cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 9: of Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development
Creators: name: Pan, Wei-Hung
name: Sommer, Felix
name: Falk-Paulsen, Maren
name: Ulas, Thomas
name: Best, Philipp
name: Fazio, Antonella
name: Priyadarshini Kachroo
name: Luzius, Anne
name: Jentzsch, Marlene
name: Ateequr Rehman
name: Müller, Fabian
name: Lengauer, Thomas
name: Walter, Jörn
name: Künzel, Sven
name: Baines, John
name: Schreiber, Stefan
name: Franke, Andre
name: Schultze, Joachim
name: Bäckhed, Fredrik
name: Rosenstiel, Philip
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Heatmap of developmentally regulated genes (n = 553 genes). (PDF 818 kb)
Scaling and Topological Charge of a Fixed Point Action for $SU(2)$ Gauge Theory
Creators: name: DeGrand, Thomas
name: Hasenfratz, Anna
name: Zhu, Decai
Publisher: name: arXiv
Year: 1996
Subjects: subject: High Energy Physics - Lattice (hep-lat)
subject: FOS: Physical sciences

description: We construct a few parameter approximate fixed point action for SU(2) pure gauge theory and subject it to scaling tests, via Monte Carlo simulation. We measure the critical coupling for deconfinement for lattices of temporal extent $N_t=2$, 3, 4, the torelon mass at fixed physical volume, and the string tension (and heavy quark potential) from Wilson loops. We calculate the topological susceptibility using inverse blocking and show that it scales over the observed range of lattice spacings.
description: 27 pages of Latex including 12 postscript figures
MPEC 2024-N100 : 2023 QL1
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2024
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469

description: The Minor Planet Electronic Circulars contain information on unusual minor planets, routine data on comets and natural satellites, and occasional editorial announcements.  They are published on behalf of Division F of the International Astronomical Union by the Minor Planet Center, Smithsonian Astrophysical Observatory, Cambridge, MA 02138, U.S.A.
Additional file 7: of Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development
Creators: name: Pan, Wei-Hung
name: Sommer, Felix
name: Falk-Paulsen, Maren
name: Ulas, Thomas
name: Best, Philipp
name: Fazio, Antonella
name: Priyadarshini Kachroo
name: Luzius, Anne
name: Jentzsch, Marlene
name: Ateequr Rehman
name: Müller, Fabian
name: Lengauer, Thomas
name: Walter, Jörn
name: Künzel, Sven
name: Baines, John
name: Schreiber, Stefan
name: Franke, Andre
name: Schultze, Joachim
name: Bäckhed, Fredrik
name: Rosenstiel, Philip
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Alternative splicing analysis. a Overview of the five categories of alternative splicing (skipped exon, alternative 5′ splice site, alternative 3′ splice site, mutually exclusive exons, and retained intron) as analyzed by the rMATS program. b Pie charts of the relative composition of alternative splicing events in each sample group. The relative composition patterns of alternative splicing do not differ significantly among the groups. c Count of significantly different (CONV-R versus GF, p
Commentaries on Computer based Language Assessment
Creators: Oh, Sae Rhim
Seong, Yuna P.
Publisher: name: Columbia University
Year: 2012
Subjects: Language and languages--Ability testing--Technological innovations
Educational technology--Evaluation
Second language acquisition--Ability testing
Education
English language--Study and teaching--Foreign speakers

description: The rapid change and use of computer technology has had a profound influence in the field of language teaching and assessment, and the changes that computer and technology has brought to language assessment in particular are not only in the delivery method, but also in the scoring systems (Chapelle & Douglas, 2006). For instance, a wide variety of tasks be given as a test online worldwide, and scores can be available immediately to the test takers. However, along with such advances come potential problems and concerns.
Additional file 1 of Comparative transcriptome analysis reveals that chlorophyll metabolism contributes to leaf color changes in wucai (Brassica campestris L.) in response to cold
Creators: name: Yuan, Lingyun
name: Zhang, Liting
name: Wu, Ying
name: Zheng, Yushan
name: Nie, Libing
name: Zhang, Shengnan
name: Lan, Tian
name: Zhao, Yang
name: Zhu, Shidong
name: Hou, Jinfeng
name: Chen, Guohu
name: Tang, Xiaoyan
name: Wang, Chenggang
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Plant Biology

description: Additional file 1: Table S1. Summary of transcriptome sequencing data obtained using Illumina technology.
Thinking About Feminism, Social Justice, and the Place of Feminist Law Journals: a Letter to the Editors
Creators: Goldberg, Suzanne B.
Publisher: name: Columbia University
Year: 2003
Subjects: subject: Feminism
subject: Social justice
subject: Equality before the law
subject: Law reviews
subject: Law
subject: FOS: Law

description: This essay offers a framework for thinking about the project of a feminist law journal. The framework builds on two central beliefs about our journals. First, feminist law journals have a self-consciously normative and transformative purpose. That is, feminist law journals deliberately set out, at a minimum, to advance views that will challenge sex and gender stereotyping and other barriers to women's equality. Second, this overt commitment to a vision of social change distinguishes feminist law journals from many others and has important effects on the journals' styles and contents. To build on the observation of Emma Coleman Jordan, feminist law journals play an insubordinate role in response to the subordinating effects of legal academia. My argument is that this role, in turn, plays a part in shaping the journals themselves. Specifically, the journals' commitment to feminist visions of social justice affects who is writing for the journals, how we are writing, and what we are writing about. The essay will look at each of these in tum.
Additional file 5: of Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development
Creators: name: Pan, Wei-Hung
name: Sommer, Felix
name: Falk-Paulsen, Maren
name: Ulas, Thomas
name: Best, Philipp
name: Fazio, Antonella
name: Priyadarshini Kachroo
name: Luzius, Anne
name: Jentzsch, Marlene
name: Ateequr Rehman
name: Müller, Fabian
name: Lengauer, Thomas
name: Walter, Jörn
name: Künzel, Sven
name: Baines, John
name: Schreiber, Stefan
name: Franke, Andre
name: Schultze, Joachim
name: Bäckhed, Fredrik
name: Rosenstiel, Philip
Publisher: name: figshare
Year: 2018
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Inorganic Chemistry

description: MA transcriptome plot for CONV-R versus GF comparison. Every dot represents one transcript. The x-axis denotes the mean expression value and the y-axis denotes the log2 fold change of CONV-R versus GF. Red dots indicate statistically significant transcripts (CONV-R versus GF, adjusted p value
One-dimensional anyons in relativistic field theory
Creators: name: Yamamoto, Arata
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: High Energy Physics - Lattice (hep-lat)
subject: FOS: Physical sciences

description: We study relativistic anyon field theory in 1+1 dimensions. While (2+1)-dimensional anyon fields are equivalent to boson or fermion fields coupled with the Chern-Simons gauge fields, (1+1)-dimensional anyon fields are equivalent to boson or fermion fields with many-body interaction. We derive the path integral representation and perform the lattice Monte Carlo simulation.
Freeing the Press from Editorial Discretion and Hegemony in Bona Fide News: Why the Revolution Must Be Televised
Creators: Folami, Akilah N.
Publisher: name: Columbia University
Year: 2011
Subjects: subject: Broadcasting
subject: Mass media
subject: Mass media--Influence
subject: Mass media--Social aspects
subject: Law
subject: FOS: Law
subject: Freedom of the press
subject: Journalism

description: Broadcast journalism's foundational role of informing and engaging the American public in order to further America's self-governing democracy is in crisis. Corporate broadcast owners' efforts to maximize profits and increase advertising revenue during traditional network news and related public affairs programming have led to the closing of many investigative and correspondent television news bureaus and have arguably hastened the devolution of broadcast journalism into a depoliticized spectacle filled with political and celebrity, gossip-driven infotainment. Furthermore, as viewers have abdicated their reliance on broadcast journalism as their primary source of political knowledge, they have also disengaged from professional broadcast journalists' dispassionate, impartial and aspirationally objective method and manner of presentation. This Article contends that these definitional shifts in viewer engagement, which serve as underlying challenges to broadcast journalism's deliberative role, are the symptoms, rather than the root cause of its deliberative peril. These shifts are instead the net effect of long-standing mainstream societal norms and presumptions that led to the narrowing in scope and definition of civic engagement.
Additional file 3: of Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development
Creators: name: Pan, Wei-Hung
name: Sommer, Felix
name: Falk-Paulsen, Maren
name: Ulas, Thomas
name: Best, Philipp
name: Fazio, Antonella
name: Priyadarshini Kachroo
name: Luzius, Anne
name: Jentzsch, Marlene
name: Ateequr Rehman
name: Müller, Fabian
name: Lengauer, Thomas
name: Walter, Jörn
name: Künzel, Sven
name: Baines, John
name: Schreiber, Stefan
name: Franke, Andre
name: Schultze, Joachim
name: Bäckhed, Fredrik
name: Rosenstiel, Philip
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Inorganic Chemistry

description: Venn diagram of differentially expressed genes (CONV-R versus GF, adjusted p value 2) in the three developmental stages. (PDF 409 kb)
Search for dark matter produced in association with bottom or top quarks in $\sqrt{s}$ = 13 TeV pp collisions with the ATLAS detector
Creators: name: ATLAS Collaboration
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: A search for weakly interacting massive particle dark matter produced in association with bottom or top quarks is presented. Final states containing third-generation quarks and missing transverse momentum are considered. The analysis uses 36.1 $fb^{-1}$ of proton-proton collision data recorded by the ATLAS experiment at $\sqrt{s}$ = 13 TeV in 2015 and 2016. No significant excess of events above the estimated backgrounds is observed. The results are interpreted in the framework of simplified models of spin-0 dark-matter mediators. For colour-neutral spin-0 mediators produced in association with top quarks and decaying into a pair of dark-matter particles, mediator masses below 50 GeV are excluded assuming a dark-matter candidate mass of 1 GeV and unitary couplings. For scalar and pseudoscalar mediators produced in association with bottom quarks, the search sets limits on the production cross-section of 300 times the predicted rate for mediators with masses between 10 and 50 GeV and assuming a dark-matter mass of 1 GeV and unitary coupling. Constraints on colour-charged scalar simplified models are also presented. Assuming a dark-matter particle mass of 35 GeV, mediator particles with mass below 1.1 TeV are excluded for couplings yielding a dark-matter relic density consistent with measurements.
description: 52 pages in total, author list starting page 36, 8 figures, 9 tables, submitted to EPJC, All figures including auxiliary figures are available at https://atlas.web.cern.ch/Atlas/GROUPS/PHYSICS/PAPERS/SUSY-2016-18/
Fourier--Bessel functions of singular continuous measures and their many asymptotics
Creators: name: mantica, giorgio
Publisher: name: arXiv
Year: 2006
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences
subject: 42C05, 33E20, 28A80, 30E15, 30E20

description: We study the Fourier transform of polynomials in an orthogonal family, taken with respect to the orthogonality measure. Mastering the asymptotic properties of these transforms, that we call Fourier--Bessel functions, in the argument, the order, and in certain combinations of the two is required to solve a number of problems arising in quantum mechanics. We present known results, new approaches and open conjectures, hoping to justify our belief that the importance of these investigations extends beyond the application just mentioned, and may involve interesting discoveries.
description: 23 pages, 13 figures, to appear in ETNA, conf. proceedings of "Constructive Functions Tech 04", a conference in honor of Ed Saff 60th birthday
Evidence for precession of the isolated neutron star RX J0720.4-3125
Creators: name: Haberl, F.
name: Turolla, R.
name: De Vries, C. P.
name: Zane, S.
name: Vink, J.
name: Mendez, M.
name: Verbunt, F.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The XMM-Newton spectra of the isolated neutron star RX J0720.4-3125 obtained over 4.5 years can be described by sinusoidal variations in the inferred blackbody temperature, the size of the emitting area and the depth of the absorption line with a period of 7.1 +/- 0.5 years, which we suggest to be the precession period of the neutron star. Precession of a neutron star with two hot spots of different temperature and size, probably not located exactly in antipodal positions, may account for the variations in the X-ray spectra, changes in the pulsed fraction, shape of the light curve and the phase-lag between soft and hard energy bands observed from RX J0720.4-3125. An independent sinusoidal fit to published and new pulse timing residuals from a coherent analysis covering ~12 years yields a consistent period of 7.7 +/- 0.6 years supporting the precession model.
description: Accepted for publication in A&A Letters, 5 pages, 5 figures
Machine learning based localization and classification with atomic magnetometers
Creators: name: Deans, Cameron
name: Griffin, Lewis D.
name: Marmugi, Luca
name: Renzoni, Ferruccio
Publisher: name: arXiv
Year: 2017
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: Applied Physics (physics.app-ph)
subject: Instrumentation and Detectors (physics.ins-det)
subject: FOS: Physical sciences

description: We demonstrate identification of position, material, orientation and shape of objects imaged by an $^{85}$Rb atomic magnetometer performing electromagnetic induction imaging supported by machine learning. Machine learning maximizes the information extracted from the images created by the magnetometer, demonstrating the use of hidden data. Localization 2.6 times better than the spatial resolution of the imaging system and successful classification up to 97$\%$ are obtained. This circumvents the need of solving the inverse problem, and demonstrates the extension of machine learning to diffusive systems such as low-frequency electrodynamics in media. Automated collection of task-relevant information from quantum-based electromagnetic imaging will have a relevant impact from biomedicine to security.
description: Main text: 5 pages, 4 figures. Supplementary material: 7 pages, 8 figures. Minor typos amended and References re-arrangement. Added details on algorithms performance in Supplemental Material. Results unchanged. Published version available at https://doi.org/10.1103/PhysRevLett.120.033204
Dust attenuation in 2
Creators: name: McLure, R. J.
name: Dunlop, J. S.
name: Cullen, F.
name: Bourne, N.
name: Best, P. N.
name: Khochfar, S.
name: Bowler, R. A. A.
name: Biggs, A. D.
name: Geach, J. E.
name: Scott, D.
name: Michalowski, M. J.
name: Rujopakarn, W.
name: van Kampen, E.
name: Kirkpatrick, A.
name: Pope, A.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We present the results of a new study of the relationship between infrared excess (IRX), UV spectral slope (beta) and stellar mass at redshifts 2= 9.75, both the IRX-beta and IRX-mass relations are well described by a Calzetti-like attenuation law.
description: 17 pages, 7 figures, accepted version to be published in MNRAS
title: Seroprevalence for Foot and Mouth Disease in Africa: A protocol for systematic review and meta-analysis
Creators: name: Chester Kalinda, PhD.
name: MWEBE, ROBERT
name: Biryomumaisho, Savino
name: Wagaba, David
name: A.Kinengyere, Alison
name: Mugisha, Lawrence
Publisher: name: OSF Registries
Year: 2025
Subjects: subject: Meat Science
subject: Agriculture
subject: Architecture
subject: FOS: Civil engineering
subject: Dairy Science
subject: Life Sciences
subject: Animal Sciences

description: This is a study project looking at the seroprevalence of foot and mouth disease in Africa from 1900 to 2024 . The purpose of the project is to conduct a systematic review and meta-analysis to determine the proportion of animals affected by foot and mouth disease in Africa. This wiil guide the control and planning for FMD at national , regional and international level.
Explicit calculation on two-loop correction to the chiral magnetic effect with NJL model
Creators: name: Chu, Kit-fai
name: Huang, Peng-hui
name: Liu, Hui
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: Chiral Magnetic Effect(CME) is usually believed not receiving higher order corrections due to the non-renormalization of AVV triangle diagram in the framework of quantum field theory. However, the CME-relevant triangle, which is obtained by expanding the current-current correlation requires zero momentum on the axial vertex, is not equivalent to the general AVV triangle when taking the zero-momentum limit owing to the infrared problem on the axial vertex. Therefore, it is still significant to check if there exists perturbative higher order corrections to the current-current correlation. In this paper, we explicitly calculate the two-loop corrections of CME within NJL model with Chern-Simons term which ensures a consistent $μ_5$. The result shows the two-loop corrections to the CME conductivity are zero, which confirms the non-renomalization of CME conductivity.
description: 7 pages, 3 figures
Gross National Happiness - A Real Alternative or a Romantic Wish? Impressions From the Fourth International Conference on Gross National Happiness in Bhutan
Creators: Fishman, Ram Mukul
Publisher: name: Columbia University
Year: 2010
Subjects: subject: Happiness--Economic aspects
subject: Economic indicators
subject: Economic development
subject: Demography
subject: FOS: Sociology
subject: Economics
subject: Sociology

description: Back in the 1970s, when discussion concerning economic development was monopolized by the concept of Gross National Product (GNP), King Jigme Singye Wangchuck of Bhutan developed the term Gross National Hapiness (GNH) as an alternative approach to development. Though the last 25 years of his reign saw Bhutan’s economy grow at an average annual rate of 7% while maintaining environmental quality and social capital, the recent stepping down of the king and the transition to democracy have left Bhutanese policy with an aspiration to uphold his GNH legacy, but without his intuitive guidance on its practical pursuit. In its absence, there is a need to base the concept of GNH on a concrete, objective basis. As an effort to place the discussion on a quantitative and rigorous social scientific basis, Bhutan is inviting scholars from around the world through its annual international conference on GNH. This field note offers a discussion reflecting upon the conference and the concept of GNH.
On the Possibility of Singlet Fission in Crystalline Quaterrylene
Creators: name: Wang, Xiaopeng
name: Liu, Xingyu
name: Cook, Cameron
name: Schatschneider, Bohdan
name: Marom, Noa
Publisher: name: arXiv
Year: 2017
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Singlet fission (SF), the spontaneous down-conversion of a singlet exciton into two triplet excitons residing on neighboring molecules, is a promising route to improving organic photovoltaic (OPV) device efficiencies by harvesting two charge carriers from one photon. However, only a few materials have been discovered that exhibit intermolecular SF in the solid state, most of which are acene derivatives. Recently, there has been a growing interest in rylenes as potential SF materials. We use many-body perturbation theory in the GW approximation and the Bethe-Salpeter equation (BSE) to investigate the possibility of intermolecular SF in crystalline perylene and quaterrylene. A new method is presented for determining the percent charge transfer character (%CT) of an exciton wave-function from double-Bader analysis. This enables relating exciton probability distributions to crystal packing. Based on comparison to known and predicted SF materials with respect to the energy conservation criterion (ES-2ET) and %CT, crystalline quaterrylene is a promising candidate for intermolecular SF. Furthermore, quaterrylene is attractive for OPV applications thanks to its high stability and narrow optical gap. Perylene is not expected to exhibit SF, however it is a promising candidate for harvesting sub-gap photons by triplet-triplet annihilation.
Additional file 18: of Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development
Creators: name: Pan, Wei-Hung
name: Sommer, Felix
name: Falk-Paulsen, Maren
name: Ulas, Thomas
name: Best, Philipp
name: Fazio, Antonella
name: Priyadarshini Kachroo
name: Luzius, Anne
name: Jentzsch, Marlene
name: Ateequr Rehman
name: Müller, Fabian
name: Lengauer, Thomas
name: Walter, Jörn
name: Künzel, Sven
name: Baines, John
name: Schreiber, Stefan
name: Franke, Andre
name: Schultze, Joachim
name: Bäckhed, Fredrik
name: Rosenstiel, Philip
Publisher: name: figshare
Year: 2018
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Plant Biology

description: Gene expression and DNA methylation levels of Mob3b (MOB kinase activator 3B) and Ube2a (Ubiquitin conjugating enzyme E2 A) genes and genomic loci in CONV-R and GF mice during postnatal development. (PDF 438 kb)
Additional file 1 of First wave of COVID-19 hospital admissions in Denmark: a Nationwide population-based cohort study
Creators: name: Holler, Jon Gitz
name: Eriksson, Robert
name: Jensen, Tomas Østergaard
name: van Wijhe, Maarten
name: Fischer, Thea Kølsen
name: Søgaard, Ole Schmeltz
name: Israelsen, Simone Bastrup
name: Mohey, Rajesh
name: Fabricius, Thilde
name: Jøhnk, Frederik
name: Wiese, Lothar
name: Johnsen, Stine
name: Søborg, Christian
name: Nielsen, Henrik
name: Kirk, Ole
name: Madsen, Birgitte Lindegaard
name: Harboe, Zitta Barrella
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Cell Biology
subject: Neuroscience
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Virology
subject: Computational Biology

description: Additional file 1 Table S1
Noisy Spins and the Richardson-Gaudin Model
Creators: name: Rowlands, Daniel A.
name: Lamacraft, Austen
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantum Physics (quant-ph)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: FOS: Physical sciences

description: We study a system of spins (qubits) coupled to a common noisy environment, each precessing at its own frequency. The correlated noise experienced by the spins implies long-lived correlations that relax only due to the differing frequencies. We use a mapping to a non-Hermitian integrable Richardson-Gaudin model to find the exact spectrum of the quantum master equation in the high-temperature limit, and hence determine the decay rate. Our solution can be used to evaluate the effect of inhomogeneous splittings on a system of qubits coupled to a common bath.
description: 5 pages, 4 figures. Fig. 4 is new. Minor additions to introduction and conclusion
Extreme compression for Large Scale Data store
Creators: name: LAURET, Jerome
name: Gonzalez, Juan
name: Buren, Gene Van
name: Nunez, Rafael
name: Canal, Philippe
name: Naumann, Axel
Publisher: name: Zenodo
Year: 2019

description: For the last 5 years Accelogic pioneered and perfected a radically new theory of numerical computing codenamed "Compressive Computing", which has an extremely profound impact on real-world computer science. At the core of this new theory is the discovery of one of its fundamental theorems which states that, under very general conditions, the vast majority (typically between 70% and 80%) of the bits used in modern large-scale numerical computations are absolutely irrelevant for the accuracy of the end result. This theory of Compressive Computing provides mechanisms able to identify (with high intelligence and surgical accuracy) the number of bits (i.e., the precision) that can be used to represent numbers without affecting the substance of the end results, as they are computed and vary in real time. The bottom line outcome would be to provide a state-of-the-art compression algorithm that surpasses those currently available in the ROOT framework, with the purpose of enabling substantial economic and operational gains (including speedup) for High Energy and Nuclear Physics data storage/analysis. In our initial studies, a factor of nearly x4 (3.9) compression was achieved with RHIC/STAR data where ROOT compression managed only x1.4. In this contribution, we will present our concepts of "functionally lossless compression", have a glance at examples and achievements in other communities, present the results and outcome of our current R&D as well as present a high-level view of our plan to move forward with a ROOT implementation that would deliver a basic solution readily integrated into HENP applications. As a collaboration of experimental scientists, private industry, and the ROOT Team, our aim is to capitalize on the substantial success delivered by the initial effort and produce a robust technology properly packaged as an open-source tool that could be used by virtually every experiment around the world as means for improving data management and accessibility.
Additional file 16: of Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development
Creators: name: Pan, Wei-Hung
name: Sommer, Felix
name: Falk-Paulsen, Maren
name: Ulas, Thomas
name: Best, Philipp
name: Fazio, Antonella
name: Priyadarshini Kachroo
name: Luzius, Anne
name: Jentzsch, Marlene
name: Ateequr Rehman
name: Müller, Fabian
name: Lengauer, Thomas
name: Walter, Jörn
name: Künzel, Sven
name: Baines, John
name: Schreiber, Stefan
name: Franke, Andre
name: Schultze, Joachim
name: Bäckhed, Fredrik
name: Rosenstiel, Philip
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Inorganic Chemistry

description: Venn diagram of differentially expressed genes (CONV-R versus GF) that also contain DMPs within a 5-kb window. (PDF 377 kb)
Physics Data Production on HPC: Experience to be efficiently running at scale
Creators: name: LAURET, Jerome
name: Poat, Michael
name: Porter, Jeff
name: Balewski, Jan
Publisher: name: Zenodo
Year: 2019

description: The Solenoidal Tracker at RHIC (STAR) is a multi-national supported experiment located at Brookhaven National Lab and is currently the only remaining running experiment at RHIC. The raw physics data captured from the detector is on the order of tens of PBytes per data acquisition campaign, which makes STAR fit well within the definition of a big data science experiment. The production of the data has typically run using an High Throughput Computing (HTC) approach either done on a local farm or via Grid computing resources. Especially, all embedding simulations (complex workflow mixing real and simulated events) have been run on standard Linux resources at NERSC/PDSF. However, as per April 2019 PDSF has been retired and High Performance Computing (HPC) resources such as the Cray XC-40 Supercomputer known as "Cori" have become available for STAR's data production as well as embedding. STAR has been the very first experiment to show feasibility of running a sustainable data production campaign on this computing resource. In this contribution, we hope to share with the community the best practices for using such resource efficiently. The use of Docker containers with Shifter is the standard approach to run on HPC at NERSC - this approach encapsulates the environment in which a standard STAR workflow runs. From the deployment of a tailored Scientific Linux environment (with the set of libraries and special configurations required for STAR to run) to the deployment of third-party software and the STAR specific software stack, we've learned it has become impractical to rely on a set of containers containing each specific software release. To this extent, a solution based on CVMFS for the deployment of software and services has been deployed but it doesn't stop there. One needs to make careful scalability considerations when using a resource like Cori, such as avoiding metadata lookups, scalability of distributed filesystems, and real limitations of containerized environments on HPC. Additionally, CVMFS clients are not compatible on Cori nodes and one needs to rely on an indirect NFS mount scheme using special DVS servers designed to forward data to worker nodes. In our contribution, we will discuss our strategies from the past and our current solution based on CVMFS. The second focus of our presentation will be to discuss strategies to find the most efficient use of database Shifter containers serving our data production (a near "database as a service" approach) and the best methods to test and scale your workflow efficiently.
Study of time lags in HETE-2 Gamma-Ray Bursts with redshift: search for astrophysical effects and Quantum Gravity signature
Creators: name: Bolmont, J.
name: Atteia, J. -L.
name: Jacholkowska, A.
name: Piron, F.
name: Pizzichini, G.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The study of time lags between spikes in Gamma-Ray Burst light curves in different energy bands as a function of redshift may lead to the detection of effects due to Quantum Gravity. We present an analysis of 15 Gamma-Ray Bursts with measured redshift, detected by the HETE-2 mission in order to measure time lags related to astrophysical effects and search for Quantum Gravity signature in the framework of an extra-dimension string model. The wavelet transform method is used both for de-noising the light curves and for the detection of sharp transitions. The use of photon tagged data allows us to consider various energy ranges and to evaluate systematic effects due to selections and cuts. The analysis of maxima and minima of the light curves leads to no significant Quantum Gravity effect. A lower limit at 95% Confidence Level on the Quantum Gravity scale parameter of 2x10**15 GeV is set.
description: 34 pages, 11 figures. Submitted to ApJ
Towards physical principles of biological evolution
Creators: name: Katsnelson, Mikhail I.
name: Wolf, Yuri I.
name: Koonin, Eugene V.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Other Quantitative Biology (q-bio.OT)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Populations and Evolution (q-bio.PE)
subject: FOS: Biological sciences
subject: FOS: Physical sciences

description: Biological systems reach organizational complexity that far exceeds the complexity of any known inanimate objects. Biological entities undoubtedly obey the laws of quantum physics and statistical mechanics. However, is modern physics sufficient to adequately describe, model and explain the evolution of biological complexity? Detailed parallels have been drawn between statistical thermodynamics and the population-genetic theory of biological evolution. Based on these parallels, we outline new perspectives on biological innovation and major transitions in evolution, and introduce a biological equivalent of thermodynamic potential that reflects the innovation propensity of an evolving population. Deep analogies have been suggested to also exist between the properties of biological entities and processes, and those of frustrated states in physics, such as glasses. We extend such analogies by examining frustration-type phenomena, such as conflicts between different levels of selection, in biological evolution. We further address evolution in multidimensional fitness landscapes from the point of view of percolation theory and suggest that percolation at level above the critical threshold dictates the tree-like evolution of complex organisms. Taken together, these multiple connections between fundamental processes in physics and biology imply that construction of a meaningful physical theory of biological evolution might not be a futile effort.
description: Invited article, Focus Issue on 21th Century Frontiers, final version
On the Generalized Maxwell-Bloch Equations
Creators: name: Saksida, Pavle
Publisher: name: arXiv
Year: 2006
Subjects: subject: Mathematical Physics (math-ph)
subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: FOS: Physical sciences

description: A new Hamiltonian structure of the Maxwell-Bloch equations is described. In this setting the Maxwell-Bloch equations appear as a member of a family of generalized Maxwell-Bloch systems. The family is parameterized by compact semi-simple Lie groups, the original Maxwell-Bloch system being the member corresponding to SU(2). The Hamiltonian structure is then used in the construction of a new family of symmetries and the associated conserved quantities of the Maxwell-Bloch equations.
description: Published in SIGMA (Symmetry, Integrability and Geometry: Methods and Applications) at http://www.emis.de/journals/SIGMA/
title: 01_1521
Creators: name: Wesley Baldwin, John
name: Baldwin, John W.
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2018
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: L'ensemble de ces notes ont été crée par John Baldwin lors d'une de ses premières périodes de résidence à Paris. Ces documents comprennent tous les magistri qu’il avait pu rencontrer dans ses sources. Aux XIIème et XIIIème siècles, les universités n'existant pas encore, le titre de magister s'il évoque certainement une compétence n'est pas rattaché de façon systématique au passage par les écoles. De surcroît, les magistris sont le plus souvent désignés par leur seul prénom. La lecture de ces données est donc difficile et suppose un long travail pour tenter d'identifier un individu auquel on pourrait rattacher plusieurs mentions. John Baldwin avait donc renoncé à utiliser ces données pour donner un prolongement à sa magnifique étude sur les gradués d'université et leur emploi par les Capétiens et les Plantagenêts. Néanmoins, il a conservé ces données et elles sont potentiellement très utile dans le cadre de Studium, comme le sont toutes les mentions dans les volumes des Fasti Ecclesiae Gallicanae de chanoines portant ce titre de magister sans autres précisions. L'ampleur des dépouillements rend ces données très utiles et nous devons une grande reconnaissance à John Baldwin pour avoir pris la peine de faire photocopier ses fiches et de nous les avoir transmises amicalement.
Les données ainsi que les images des fiches sont accessibles sur le site Internet à l'adresse suivante : http://studium-baldwin.lamop.fr/.
Les transcriptions des fiches ont été effectuées par des étudiants de Paris 1 Panthéon - Sorbonne mais elles n'ont pas été corrigées par la suite.
description: Relation: https://lamop.hypotheses.org/
Scheduling, deploying and monitoring 100 million tasks
Creators: name: Wicenec, Andreas
name: Wu, Chen
Publisher: name: Zenodo
Year: 2019

description: The SKA will enable the production of full polarisation spectral line cubes at a very high spatial and spectral resolution. Performing a back-of-the-evelope estimate gives you the incredible amount of around 75-100 million tasks to run in parallel to perform a state-of-the-art faceting algorithm (assuming that it would spawn off just one task per facet, which is not the case). This simple estimate formed the basis of the development of a prototype, which had scalability as THE primary requirement. In this talk I will present the current status of the DALiuGE system, including some really exciting computer science research.
Jets in a strongly coupled anisotropic plasma
Creators: name: Fadafan, Kazem Bitaghsir
name: Morad, Razieh
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: In this paper, we study the dynamics of the light quark jet moving through the static, strongly coupled $\mathcal{N}=4$, anisotropic plasma with and without charge. The light quark is presented by a point-like initial condition falling string in the context of the AdS/CFT. We calculate the stopping distance of the light quark in the anisotropic medium and compare it with its isotropic value. By studying the falling string in the beam direction and transverse direction, we find that the jet quenching increases in both directions. Although, the enhancement of quenching is larger in the beam direction. Also, the suppression of stopping distance is more prominent when the anisotropic plasma have the same temperature as the isotropic plasma.
description: Minor misprints corrected, some references added, and some figures changed
Additional file 15: of Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development
Creators: name: Pan, Wei-Hung
name: Sommer, Felix
name: Falk-Paulsen, Maren
name: Ulas, Thomas
name: Best, Philipp
name: Fazio, Antonella
name: Priyadarshini Kachroo
name: Luzius, Anne
name: Jentzsch, Marlene
name: Ateequr Rehman
name: Müller, Fabian
name: Lengauer, Thomas
name: Walter, Jörn
name: Künzel, Sven
name: Baines, John
name: Schreiber, Stefan
name: Franke, Andre
name: Schultze, Joachim
name: Bäckhed, Fredrik
name: Rosenstiel, Philip
Publisher: name: figshare
Year: 2018
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Inorganic Chemistry

description: Heatmap of methylation levels for developmentally related methylation sites. (PDF 658 kb)
Resonance oscillations of non-reciprocal long-range van der Waals forces between atoms in electromagnetic fields
Creators: name: Sherkunov, Yury
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We study theoretically the van der Waals interaction between two atoms out of equilibrium with isotropic electromagnetic field. We demonstrate that at large interatomic separations, the van der Waals forces are resonant, spatially oscillating and non-reciprocal due to resonance absorption and emission of virtual photons. We suggest that the van der Waals forces can be controlled and manipulated by tuning the spectrum of artificially created random light.
description: Extended version accepted by PRA
Readying CERN for connected device era
Creators: name: Sierra, Rodrigo
Publisher: name: Zenodo
Year: 2019

description: Whether you consider "IoT" as a real thing or a buzzword, there's no doubt that connected devices, data analysis and automation are transforming industry. CERN is no exception: a network of LoRa-based radiation monitors has recently been deployed and there is a growing interest in the advantages connected devices could bring—to accelerator operations just as much as to building management. Connected devices bring risks as well as advantages, however, and the last thing any business needs is an unsafe, uncoordinated and unmanaged sensor environment. To support the deployment of the LoRa-based radiation sensors, CERN has established both a Low Power Wireless Area Network (LPWAN) to complement the existing wired and wireless networks and a service infrastructure to manage the provisioning, orchestration, data transfer, security and operation for connected devices. This presentation will describe CERN's LPWAN infrastructure and our connected-device support architecture and set out how we foresee this being used to support devices that connect to higher-bandwidth networks such as Wi-Fi, BLE or 5G.
Additional file 2: of An internet-based intervention for people with psychosis (EviBaS): study protocol for a randomized controlled trial
Creators: name: RĂźegg, Nina
name: Moritz, Steffen
name: Berger, Thomas
name: LĂźdtke, Thies
name: Westermann, Stefan
Publisher: name: figshare
Year: 2018
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Intermediate Assessments Questionnaire. (DOCX 12 kb)
Deconfinement in QCD with dynamical quarks
Creators: name: Borisenko, O.
name: Faber, M.
name: Zinovjev, G.
Publisher: name: arXiv
Year: 1996
Subjects: subject: High Energy Physics - Lattice (hep-lat)
subject: FOS: Physical sciences

description: We study the phase structure of full QCD within the canonical ensemble with respect to triality in a lattice formulation. The procedure for the calculation of the effective potentials in this case is given. As an example we consider the three dimensional SU(2) gauge model at finite temperatures in the strong coupling region. The potential exhibits a deconfinement phase transition unlike the similar potential obtained in the grand canonical ensemble which demonstrates explicit Z(N) symmetry breaking at any temperature. Furthermore, we investigate the effective potential with the chiral condensate included. In contradiction to other authors, we find chiral symmetry restoration in all triality sectors. In the scheme with massless staggered fermions we observe chiral symmetry restoration accompanying a deconfinement phase transition of first order. Above the critical point, besides two Z(2) symmetric "deconfining" vacua there exists a metastable "confining" vacuum in a wide region of parameters. Such a picture could be interpreted as an indication on a mixed state of hadrons and quarks in the vicinity of the critical line.
description: 17 pages with 6 eps. figures included
Spin-glass ground state in a triangular-lattice compound YbZnGaO$_4$
Creators: name: Ma, Zhen
name: Wang, Jinghui
name: Dong, Zhao-Yang
name: Zhang, Jun
name: Li, Shichao
name: Zheng, Shu-Han
name: Yu, Yunjie
name: Wang, Wei
name: Che, Liqiang
name: Ran, Kejing
name: Bao, Song
name: Cai, Zhengwei
name: Čermák, P.
name: Schneidewind, A.
name: Yano, S.
name: Gardner, J. S.
name: Lu, Xin
name: Yu, Shun-Li
name: Liu, Jun-Ming
name: Li, Shiyan
name: Li, Jian-Xin
name: Wen, Jinsheng
Publisher: name: arXiv
Year: 2017
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Materials Science (cond-mat.mtrl-sci)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We report on comprehensive results identifying the ground state of a triangular-lattice structured YbZnGaO$_4$ to be spin glass, including no long-range magnetic order, prominent broad excitation continua, and absence of magnetic thermal conductivity. More crucially, from the ultralow-temperature a.c. susceptibility measurements, we unambiguously observe frequency-dependent peaks around 0.1 K, indicating the spin-glass ground state. We suggest this conclusion to hold also for its sister compound YbMgGaO$_4$, which is confirmed by the observation of spin freezing at low temperatures. We consider disorder and frustration to be the main driving force for the spin-glass phase.
description: Version as accepted to PRL