by existing methods. We present a novel read-depth–based method, GENSENG, which uses a hidden Markov model and negative binomial regression framework to identify regions of discrete copy-number changes while simultaneously accounting for the effects of multiple confounders. Based on extensive calibration using multiple HTS data sets, we conclude that our method outperforms existing read-depth–based CNV detection algorithms. The concept of simultaneous bias correction and CNV detection can serve as a basis for combining read-depth with other types of information such as read-pair or split-read in a single analysis. A user-friendly and computationally efficient implementation of our method is freely available.
Implications of investigating pollination and cross compatibility in the almond varieties of Afghanistan
Creators: name: Cullen, G.J.
name: Samadi, G.R.
name: Zarghon, A.H.
name: Yaqubi, M.R.
Publisher: name: Advances in Horticultural Science
Year: 2017

description: Survey and collection of almond accessions for a National Collection of Fruit and Nuts of Afghanistan began in 2007. Investigations into cross compatibility of almond accessions began in 2008 on in situ collected exemplar trees, and in 2010 on trees in the ex situ collections. The methods varied in relation to specific trials, nevertheless as an average 150 flower buds were isolated ahead of flowering on 7 one-year-old shoots per tree, and used as pollen donors or receptors. The initial trials on in situ accessions were performed on one single tree per variety, while six trees were used for the tests carried on in the ex situ collections. Fruit set percentage from self-pollination, cross-pollination and open pollination was calculated. All native Afghan varieties tested were shown to be self incompatible. Various problems related to weather and other conditions worked against a comprehensive testing of all combinations of varieties, although many useful and surprising conclusions were reached.
description: Advances in Horticultural Science, Vol 30 No 4 (2016)
Spin-gap study of the spin-$\frac{1}{2}$ $J_{1}$--$J_{2}$ model on the triangular lattice
Creators: name: Bishop, R. F.
name: Li, P. H. Y.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: We use the coupled cluster method implemented at high orders of approximation to study the spin-$\frac{1}{2}$ $J_{1}$--$J_{2}$ model on the triangular lattice with Heisenberg interactions between nearest-neighbour and next-nearest-neighbour pairs of spins, with coupling strengths $J_{1}>0$ and $J_{2} \equiv κJ_{1} >0$, respectively. In the window $0 \leq κ\leq 1$ we find that the 3-sublattice 120$^{\circ}$ Néel-ordered and 2-sublattice 180$^{\circ}$ stripe-ordered antiferromagnetic states form the stable ground-state phases in the regions $κ< κ^{c}_{1} = 0.060(10)$ and $κ> κ^{c}_{2} = 0.165(5)$, respectively. The spin-triplet gap is found to vanish over essentially the entire region $κ^{c}_{1} < κ< κ^{c}_{2}$ of the intermediate phase.
Strong anomalous diffusion of the phase of a chaotic pendulum
Creators: name: Cagnetta, Francesco
name: Gonnella, Giuseppe
name: Mossa, Alessandro
name: Ruffo, Stefano
Publisher: name: arXiv
Year: 2015
Subjects: subject: Chaotic Dynamics (nlin.CD)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences
subject: 70K55, 82C70, 34C28

description: In this letter we consider the phase diffusion of a harmonically driven undamped pendulum and show that it is anomalous in the strong sense. The role played by the fractal properties of the phase space is highlighted, providing an illustration of the link between deterministic chaos and anomalous transport. Finally, we build a stochastic model which reproduces most properties of the original Hamiltonian system by alternating ballistic flights and random diffusion.
description: 6 pages, 6 figures
Additional file 1 of Patients’ rights in physicians’ practice during Covid-19 pandemic: a cross-sectional study in Romania
Creators: name: Plaiasu, Maria Cristina
name: Alexandru, Dragos Ovidiu
name: Nanu, Codrut Andrei
Publisher: name: figshare
Year: 2023
Subjects: subject: Law
subject: FOS: Law

description: Supplementary Material 1: Attending Physicians’ Questionnaire
Introduction of determination of optimum harvest date in Afghanistan. Sweet cherry: a case study
Creators: name: Valori, F.
name: Ahkbari, A.
name: Yaqubi, M.R.
name: Enayat, N.
name: Azizi, F.
name: Wali Adel, M.
Publisher: name: Advances in Horticultural Science
Year: 2017

description: In the last decade, Afghanistan has been under the political attention by several Institution and Organizations whose invested millions of dollars for the reconstruction of the country. Part of such efforts were focused on the agricultural sector, as the principal source of income of Afghanistan. Mainly, perennial horticulture represents the one of the most challenging opportunity for the developing economies of Afghanistan, and the high contribute of EU in such direction, shown significant results. However, the level of the export is still neglected and the reputation of Afghan’ products has lost the ancient brittleness. The generic low hygienic conditions and poor quality of the products are the primary cause of such situation. In this scenario, PHDP (Perennial Horticulture Development Project) first and ANHDO (Afghanistan National Horticulture Organization) then, tried to improve the quality of perennial horticulture crops. PHDP has, for the first time created a certification scheme for the production of certified perennial plants, ANHDO has the main goal of improving the quality of the fruit value chain of the principal crops in Afghanistan. In this study the first protocol for the determination of the Optimum Harvest Date (OHD) for Cherry var. Burlat is given, as a case study of the new course of Horticulture in Afghanistan.
description: Advances in Horticultural Science, Vol 30 No 4 (2016)
Stanley depth of the path ideal associated to a line graph
Creators: name: Cimpoeas, Mircea
Publisher: name: arXiv
Year: 2015
Subjects: subject: Commutative Algebra (math.AC)
subject: FOS: Mathematics
subject: 13C15 (Primary), 13P10, 13F20 (Secondary)

description: We consider the path ideal associated to a line graph, we compute \texttt{sdepth} for its quotient ring and note that it is equal with its \texttt{depth}. In particular, it satisfies the Stanley inequality.
description: 7 pages, it will appear in Mathematical Reports
Resolving the polymorphism-in-probe problem is critical for correct interpretation of expression QTL studies
Creators: name: Ilori, Gigaloluwa Peter
name: Hardy, John
name: Trabzuni, Daniah
name: Hernandez, Dena G.
name: Cookson, Mark R.
name: Ryten, Mina
name: Shabalin, Andrey A.
name: Smith, Colin
name: Ramasamy, Adaikalavan
name: Singleton, Andrew B.
name: Li, Yun
name: Walker, Robert
name: Dillman, Allissa
name: Weale, Michael E.
name: Raphael Gibbs, J.
name: Arepalli, Sampath
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Polymorphisms in the target mRNA sequence can greatly affect the binding affinity of microarray probe sequences, leading to false-positive and false-negative expression quantitative trait locus (QTL) signals with any other polymorphisms in linkage disequilibrium. We provide the most complete solution to this problem, by using the latest genome and exome sequence reference data to identify almost all common polymorphisms (frequency >1% in Europeans) in probe sequences for two commonly used microarray panels (the gene-based Illumina Human HT12 array, which uses 50-mer probes, and exon-based Affymetrix Human Exon 1.0 ST array, which uses 25-mer probes). We demonstrate the impact of this problem using cerebellum and frontal cortex tissues from 438 neuropathologically normal individuals. We find that although only a small proportion of the probes contain polymorphisms, they account for a large proportion of apparent expression QTL signals, and therefore result in many false signals being declared as real. We find that the polymorphism-in-probe problem is insufficiently controlled by previous protocols, and illustrate this using some notable false-positive and false-negative examples in MAPT and PRICKLE1 that can be found in many eQTL databases. We recommend that both new and existing eQTL data sets should be carefully checked in order to adequately address this issue.
A calcium lactate treatment at harvest, growing system and refrigerated modified atmosphere can affect strawberry's 'Camaraosa' postharvest quality?
Creators: name: Harris, M.
name: Llorens, M.C.
name: Frezza, D.
Publisher: name: Advances in Horticultural Science
Year: 2017

description: The aim of this work was to evaluate the effect of a calcium lactate treatment on postharvest behaviour, organoleptic and nutritional quality of strawberries (Fragaria x ananassa Duch., cv. Camarosa) grown in different growing systems and stored in refrigerated modified atmosphere. Strawberry grown in perlite and soil in greenhouse and soil in open field was harvested and dipped in a calcium lactate 1% solution. Fruits were packed in modified atmosphere at 1°C and 8°C. At 1, 3 and 7 days of storage postharvest behaviour, organoleptic and nutritional quality was evaluated. Calcium had a positive effect on fruit firmness and no differences were observed between storage temperatures in calcium treated fruits. Organoleptic quality (except visual quality) was better in fruits grown in open field soil, regardless calcium treatment and storage temperature. Nutritional quality was better in untreated fruits and stored at 1°C.
description: Advances in Horticultural Science, Vol 31 No 1 (2017)
Structural and biochemical studies of SLIP1–SLBP identify DBP5 and eIF3g as SLIP1-binding proteins
Creators: name: Marzluff, William F.
name: Basquin, Claire
name: Conti, Elena
name: Ricciardi, Adele
name: Lerner, Rachel
name: Von Moeller, Holger
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: In metazoans, replication-dependent histone mRNAs end in a stem-loop structure instead of the poly(A) tail characteristic of all other mature mRNAs. This specialized 3′ end is bound by stem-loop binding protein (SLBP), a protein that participates in the nuclear export and translation of histone mRNAs. The translational activity of SLBP is mediated by interaction with SLIP1, a middle domain of initiation factor 4G (MIF4G)-like protein that connects to translation initiation. We determined the 2.5 Å resolution crystal structure of zebrafish SLIP1 bound to the translation–activation domain of SLBP and identified the determinants of the recognition. We discovered a SLIP1-binding motif (SBM) in two additional proteins: the translation initiation factor eIF3g and the mRNA-export factor DBP5. We confirmed the binding of SLIP1 to DBP5 and eIF3g by pull-down assays and determined the 3.25 Å resolution structure of SLIP1 bound to the DBP5 SBM. The SBM-binding and homodimerization residues of SLIP1 are conserved in the MIF4G domain of CBP80/20-dependent translation initiation factor (CTIF). The results suggest how the SLIP1 homodimer or a SLIP1–CTIF heterodimer can function as platforms to bridge SLBP with SBM-containing proteins involved in different steps of mRNA metabolism.
Supplemental data figure from Oxygen limitation is not the cause of death during lethal heat exposure in an insect.
Creators: name: Lehmann, Philipp
name: Javal, Marion
name: Terblanche, John S.
Publisher: name: The Royal Society
Year: 2019
Subjects: subject: Molecular Biology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: Ecology
subject: Developmental Biology

description: Oxygen- and capacity-limited thermal tolerance (OCLTT) is a controversial hypothesis claiming to explain variation in, and mechanistically determine, animal thermal limits. The lack of support from Insecta is typically argued to be a consequence of their high-performance respiratory systems. However, no studies have reported internal body oxygen levels during thermal ramping so it is unclear if changes in ambient gas are partially or fully offset by a compensatory respiratory system. Here we provide such an assessment by simultaneously recording haemolymph oxygen (pO2) levels—as an approximation of tissue oxygenation—while experimentally manipulating ambient oxygen and subjecting organisms to thermal extremes in a series of thermolimit respirometry experiments using pupae of the butterfly Pieris napi. The main results are that while P. napi undergo large changes in haemolymph pO2 that are positively correlated with experimental oxygen levels, haemolymph pO2 is similar pre- and post-death during thermal assays. OCLTT predicts that reduction in body oxygen level should lead to a reduction in CTmax. Despite finding the former, there was no change in CTmax across a wide range of body oxygen levels. Thus, we argue that oxygen availability is not a functional determinant of the upper thermal limits in pupae of P. napi.
The genome-wide distribution of non-B DNA motifs is shaped by operon structure and suggests the transcriptional importance of non-B DNA structures in Escherichia coli
Creators: name: Bowers, Albert A.
name: Du, Xiangjun
name: Wojtowicz, Damian
name: Levens, David
name: Benham, Craig J.
name: Przytycka, Teresa M.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Although the right-handed double helical B-form DNA is most common under physiological conditions, DNA is dynamic and can adopt a number of alternative structures, such as the four-stranded G-quadruplex, left-handed Z-DNA, cruciform and others. Active transcription necessitates strand separation and can induce such non-canonical forms at susceptible genomic sequences. Therefore, it has been speculated that these non-B DNA motifs can play regulatory roles in gene transcription. Such conjecture has been supported in higher eukaryotes by direct studies of several individual genes, as well as a number of large-scale analyses. However, the role of non-B DNA structures in many lower organisms, in particular proteobacteria, remains poorly understood and incompletely documented. In this study, we performed the first comprehensive study of the occurrence of B DNA–non-B DNA transition-susceptible sites (non-B DNA motifs) within the context of the operon structure of the Escherichia coli genome. We compared the distributions of non-B DNA motifs in the regulatory regions of operons with those from internal regions. We found an enrichment of some non-B DNA motifs in regulatory regions, and we show that this enrichment cannot be simply explained by base composition bias in these regions. We also showed that the distribution of several non-B DNA motifs within intergenic regions separating divergently oriented operons differs from the distribution found between convergent ones. In particular, we found a strong enrichment of cruciforms in the termination region of operons; this enrichment was observed for operons with Rho-dependent, as well as Rho-independent terminators. Finally, a preference for some non-B DNA motifs was observed near transcription factor-binding sites. Overall, the conspicuous enrichment of transition-susceptible sites in these specific regulatory regions suggests that non-B DNA structures may have roles in the transcriptional regulation of specific operons within the E. coli genome.
Additional file 2 of Patients’ rights in physicians’ practice during Covid-19 pandemic: a cross-sectional study in Romania
Creators: name: Plaiasu, Maria Cristina
name: Alexandru, Dragos Ovidiu
name: Nanu, Codrut Andrei
Publisher: name: figshare
Year: 2023
Subjects: subject: Law
subject: FOS: Law

description: Supplementary Material 2: Attending Physicians’ Questionnaire
The small molecule Retro-1 enhances the pharmacological actions of antisense and splice switching oligonucleotides
Creators: name: Juliano, Rudolph L.
name: Gillet, Daniel
name: Romain Noel,
name: Carver, Kyle
name: Cintrat, Jean Christophe
name: Bauman, John
name: Ming, Xin
name: Cao, Canhong
name: Michael Fisher,
name: Barbier, Julien
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: The attainment of strong pharmacological effects with oligonucleotides is hampered by inefficient access of these molecules to their sites of action in the cytosol or nucleus. Attempts to address this problem with lipid or polymeric delivery systems have been only partially successful. Here, we describe a novel alternative approach involving the use of a non-toxic small molecule to enhance the pharmacological effects of oligonucleotides. The compound Retro-1 was discovered in a screen for small molecules that reduce the actions of bacterial toxins and has been shown to block the retrograde trafficking pathway. We demonstrate that Retro-1 can also substantially enhance the effectiveness of antisense and splice switching oligonucleotides in cell culture. This effect occurs at the level of intracellular trafficking or processing and is correlated with increased oligonucleotide accumulation in the nucleus but does not involve the perturbation of lysosomal compartments. We also show that Retro-1 can alter the effectiveness of splice switching oligonucleotides in the in vivo setting. These observations indicate that it is possible to enhance the pharmacological actions of oligonucleotides using non-toxic and non-lysosomotropic small molecule adjuncts.
Improving oil and flavonoid contents of milk thistle under water stress by salicylic acid
Creators: name: Ghassemi-Golezani, K.
name: Ghassemi, S.
name: Yaghoubian, I.
Publisher: name: Advances in Horticultural Science
Year: 2017

description: Adverse environmental conditions such as water deficit can limit production. However, some of these adverse effects may be overcome by application of plant growth regulators including salicylic acid (SA). Thus, a field experiment was conducted in 2015 to evaluate the effects of SA (0 and 1 mM l-1) on yield components, seed yield and oil and flavonoid contents of milk thistle (Silybum marianum L.) under different irrigation treatments (I1, I2, I3 and I4: irrigation after 70, 110, 150 and 190 mm evaporation from class A pan, respectively). The experiment was arranged as split-plot based on randomized complete block (RCB) design in three replicates. Irrigation treatments and SA levels were located in the main and sub plots, respectively. The results indicated that plant biomass, seeds per plant, 1000 seed weight, seed yield per unit area and harvest index of milk thistle decreased as a consequence of water stress. Oil percentage and yield were also reduced, but flavonoid content enhanced with increasing water deficit. All these traits were considerably augmented by foliar application of SA under non-stress and stressful conditions. Therefore, it was conclude that SA can be used to improve field performance of milk thistle under different environmental conditions.
description: Advances in Horticultural Science, Vol 31 No 1 (2017)
Spin torque resonant vortex core expulsion for an efficient radio-frequency detection scheme
Creators: name: Jenkins, A. S.
name: Lebrun, R.
name: Grimaldi, E.
name: Tsunegi, S.
name: Bortolotti, P.
name: Kubota, H.
name: Yakushiji, K.
name: Fukushima, A.
name: de Loubens, G.
name: Klein, O.
name: Yuasa, S.
name: Cros, V.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Spin-polarised radio-frequency currents, whose frequency is equal to that of the gyrotropic mode, will cause an excitation of the core of a magnetic vortex confined in a magnetic tunnel junction. When the excitation radius of the vortex core is greater than that of the junction radius, vortex core expulsion is observed, leading to a large change in resistance, as the layer enters a predominantly uniform magnetisation state. Unlike the conventional spin-torque diode effect, this highly tunable resonant effect will generate a voltage which does not decrease as a function of rf power, and has the potential to form the basis of a new generation of tunable nanoscale radio-frequency detectors.
A feed forward circuit comprising Spt6, Ctk1 and PAF regulates Pol II CTD phosphorylation and transcription elongation
Creators: name: Dronamraju, Raghuvar
name: Strahl, Brian D.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2014

description: The C-terminal domain (CTD) of RNA polymerase II is sequentially modified for recruitment of numerous accessory factors during transcription. One such factor is Spt6, which couples transcription elongation with histone chaperone activity and the regulation of H3 lysine 36 methylation. Here, we show that CTD association of Spt6 is required for Ser2 CTD phosphorylation and for the protein stability of Ctk1 (the major Ser2 CTD kinase). We also find that Spt6 associates with Ctk1, and, unexpectedly, Ctk1 and Ser2 CTD phosphorylation are required for the stability of Spt6—thus revealing a Spt6–Ctk1 feed-forward loop that robustly maintains Ser2 phosphorylation during transcription. In addition, we find that the BUR kinase and the polymerase associated factor transcription complex function upstream of the Spt6–Ctk1 loop, most likely by recruiting Spt6 to the CTD at the onset of transcription. Consistent with requirement of Spt6 in histone gene expression and nucleosome deposition, mutation or deletion of members of the Spt6–Ctk1 loop leads to global loss of histone H3 and sensitivity to hydroxyurea. In sum, these results elucidate a new control mechanism for the regulation of RNAPII CTD phosphorylation during transcription elongation that is likely to be highly conserved.
title: Radiation Shielding during Deep-Space Missions: Dose Measurements, Monte Carlo Simulations, and Nuclear Cross-Sections
Creators: name: Luoni, Francesca
Publisher: name: UNSPECIFIED
Year: 2023

description: Deep-space radiation is among the biggest hindrances to human space exploration. Therefore, radiation protection in space is a very active field of research. Passive shielding is currently the most promising radiation protection strategy and it consists of adding shielding material to the walls of the spacecraft and the planetary bases. This thesis work presents results obtained in accelerator-based experimental campaigns with some of the most relevant ion beams for radiation protection in space and several structural, in situ, standard, and innovative shielding materials. Lithium-based hydrides stabilised with paraffin were proved to combine the promising dose attenuation properties of the pure hydrides and the mechanical and chemical stability of the paraffin, resulting in good candidate shielding materials for space missions. The experimental data were compared with the simulation results of the most commonly used Monte Carlo codes in this field of research, namely FLUKA, PHITS, and Geant4. The simulations showed significant and systematic differences among the codes mainly due to the different implemented nuclear cross-section models. Therefore, the last part of the work focuses on the presentation of the two nuclear cross-section databases (total reaction cross-sections and fragment production cross-sections) that were generated within this thesis work. The collected nuclear reaction cross-section data were compared to the parametrisations used in the Monte Carlo codes to understand which of them are more reliable. It was concluded that no parametrisation can well reproduce all the experimental data for every system and energy region. Therefore, an optimisation of the Tripathi parametrisation for reaction cross-sections was proposed. Additionally, an important gap in the experimental data was pointed out for high energies. The databases were uploaded online and made open access to provide the research communities interested in such data, with the possibility to access them and plot them alongside the parametrisations.
Analysis of an artificial zinc finger epigenetic modulator: widespread binding but limited regulation
Creators: name: Blancafort, Pilar
name: Grimmer, Matthew R.
name: Ford, Ethan
name: Stolzenburg, Sabine
name: Lister, Ryan
name: Farnham, Peggy J.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2014

description: Artificial transcription factors (ATFs) and genomic nucleases based on a DNA binding platform consisting of multiple zinc finger domains are currently being developed for clinical applications. However, no genome-wide investigations into their binding specificity have been performed. We have created six-finger ATFs to target two different 18 nt regions of the human SOX2 promoter; each ATF is constructed such that it contains or lacks a super KRAB domain (SKD) that interacts with a complex containing repressive histone methyltransferases. ChIP-seq analysis of the effector-free ATFs in MCF7 breast cancer cells identified thousands of binding sites, mostly in promoter regions; the addition of an SKD domain increased the number of binding sites ∼5-fold, with a majority of the new sites located outside of promoters. De novo motif analyses suggest that the lack of binding specificity is due to subsets of the finger domains being used for genomic interactions. Although the ATFs display widespread binding, few genes showed expression differences; genes repressed by the ATF-SKD have stronger binding sites and are more enriched for a 12 nt motif. Interestingly, epigenetic analyses indicate that the transcriptional repression caused by the ATF-SKD is not due to changes in active histone modifications.