cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Spin-Isospin Modes in Heavy-Ion Collisions I: Nuclear Matter at Finite Temperatures
Creators: name: Helgesson, J.
name: Randrup, J.
Publisher: name: arXiv
Year: 1994
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: With a view towards implementation in microscopic transport simulations of heavy-ion collisions, the properties of spin-isospin modes are studied in nuclear matter consisting of nucleons and Delta isobars that interact by the exchange of pi and rho mesons. For a standard p-wave interaction and an effective g' short-range interaction, the dispersion relations for the spin- isospin modes, and the associated amplitudes, are calculated at various nuclear densities and temperatures, within the random-phase approximation. Quantities of physical interest are then extracted, including the total and partial Delta decay widths and the Delta cross sections in the nuclear medium. The self-consistent inclusion of the Delta width has a strong effect on the Delta cross sections at twice normal nuclear density, as compared with the result of ignoring the width. Generally, the obtained quantities exhibit a strong density dependence, but are fairly insensitive to the temperature, at least up to T=25 MeV. Finally, it is described how these in-medium effects may be consistently included into microscopic transport simulations of nuclear collisions, and the improvements over previous approaches are discussed.
description: LaTeX 47 pages, 17 postscript figures in accompanying uuencoded file
Monogenic Diabetes: Gene directed therapy and mutation specific phenotypes
Creators: name: Carmody, David
Publisher: name: Royal College of Surgeons in Ireland
Year: 2019
Subjects: Uncategorized

description: Single gene mutations cause ~1% of all cases of diabetes and most individuals are diagnosed under 35 years of age. However, the majority of cases of monogenic diabetes are misdiagnosed as type 1 or more frequently type 2 diabetes. This project targeted the challenges in the diagnosis and management of monogenic diabetes through these specific aims: 1. Elucidate the incretin effect in sulphonylurea-treated KATP-related diabetes 2. Expand the clinical phenotype, improve genetic diagnosis and therapeutic options of established monogenic forms of diabetes 3. Identify novel monogenic causes of diabetes Insulin secretion response was studied in 5 adult sulphonylurea-treated subjects with KCNJ11-diabetes in comparison to 5 matched controls. We found that KCNJ11 subjects had higher glucose levels overall, including fasting hyperglycaemia, higher peaks, and delayed normalization following OGTT and during isoglycaemic glucose infusions. Overall insulin and C-peptide responses were not different during OGTT or IGI, but the change from baseline to peak levels was greater in controls. Insulin and C-peptide levels returned to baseline in controls but remained elevated in subjects after 4 hours. Through examination of patients within the Monogenic Diabetes Registry, the clinical phenotypes of those with mutations within GCK, KCNJ11 and EIF2AK3 have been expanded. Additionally the treatment algorithms and diagnostic options for neonatal diabetes mellitus have been challenged. Novel causes of diabetes were identified, including a novel intronic INS mutation leading to diabetes through novel mechanisms and a mutation within H19 leading to diabetes and Russell Silver Syndrome. A precise genetic diagnosis enables targeted therapy, leads to improved quality of life and aids in diagnosis of diabetes in other family members including earlier diagnosis in children. These studies have expanded our understanding of the pathogenesis, diagnosis and treatment of a variety of poorly studied forms of diabetes.
Large Scale Structure by Global Monopoles and Cold Dark Matter
Creators: name: Perivolaropoulos, Leandros
Publisher: name: arXiv
Year: 1992
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: A cosmological model in which the primordial perturbations are provided by global monopoles and in which the dark matter is cold has several interesting features. The model is normalized by choosing its single parameter within the bounds obtained from gravitational wave constraints and by demanding coherent velocity f1ows of about 600km/sec on scales of $50 h^{-1} Mpc$. Using this normalization, the model predicts the existence of dominant structures with mass $2\times 10^{16} M_\odot$ on a scale $35 h^{-1}Mpc$ i.e. larger than the horizon at $t_{eq}$. The magnitude of the predicted mass function in the galactic mass range is in good agreement with the observed Schechter function.
description: 9 pages, 2 Figures (available upon request), use latex
Optimal Impulse Control of Dynamical Systems
Creators: name: Piunovskiy, Alexey
name: Plakhov, Alexander
name: Torres, Delfim F. M.
name: Zhang, Yi
Publisher: name: arXiv
Year: 2018
Subjects: subject: Optimization and Control (math.OC)
subject: FOS: Mathematics

description: Using the tools of the Markov Decision Processes, we justify the dynamic programming approach to the optimal impulse control of deterministic dynamical systems. We prove the equivalence of the integral and differential forms of the optimality equation. The theory is illustrated by an example from mathematical epidemiology. The developed methods can be also useful for the study of piecewise deterministic Markov processes.
Renin genotype as a predictor of response to antihypertensive therapy: a personalized approach to management of high blood pressure
Creators: name: Quinn, Ursula
Publisher: name: Royal College of Surgeons in Ireland
Year: 2019
Subjects: Uncategorized

description: A renin gene distal enhancer single nucleotide polymorphism, REN-5312C/T, has been reported to influence in vitro renin gene transcription in transfected human choriodecidual cells and in diseased kidney tissue in humans. The polymorphism has also been shown to have in vivo functional activity in humans, with carriage of the REN-5312T allele associated with elevated blood pressure. A randomized, cross-over clinical trial in 98 patients was completed in order to determine whether or not REN-5312C/T would predict response to each of three blockers of the renin-angiotensin system (RAS). Blood pressure lowering responses were observed to be greater in REN-5312T allele carriers, and in REN-5312T allele carriers with high baseline BP and/or low baseline PRA levels. In a tissue-based study in normal adrenal glands, we observed greater renin mRNA expression levels in REN-5312T allele carriers. This finding confirmed functional activity of REN-5312C/T in normal adrenal gland tissue. The clinical trial findings illustrate the potential functionality of the REN-5312C/T polymorphism in determining optimal antihypertensive treatment for individual patients. It is plausible that greater tissue RAS activity of REN-5312T allele carriers is at least in part responsible for the greater antihypertensive effect of REN-5312 T-allele carriers with RAS blockade. REN-5312C/T may yet become a genotype used in practice to identify patients who will gain maximal benefit from RAS blockade both in terms of blood pressure lowering and protection from end-organ damage.
Additional file 10: of PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Creators: name: Pyfrom, Sarah
name: Luo, Hong
name: Payton, Jacqueline
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Virology

description: Figure S9. Validation of PLAIDOH’s functional predictions for lncRNA RP11-960 L18.1 A) Expression of PLCG2 and RP11-960 L18.1 measured by qRT-PCR in control or in three independent RP11-960 L18.1 KO subclones (U2932 lymphoma B cell line). B) Western Blot of PLCG2 or GAPDH in control (WT) or RP11-960 L18.1 KO U2932 cells. Triangles indicate relative number of cells loaded on the gel. (PDF 2055 kb)
ADEON Hardware Specification
Creators: name: Martin, Bruce
name: Hillis, Craig
name: Miksis-Olds, Jennifer
name: Ainslie, Michael
name: Warren, Joseph
name: Heaney, Kevin
Publisher: name: figshare
Year: 2018
Subjects: subject: 40501 Biological Oceanography
subject: FOS: Earth and related environmental sciences
subject: 40502 Chemical Oceanography
subject: 50206 Environmental Monitoring
subject: 50209 Natural Resource Management
subject: Oceanography

description: The ADEON program selected a range of hardware components to generate a time-series of acousticdata and supporting data that address the project objectives.
Conceptually, the ADEON network consists of stationary bottom landers, towed array missions using sailboats, and vessel-based measurements supplemented with space-based remote sensing. It also leverages data fromestablished ocean observation systems and databases.
This document describes the ADEON hardware and how it’s performance is measured. The ADEON Calibration, Deployment and Good Practice Guide contains details of how the equipment was configured for ADEON data collection.
Actions for Gravity, with Generalizations: A Review
Creators: name: Peldan, Peter
Publisher: name: arXiv
Year: 1993
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Related to the classical Ashtekar Hamiltonian, there have been discoveries regarding new classical actions for gravity in (2+1)- and (3+1)-dimensions, and also generalizations of Einstein's theory of gravity. In this review, I will try to clarify the relations between the new and old actions for gravity, and also give a short introduction to the new generalizations. The new results/treatments in this review are: 1. A more detailed constraint analysis of the Hamiltonian formulation of the Hilbert- Palatini Lagrangian in (3+1)-dimensions. 2. The canonical transformation relating the Ashtekar- and the ADM-Hamiltonian in (2+1)-dimensions is given. 3. There is a discussion regarding the possibility of finding a higher dimensional Ashtekar formulation. There are also two clarifying figures (in the beginning of chapter 2 and 3, respectively) showing the relations between different action-formulations for Einstein gravity in (2+1)- and (3+1)-dimensions.
description: 61 pages, ITP 93-13
Additional file 4: of PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Creators: name: Pyfrom, Sarah
name: Luo, Hong
name: Payton, Jacqueline
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Neuroscience
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Figure S3. PLAIDOH reveals a landscape of enhancer regulatory activity and LCP co-expression. A) Box plots show the number of lncRNAs overlapping conventional or super enhancers per kb. B) Box plots show the expression of lncRNAs in conventional or super enhancers, or not overlapping any enhancer. C) Box plots show the expression of lncRNAs that do or do not overlap coding genes (intra- or inter-genic, pink or purple, respectively), and coincide with conventional or super enhancers, or no enhancer. * p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001. D) LncRNA expression (log10 FPKM) or E) LCP correlation (−log 10 Spearman adjusted p-value) relative to the intensity of activating and/or enhancer-associated histone marks (−log10 p-value for peaks). Red lines and grey zones indicate the regression lines and confidence intervals, respectively. (PDF 995 kb)
Non-equilibrium absorbing state phase transitions in discrete-time quantum dynamics
Creators: name: Lesanovsky, I.
name: Macieszczak, Katarzyna
name: Garrahan, Juan P.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Quantum Physics (quant-ph)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: We introduce a discrete-time quantum dynamics on a two-dimensional lattice that describes the evolution of a $1+1$-dimensional spin system. The underlying quantum map is constructed such that the reduced state at each time step is separable. We show that for long times this state becomes stationary and displays a continuous phase transition in the density of excited spins. This phenomenon can be understood through a connection to the so-called Domany-Kinzel automaton, which implements a classical non-equilibrium process that features a transition to an absorbing state. Near the transition density-density correlations become long-ranged, but interestingly the same is the case for quantum correlations despite the separability of the stationary state. We quantify quantum correlations through the local quantum uncertainty and show that in some cases they may be determined experimentally solely by measuring expectation values of classical observables. This work is inspired by recent experimental progress in the realization of Rydberg lattice quantum simulators, which - in a rather natural way - permit the realization of conditional quantum gates underlying the discrete-time dynamics discussed here.
Fragment Flow and the Nuclear Equation of State
Creators: name: Zhang, Jianming
name: Gale, Charles
Publisher: name: arXiv
Year: 1994
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We use the Boltzmann-Uehling-Uhlenbeck model with a momentum-dependent nuclear mean field to simulate the dynamical evolution of heavy ion collisions. We re-examine the azimuthal anisotropy observable, proposed as sensitive to the equation of state of nuclear matter. We obtain that this sensitivity is maximal when the azimuthal anisotropy is calculated for nuclear composite fragments, in agreement with some previous calculations. As a test case we concentrate on semi-central $^{197}{\rm Au}\ +\ ^{197}{\rm Au}$ collisions at 400 $A$ MeV.
description: 12 pages, ReVTeX 3.0. 12 Postscript figures, uuencoded and appended
Dark Energy Instabilities induced by Gravitational Waves
Creators: name: Tambalo, Giovanni
Publisher: name: Zenodo
Year: 2019

description: In this talk I will discuss the decay of gravitational waves (GW) into dark energy fluctuations π in the context of the EFT of Dark Energy.
 In such theories, the time-dependence of the Dark Energy (DE) field spontaneously breaks Lorentz invariance. Therefore as for light in a material, GW travelling in the cosmic medium are affected by dispersion phenomena and can decay into DE fluctuations. For cubic Horndeski and beyond Horndeski theories, the gravitational wave acts as a classical background for π and thus modifies its dynamics. In particular, for a sufficiently large amplitude of the wave, the kinetic term of π becomes pathological, featuring gradient and ghost instabilities. For smaller gravitational wave amplitude, π fluctuations are described by a Mathieu equation and feature instability bands that grow exponentially. The gravitational wave signal is affected by the π back-reaction and this provides very stringent bounds on cubic and quartic GLPV theories.
description: Short talk at GW4FP 2019
Three charges on a plane in a magnetic field: Special trajectories
Creators: name: Escobar-Ruiz, M. A.
name: Escobar, C. A.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences

description: As a generalization and extension of JMP 54 (2013) 022901, the classical dynamics of three non-relativistic Coulomb charges $(e_1, m_1)$, $(e_2, m_2)$ and $(e_3, m_3)$ on the plane placed in a constant magnetic field perpendicular to the plane is considered. Special trajectories for which the distances between the charges remain unchanged are presented and their corresponding integrals of motion are indicated. For these special trajectories the number of integrals of motion is larger than the dimension of the configuration space and hence they can be called \emph{particularly superintegrable}. Three physically relevant cases are analyzed in detail, namely that of three electrons, a neutral system and a Helium-like system. The $n$-body case is discussed as well.
description: 27 pages, 5 figures
Additional file 3: of PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Creators: name: Pyfrom, Sarah
name: Luo, Hong
name: Payton, Jacqueline
Publisher: name: figshare
Year: 2019
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy

description: Figure S2. LCP correlation, but not lncRNA expression, demonstrates an inverse relationship with distance for positively correlated LCPs. A&C) Box plots show lncRNA expression (FPKM, A) or LCP correlation (−log10 Spearman adjusted p-value, C) binned by distance to individual coding genes within 400 kb flanking the lncRNA (top panel: positively correlated LCPs, bottom panel: negatively correlated LCPs). B&D) Box plots show lncRNA expression (FPKM, B) or LCP correlation (−log10 Spearman adjusted p-value, D) for four categories of lncRNA. (PDF 1069 kb)
Nontopological Global Field Dynamics
Creators: name: Perivolaropoulos, Leandros
Publisher: name: arXiv
Year: 1992
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We use arguments based on Derrick's theorem to show that the property of collapse which is the key feature of global texture appears in several field theory models with broken global O(N) symmetry. Such models do not necessarily have nontrivial third homotopy group of the vacuum manifold but may give rise to collapsing global field configurations with properties similar to textures. It is verified that configurations with planar and cylindrical geometries do not collapse. The existence of critical parameters for collapse of spherically symmetric global field configurations is verified both analytically and numerically.
description: 8 pages plus 6 Figures (available upon request) CfA preprint No. 3393, use latex
title: ADCO, Huitième cartulaire de Saint-Étienne de Dijon (1661-1667), Cart. 31 (G 135), 549 folios, f. 0852
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2012
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: cartulaire
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge

description: Huitième cartulaire de Saint-Étienne de Dijon (1661-1667), Archives départementales de la Côte-d'Or, Cart. 31 (G 135), 549 folios, f. 0852, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Huitième cartulaire de Saint-Étienne de Dijon (1661-1667), Archives départementales de la Côte-d'Or, Cart. 31 (G 135), 549 folios, f. 0852, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https://manuscrits.cbma-project.eu/
description: Provenance: abbaye Saint-Étienne de Dijon
description: Provenance: http://www.wikidata.org/entity/Q15945019
Tone Biased MMR Text Summarization
Creators: name: Chaudhari, Mayank
name: Mattukoyya, Aakash Nelson
Publisher: name: arXiv
Year: 2018
Subjects: subject: Information Retrieval (cs.IR)
subject: Computation and Language (cs.CL)
subject: FOS: Computer and information sciences

description: Text summarization is an interesting area for researchers to develop new techniques to provide human like summaries for vast amounts of information. Summarization techniques tend to focus on providing accurate representation of content, and often the tone of the content is ignored. Tone of the content sets a baseline for how a reader perceives the content. As such being able to generate summary with tone that is appropriate for the reader is important. In our work we implement Maximal Marginal Relevance [MMR] based multi-document text summarization and propose a naive model to change tone of the summarization by setting a bias to specific set of words and restricting other words in the summarization output. This bias towards a specified set of words produces a summary whose tone is same as tone of specified words.
description: 4 pages, 4 figures, IJCRT, Feb 2018
Strain Assessment in Graphene Through the Raman 2D' Mode
Creators: name: del Corro, Elena
name: Kavan, Ladislav
name: Kalbac, Martin
name: Frank, Otakar
Publisher: name: arXiv
Year: 2018
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Accurate and simple local strain assessment in graphene is one of the crucial tasks in device characterization. Raman spectroscopy is often used for that purpose through monitoring of the G and 2D modes. However, the shifts of those two bands might be biased, especially under uniaxial strain, by the effects of charge-transfer doping. Therefore, it is extremely desirable to use another Raman band, less affected by doping, but with a defined and measurable behavior under strain. The Raman 2D' mode is in this sense the ideal feature for the evaluation of strain levels in stretched graphene monolayers, suitable for this task even under different experimental conditions. The sensitivity and accuracy of the approach through 2D' mode is on the same level as through the G mode, however, the clear advantage of the 2D' arises when doping effects are present in the sample.
description: 21 pages
Quantum Mechanics, Common Sense and the Black Hole Information Paradox
Creators: name: Danielsson, Ulf H.
name: Schiffer, Marcelo
Publisher: name: arXiv
Year: 1993
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The purpose of this paper is to analyse, in the light of information theory and with the arsenal of (elementary) quantum mechanics (EPR correlations, copying machines, teleportation, mixing produced in sub-systems owing to a trace operation, etc.) the scenarios available on the market to resolve the so-called black-hole information paradox. We shall conclude that the only plausible ones are those where either the unitary evolution of quantum mechanics is given up, in which information leaks continuously in the course of black-hole evaporation through non-local processes, or those in which the world is polluted by an infinite number of meta-stable remnants.
description: 15 pages, Latex, CERN-TH.6889/93
Additional file 7: of PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Creators: name: Pyfrom, Sarah
name: Luo, Hong
name: Payton, Jacqueline
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Figure S6. PLAIDOH ranks LCPs by Enhancer and LncRNA Cis-regulatory scores to predict likely transcriptional regulatory mechanism. A-L) Plots show LCPs from TCGA cancers (AML A-C, BRCA D-F, CESC G-I, LUAD J-L). Plotted as in Fig. 6. (A,D,G & J) Plots show LCPs ranked by increasing LncRNA Transcript Cis-regulatory Scores. Highlighted in red are known cis-acting lncRNAs; in green are novel LCPs with the highest scores. B,E,H & K) As in A,D,G,J, but ranked by increasing Enhancer Scores. Red points are known enhancer-associated lncRNAs; in green are novel LCPs with the highest scores. C,F,I & L) Plots show Enhancer versus LncRNA Transcript Cis-regulatory Scores segregating LCPs by relative likelihood of each transcriptional regulatory mechanism. Dotted lines in A-L reflect score cut-offs based on the geometric inflection points calculated from the data in A, B, D, E, G, H, J, and K. Red and green data points are from A&B (for C), D&E (for F), G&H (for I), J&K (for L). (PDF 9087 kb)
Aldebaran b's temperate past uncovered in planet search data
Creators: name: Farr, Will M.
name: Pope, Benjamin J. S.
name: Davies, Guy R.
name: North, Thomas S. H.
name: White, Timothy R.
name: Barrett, Jim W.
name: Miglio, Andrea
name: Lund, Mikkel N.
name: Antoci, Victoria
name: Andersen, Mads Fredslund
name: Grundahl, Frank
name: Huber, Daniel
Publisher: name: arXiv
Year: 2018
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Earth and Planetary Astrophysics (astro-ph.EP)
subject: FOS: Physical sciences

description: The nearby red giant Aldebaran is known to host a gas giant planetary companion from decades of ground-based spectroscopic radial velocity measurements. Using Gaussian Process-based Continuous Auto-Regressive Moving Average (CARMA) models, we show that these historic data also contain evidence of acoustic oscillations in the star itself, and verify this result with further dedicated ground-based spectroscopy and space-based photometry with the Kepler Space Telescope. From the frequency of these oscillations we determine the mass of Aldebaran to be $1.16 \pm 0.07 \, M_\odot$, and note that this implies its planet will have been subject to insolation comparable to the Earth for some of the star's main sequence lifetime. Our approach to sparse, irregularly sampled time series astronomical observations has the potential to unlock asteroseismic measurements for thousands of stars in archival data, and push to lower-mass planets around red giant stars.
description: 24 pages, 7 figures (including appendices); submitted to ApJL; paper text, figures, data, and code at https://github.com/farr/Aldebaran
Additional file 11: of Analyses of histological and transcriptome differences in the skin of short-hair and long-hair rabbits
Creators: name: Ding, Haisheng
name: Zhao, Huiling
name: Cheng, Guanglong
name: Yang, Yongxin
name: Wang, Xiaofei
name: Zhao, Xiaowei
name: Qi, Yunxia
name: Huang, Dongwei
Publisher: name: figshare
Year: 2019
Subjects: subject: Pharmacology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology

description: Table S3. Primers for qPCR. F1, forward primer. R2, reverse primer. (PDF 95 kb)
Pion-Nucleon Scattering and the $π$NN Coupling Constant in the Chiral Color Dielectric Model
Creators: name: Lu, Dinghui
name: Phatak, Shashikant C.
name: Landau, Rubin H.
Publisher: name: arXiv
Year: 1994
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We apply the chiral color dielectric model to low- and medium-energy scattering within the coupled $π$N and $πΔ$ system. Dynamic baryon states in which quarks are confined by the scalar color-dielectric field are constructed in Fock space. Spurious motion of the center of mass is eliminated by constructing momentum eigenstates via a Peierls-Yoccoz projection. The relativistic Lippmann-Schwinger equation is solved for the complex energies of the T matrix poles, and the pole positions of the nucleon and delta are used to fix the few parameters of the model. The $S$- and $P$-wave phase shifts, the bare N and $Δ$ masses, the renormalized $π$NN and $π$N$Δ$ coupling constants, and the $π$NN and $π$N$Δ$ vertex functions are predicted. nucleon and delta are used to fix the few parameters of the model. The $S$- and $P$-wave phase shifts, the bare N and $Δ$ masses, the renormalized $π$NN and $π$N$Δ$ coupling constants, and the $π$NN and $π$N$Δ$ vertex functions are predicted.
description: 25 pages, 5 figures
Investigating Photoinduced Proton Coupled Electron Transfer Reaction using Quasi Diabatic Dynamics Propagation
Creators: name: Mandal, Arkajit
name: Shakib, Farnaz A.
name: Huo, Pengfei
Publisher: name: arXiv
Year: 2018
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We investigate photoinduced proton-coupled electron transfer (PI-PCET) reaction through a recently devel- oped quasi-diabatic (QD) quantum dynamics propagation scheme. This scheme enables interfacing accurate diabatic-based quantum dynamics approaches with adiabatic electronic structure calculations for on-the-fly simulations. Here, we use the QD scheme to directly propagate PI-PCET quantum dynamics with the di- abatic Partial Linearized Density Matrix (PLDM) path-integral approach with the instantaneous adiabatic electron-proton vibronic states. Our numerical results demonstrate the importance of treating proton quan- tum mechanically in order to obtain accurate PI-PCET dynamics, as well as the role of solvent fluctuation and vibrational relaxation on proton tunneling in various reaction regimes that exhibit different kinetic iso- tope effects. This work opens the possibility to study the challenging PI-PCET reactions through accurate diabatic quantum dynamics approaches combined with efficient adiabatic electronic structure calculations.
Additional file 5: of PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Creators: name: Pyfrom, Sarah
name: Luo, Hong
name: Payton, Jacqueline
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Figure S4. LncRNA--coding gene interaction frequency and nuclear localization are associated with higher and more significant correlation coefficients. A) Histograms show the number of LCPs that have CHIA interactions (positive, blue) or no CHIA interactions (negative, red) binned by distance to the coding gene. B) Histogram shows the number of LCPs binned by distance to the coding gene. Regression line traces the CHIA score for LCPs in each bin. C) Histograms show the number of LCPs binned by distance to the coding gene that have significant (adjusted p < 0.05, blue) or non-significant (adjusted p > 0.05, red) Spearman expression correlation coefficients. D) Box plot shows the absolute Spearman correlation of negatively (left, black) or positively (right, blue) correlated LCPs, binned by fraction nuclear localization of the lncRNA. (PDF 2328 kb)
Drag force in strongly coupled $\mathcal{N}=4$ SYM plasma in a magnetic field
Creators: name: Zhang, Zi-qiang
name: Ma, Ke
name: Hou, De-fu
Publisher: name: arXiv
Year: 2018
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: Applying AdS/CFT correspondence, we study the effect of a constant magnetic field $\mathcal{B}$ on the drag force associated with a heavy quark moving through a strongly-coupled $\mathcal{N}=4$ supersymmetric Yang-Mills (SYM) plasma. The quark is considered moving transverse and parallel to $\mathcal{B}$, respectively. It is shown that for transverse case, the drag force is linearly dependent on $\mathcal{B}$ in all regions. While for parallel case, the drag force increases monotonously with increasing $\mathcal{B}$ and also reveals a linear behavior in the regions of strong $\mathcal{B}$. In addition, we find that $\mathcal{B}$ has important effect for transverse case than parallel.
description: 8 pages, 3 figures
Raman spectroscopy and In-situ Raman spectroelectrochemistry of isotopically engineered graphene systems
Creators: name: Frank, Otakar
name: Dresselhaus, Mildred S.
name: Kalbac, Martin
Publisher: name: arXiv
Year: 2018
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: The unique properties of graphene offer immense opportunities for applications to many scientific fields, as well as societal needs, beyond our present imagination. One of the important features of graphene is the relatively simple tunability of its electronic structure, an asset which extends the usability of graphene even further beyond present experience. A direct injection of charge carriers into the conduction or valence bands, i.e., doping, represents a viable way of shifting the Fermi level. In particular, the electrochemical doping should be the method of choice, when higher doping levels are desired and when a firm control of experimental conditions is needed. In this Account, we focus on the electrochemistry of graphene in combination with in-situ Raman spectroscopy, i.e., the in-situ Raman spectroelectrochemistry. Such a combination of methods is indeed very powerful, since Raman spectroscopy can readily monitor not only the changes in the doping level, but it can give information also on eventual stress or disorder in the material. However, when employing Raman spectroscopy, one of its main strengths lies in the utilization of isotope engineering during the chemical vapor deposition (CVD) growth of the graphene samples. The in-situ Raman spectroelectrochemical study of multi-layered systems with smartly designed isotope compositions in individual layers can provide a plethora of knowledge about the mutual interactions: (i) between the graphene layers themselves, (ii) between graphene layers and their directly adjacent environment (e.g., substrate or electrolyte), and (iii) between graphene layers and their extended environment, which is separated from the layer by a certain number of additional graphene layers.
description: 29 pages
Additional file 8: of PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Creators: name: Pyfrom, Sarah
name: Luo, Hong
name: Payton, Jacqueline
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Biological Sciences not elsewhere classified
subject: Hematology
subject: Computational Biology

description: Figure S7. PLAIDOH Compares Favorably to lncRNA CRISPR Screens and to Other lncRNA Analytical Tools. A) Box plot shows Enhancer and lncRNA Transcript cis-regulatory scores in hits compared to non-hits in a CRISPR-KRAB lncRNA screen [28]. B) XY plot shows Enhancer versus LncRNA Transcript Cis-regulatory Scores segregating LCPs in ENCODE cell lines, plotted as in Fig. 6C. Red points are validated hits from a lncRNA knock-out (splice-site targeted) CRISPR screen [78]. C) XY plot shows Enhancer versus LncRNA Transcript Cis-regulatory Scores segregating LCPs in AML TCGA samples, plotted as in Fig. S6C. Red points are validated hits from a lncRNA CRISPR-activating screen [79]. D) XY plot shows Enhancer versus LncRNA Transcript Cis-regulatory Scores segregating LCPs ENCODE cell lines, plotted as in Fig. 6C. Colored data points reflect predicted function of highly ranked lncRNAs from [22]. Red circles indicate lncRNAs that are predicted to act at the transcriptional level, orange squares - post-transcriptional, green squares - both transcriptional and post-transcriptional. (PDF 2263 kb)
A quasar hiding behind two dusty absorbers. Quantifying the selection bias of metal-rich, damped Lyman-alpha absorption systems
Creators: name: Heintz, K. E.
name: Fynbo, J. P. U.
name: Ledoux, C.
name: Jakobsson, P.
name: Møller, P.
name: Christensen, L.
name: Geier, S.
name: Krogager, J. -K.
name: Noterdaeme, P.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: The cosmic chemical enrichment as measured from damped Ly$α$ absorbers (DLAs) will be underestimated if dusty and metal-rich absorbers have evaded identification. Here we report the discovery and present the spectroscopic observations of a quasar, KV-RQ\,1500-0031, at $z=2.520$ reddened by a likely dusty DLA at $z=2.428$ and a strong MgII absorber at $z=1.603$. This quasar was identified as part of the KiDS-VIKING Red Quasar (KV-RQ) survey, specifically aimed at targeting dusty absorbers which may cause the background quasars to escape the optical selection of e.g. the SDSS quasar survey. For the DLA we find an HI column density of $\log N$(HI) = $21.2\pm 0.1$ and a metallicity of [X/H] = $-0.90\pm 0.20$ derived from an empirical relation based on the equivalent width of SiII$λ$1526. We observe a total visual extinction of $A_V=0.16$ mag induced by both absorbers. We compile a sample of 17 additional dusty ($A_V > 0.1$ mag) DLAs toward quasars (QSO-DLAs) from the literature for which we characterize the properties of HI column density, metallicity and dust. From this sample we also estimate a correction factor to the overall DLA metallicity budget. We demonstrate that the dusty QSO-DLAs have high metal column densities ($\log N$(HI) + [X/H]) and are more similar to gamma-ray burst (GRB)-selected DLAs (GRB-DLAs) than regular QSO-DLAs. We evaluate the effect of dust reddening in DLAs as well as illustrate how the induced color excess of the underlying quasars can be significant (up to $\sim 1$ mag in various optical bands), even for low to moderate extinction values ($A_V \lesssim 0.6$ mag). Finally we discuss the direct and indirect implications of a significant dust bias in both QSO- and GRB-DLA samples. [Abridged]
description: 14 pages, 8 figures. Accepted for publication in A&A
Long-Wavelength Oscillations and the Gallex Solar Neutrino Signal
Creators: name: Barger, V.
name: Phillips, R. J. N.
name: Whisnant, K.
Publisher: name: arXiv
Year: 1992
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The recently reported solar neutrino signal in the $^{71}$Ga GALLEX detector adds a new dimension to the solar neutrino puzzle, complementing the previously known signals in $^{37}$Cl and water-Cherenkov detectors. Possible explanations for this new signal in terms of matter-enhanced neutrino oscillations (MSW effect) are already awaiting in the literature. We point out here that long-wavelength vacuum oscillations can furnish an alternative explanation of all three signals simultaneously; such solutions give neutrino spectra with distinctive energy dependence and seasonal time dependence. %This is a Revtex file, which is Latex-based but depends upon inputting the %Revtex style files distributed by APS/Physical Review. For more information, %contact Peggy Sutherland at MIS@APSEDOFF.BITNET, phone (516) 349-7800 ext 674
description: 11 pages, 3 figures available by conventional mail or fax, MAD/PH/708
Massless Minimally Coupled Fields in De Sitter Space: O(4)-Symmetric States Versus De Sitter Invariant Vacuum
Creators: name: Kirsten, Klaus
name: Garriga, Jaume
Publisher: name: arXiv
Year: 1993
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The issue of de Sitter invariance for a massless minimally coupled scalar field is revisited. Formally, it is possible to construct a de Sitter invariant state for this case provided that the zero mode of the field is quantized properly. Here we take the point of view that this state is physically acceptable, in the sense that physical observables can be computed and have a reasonable interpretation. In particular, we use this vacuum to derive a new result: that the squared difference between the field at two points along a geodesic observer's space-time path grows linearly with the observer's proper time for a quantum state that does not break de Sitter invariance. Also, we use the Hadamard formalism to compute the renormalized expectation value of the energy momentum tensor, both in the O(4) invariant states introduced by Allen and Follaci, and in the de Sitter invariant vacuum. We find that the vacuum energy density in the O(4) invariant case is larger than in the de Sitter invariant case.
description: TUTP-92-1, to appear in Phys. Rev. D
Information-theoretic signatures of biodiversity in the barcoding gene
Creators: name: Barbosa, Valmir C.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Populations and Evolution (q-bio.PE)
subject: FOS: Biological sciences

description: The COI mitochondrial gene is present in all animal phyla and in a few others, and is the leading candidate for species identification through DNA barcoding. Calculating a generalized form of total correlation on publicly available data on the gene yields distinctive information-theoretic descriptors of the phyla represented in the data. Moreover, performing principal component analysis on standardized versions of these descriptors reveals a strong correlation between the first principal component and the natural logarithm of the number of known living species. The descriptors thus constitute clear information-theoretic signatures of the processes whereby evolution has given rise to current biodiversity.
Effects of T- and P-odd weak nucleon interaction in nuclei: renormalizations due to residual strong interaction, matrix elements between compound states and their correlations with P-violating matrix elements
Creators: name: Flambaum, V. V.
name: Vorov, O. K.
Publisher: name: arXiv
Year: 1994
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: Manifestations of P-,T-odd weak interaction between nucleons in nucleus are considered. Renormalization of this interaction due to residual strong interaction is studied. Mean squared matrix elements of P-,T-odd weak interaction between compound states are calculated. Correlators between P-,T-odd and P-odd, T-even weak interaction matrix elements between compound states are considered and estimates for these quantities are obtained.
description: Submitted to Phys. Rev. C; 21 pages, REVTEX 3, no figures
Additional file 6: of PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Creators: name: Pyfrom, Sarah
name: Luo, Hong
name: Payton, Jacqueline
Publisher: name: figshare
Year: 2019
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer

description: Figure S5. LncRNAs demonstrate common or cancer-type specific positive or negative correlation profiles. A) Venn diagrams show the number of significant LCPs shared or unique among five TCGA cancer types for positively (left) or negatively (right) correlated pairs. Significant = Spearman correlation adj p < 0.05 for LCP expression. B) Binary heatmaps show the pattern of correlation significance for LCPs across TCGA cancer types for positively (left) or negatively (right) correlated pairs. Spearman adj p < 0.05 (purple); p > 0.05 (white). C) Bar graph shows the expression of coding genes within +/− 400 kb of AC096992.2 in TCGA cancer types. D) Bar graph shows the levels of the indicated histone marks by ChIP-seq for the region near AC096992.2. No peaks were detected in BRCA/MCF7 and DLBC/OCI-LY7. (PDF 1453 kb)
title: ADCO, Boursier de Cîteaux : comptes (1489-1493) (11 H 1166), f. 00487
Creators: name: de la Côte-d'Or, Archives départementales
name: Petot, Frédéric
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CBMA/CG21/F.PETOT/2019
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: comptes
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge

description: Boursier de Cîteaux : comptes (1489-1493), Archives départementales de la Côte-d'Or, (11 H 1166). Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Boursier de Cîteaux : comptes (1489-1493), Archives départementales de la Côte-d'Or, (11 H 1166), f. 00487, in Projet CBMA - Corpus Burgundiae Medii Aevi \[Ressource en ligne\], https:// manuscrits.cbma-project.eu/
description: Provenance: https://www.geonames.org/3024876
description: Provenance: http://www.idref.fr/030974844/id
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb12228351v
description: Provenance: abbaye de Cîteaux
description: Provenance: http://www.wikidata.org/entity/Q843261
Deep learning as a tool for neural data analysis: speech classification and cross-frequency coupling in human sensorimotor cortex
Creators: name: Livezey, Jesse A.
name: Bouchard, Kristofer E.
name: Chang, Edward F.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Neural and Evolutionary Computing (cs.NE)
subject: Neurons and Cognition (q-bio.NC)
subject: FOS: Computer and information sciences
subject: FOS: Biological sciences

description: A fundamental challenge in neuroscience is to understand what structure in the world is represented in spatially distributed patterns of neural activity from multiple single-trial measurements. This is often accomplished by learning a simple, linear transformations between neural features and features of the sensory stimuli or motor task. While successful in some early sensory processing areas, linear mappings are unlikely to be ideal tools for elucidating nonlinear, hierarchical representations of higher-order brain areas during complex tasks, such as the production of speech by humans. Here, we apply deep networks to predict produced speech syllables from cortical surface electric potentials recorded from human sensorimotor cortex. We found that deep networks had higher decoding prediction accuracy compared to baseline models, and also exhibited greater improvements in accuracy with increasing dataset size. We further demonstrate that deep network's confusions revealed hierarchical latent structure in the neural data, which recapitulated the underlying articulatory nature of speech motor control. Finally, we used deep networks to compare task-relevant information in different neural frequency bands, and found that the high-gamma band contains the vast majority of information relevant for the speech prediction task, with little-to-no additional contribution from lower-frequencies. Together, these results demonstrate the utility of deep networks as a data analysis tool for neuroscience.
description: 23 pages, 9 figures
title: ADCO, Cinquième cartulaire de Saint-Étienne de Dijon (1664), Cart. 28 (G 132), 258 folios, f. 00345
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2012
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: cartulaire
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: Cinquième cartulaire de Saint-Étienne de Dijon (1664), Archives départementales de la Côte-d'Or, Cart. 28 (G 132), 258 folios, f. 00345, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Cinquième cartulaire de Saint-Étienne de Dijon (1664), Archives départementales de la Côte-d'Or, Cart. 28 (G 132), 258 folios, f. 00345, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https://manuscrits.cbma-project.eu/
description: Provenance: abbaye Saint-Étienne de Dijon
description: Provenance: http://www.wikidata.org/entity/Q15945019