cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Development of analytical workflows and bioinformatic programs for mass spectrometry-based metabolomics
Creators: name: Yu, Huaxu
Publisher: name: University of British Columbia
Year: 2023

description: Quantitative determination of metabolite concentrations in biological samples is fundamental to biological and clinical research. Metabolomics analyzes the entire set of metabolites in a given biological system. It is an emerging technology in the post-genomic era to interrogate cellular biochemistry, perform diagnostic testing, stratify patient populations, and characterize biochemical mechanisms of disease. Recent successes in metabolomics demonstrate the central role of mass spectrometry (MS) in small molecule quantification, owing to its high sensitivity, high throughput, and broad metabolic coverage. Even though diverse MS instruments have been developed for metabolite quantification, it is still challenging to quantify the entire metabolome accurately and precisely. Besides MS hardware advances, quantitative metabolomics also requires extensive efforts in other analytical and bioinformatic methodology development. For a given MS platform, analytical method development focuses on laboratory practice, including sample handling, metabolome extraction, and data acquisition. In comparison, bioinformatic method development emphasizes computational data processing, such as data calibration, data curation, and statistical analysis. The subsequent chapters detail the development of analytical and bioinformatic solutions for quantitative metabolomics from improving metabolic coverage, analytical accuracy, analytical precision, and statistical analysis. Lastly, this thesis describes a metabolomics study of mouse brain regional differences in metabolism between males and females. Collectively my studies of quantitative metabolomics improve quantitative performance, deepen our knowledge of the MS-based quantification process, and facilitate the generation of confident biological conclusions.
Concentration inequalities for disordered models
Creators: name: Watbled, Frederique
Publisher: name: arXiv
Year: 2010
Subjects: subject: Probability (math.PR)
subject: FOS: Mathematics

description: We use a generalization of Hoeffding's inequality to show concentration results for the free energy of disordered pinning models, assuming only that the disorder has a finite exponential moment. We also prove some concentration inequalities for directed polymers in random environment, which we use to establish a large deviations results for the end position of the polymer under the polymer measure.
description: Revised version
Additional file 1 of Optimising personal continuity for older patients in general practice: a study protocol for a cluster randomised stepped wedge pragmatic trial
Creators: name: Groot, Lex J. J.
name: Schers, Henk J.
name: Burgers, Jako S.
name: Schellevis, Francois G.
name: Smalbrugge, Martin
name: Uijen, Annemarie A.
name: van de Ven, Peter M.
name: van der Horst, Henriëtte E.
name: Maarsingh, Otto R.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
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: Cancer
subject: Science Policy
subject: Computational Biology

description: Additional file 1. Royal College of General Practitioners Continuity of Care Toolkit.
Nonholonomic Relativistic Diffusion and Exact Solutions for Stochastic Einstein Spaces
Creators: name: Vacaru, Sergiu I.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Mathematical Physics (math-ph)
subject: Probability (math.PR)
subject: FOS: Physical sciences
subject: FOS: Mathematics
subject: 35Q75, 35Q76, 35R60, 53B15, 60H15, 83C15, 83C57

description: We develop an approach to the theory nonholonomic relativistic stochastic processes on curved spaces. The Ito and Stratonovich calculus are formulated for spaces with conventional horizontal (holonomic) and vertical (nonholonomic) splitting defined by nonlinear connection structures. Geometric models of relativistic diffusion theory are elaborated for nonholonomic (pseudo) Riemannian manifolds and phase velocity spaces. Applying the anholonomic deformation method, the field equations in Einstein gravity and various modifications are formally integrated in general forms, with generic off-diagonal metrics depending on some classes of generating and integration functions. Choosing random generating functions we can construct various classes of stochastic Einstein manifolds. We show how various types of stochastic gravitational interactions with mixed holonomic/ nonholonomic and random variables can be modelled in explicit form and study their main geometric and stochastic properties. Finally, there are analyzed the conditions when non-random classical gravitational processes transform into stochastic ones and inversely.
description: latex2e epj macros, 11pt, 22 pages, v4, accepted to The European Physical Journal PLUS, EPJP
Additional file 2 of Small nucleolar RNAs signature (SNORS) identified clinical outcome and prognosis of bladder cancer (BLCA)
Creators: name: Cao, Rui
name: Ma, Bo
name: Yuan, Lushun
name: Wang, Gang
name: Tian, Ye
Publisher: name: figshare
Year: 2020
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Computational Biology

description: Additional file 2: Table S2. Summary of differentially expressed snoRNAs (DESs) in TCGA-BLCA cohort.
Computing differential operators of the particle velocity in moving particle clouds using tessellations
Creators: name: Maurel-Oujia, Thibault
name: Matsuda, Keigo
name: Schneider, Kai
Publisher: name: arXiv
Year: 2022
Subjects: subject: Numerical Analysis (math.NA)
subject: Computational Physics (physics.comp-ph)
subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Mathematics
subject: FOS: Physical sciences

description: We propose finite-time measures to compute the divergence, the curl and the velocity gradient tensor of the point particle velocity for two- and three-dimensional moving particle clouds. For this purpose, a tessellation of the particle positions is performed to assign a volume to each particle. We introduce a modified Voronoi tessellation which overcomes some drawbacks of the classical construction. Instead of the circumcenter we use the center of gravity of the Delaunay cell for defining the vertices. Considering then two subsequent time instants, the dynamics of the volume can be assessed. Determining the volume change of tessellation cells yields the divergence of the particle velocity. Reorganizing the various velocity coefficients allows computing the curl and even the velocity gradient tensor. The helicity of particle velocity can be likewise computed and swirling motion of particle clouds can be quantified. First we assess the numerical accuracy for randomly distributed particles. We find a strong Pearson correlation between the divergence computed with the the modified tessellation, and the exact value. Moreover, we show that the proposed method converges with first order in space and time in two and three dimensions. Then we consider particles advected with random velocity fields with imposed power-law energy spectra. We study the number of particles necessary to guarantee a given precision. Finally, applications to fluid particles advected in three-dimensional fully developed isotropic turbulence show the utility of the approach for real world applications to quantify self-organization in particle clouds and their vortical or even swirling motion.
Verhandlungen der vom 21. bis 29. September 1909 in London und Cambridge abgehaltenen sechzehnten allgemeinen Conferenz der Internationalen Erdmessung. 1. Theil, Sitzungsberichte und Landesberichte über die Arbeiten in den einzelnen Staaten
Creators: name: Unkn
Publisher: name: unkn
Year: 2022

description: Verhandlungen der ... allgemeinen Conferenz der Internationalen Erdmessung
description: 1910
Verhandlungen der vom 21. bis 29. September 1909 in London und Cambridge abgehaltenen sechzehnten allgemeinen Conferenz der Internationalen Erdmessung. 3. Teil, Spezialbericht über die relativen Schweremessungen
Creators: name: Unkn
Publisher: name: unkn
Year: 2022

description: Verhandlungen der ... allgemeinen Conferenz der Internationalen Erdmessung
description: 1911
Combined study of static and dynamic reservoir modelling for the CO2 storage project in deep saline aquifer in Zhundong, Xinjiang, China
Creators: name: Wen, D.
name: Ma, X.
name: Wang, L.
name: Li, X.
name: Diao, Y.
name: Zhang, H.
name: Hu, L.
name: Long, H.
name: Shao, W.
Publisher: name: Commonwealth of Australia (Geoscience Australia)
Year: 2019
Subjects: EARTH SCIENCES
Junggar Basin
Deep saline aquifers
CO2 geological storage
Storage capacity assessment
Injection scenario
Static reservoir modelling
Dynamic simulation
Published_External

description: Geological storage of CO2 has been identified as an effective technology to reduce greenhouse gas emissions and mitigate global climate change. Deep saline aquifers are recognised as having the highest CO2 storage potential. The Junggar Basin is located in the northern Xinjiang and has extensive distributed deep saline aquifers, which could be the effective sites for CO2 storage. CO2 injectivity and storage capacity were investigated through both static and dynamic modelling on the Cretaceous Donggou Formation aquifer in Zhundong area, Junggar Basin. A static reservoir model was constructed by integrating well data and seismic attributes, and the best estimate of storage capacity (P50) was estimated to be approximately 72 million tonnes using a storage coefficient of 2.4% (P50). Dynamic simulation provided a comprehensive understanding of injectivity, storage capacity and explanation of the different storage mechanisms after CO2 injection. The total injection of CO2 was 31.4 million tonnes with five injection wells. Simulations suggest that at year 300 after injection, 28% of the injected CO2 was stored by residual trapping and 26% of the injected CO2 was dissolved into formation water. The modelling results suggest that there is good potential for large scale CO2 aquifer storage in the Junggar Basin.
Verhandlungen der vom 17. bis 27. September 1912 in Hamburg abgehaltenen siebzehnten allgemeinen Conferenz der Internationalen Erdmessung. 1. Theil, Sitzungsberichte und Landesberichte über die Arbeiten in den einzelnen Staaten
Creators: name: Unkn
Publisher: name: unkn
Year: 2022

description: Verhandlungen der ... allgemeinen Conferenz der Internationalen Erdmessung
description: 1913
Additional file 1 of A pyroptosis-related gene signature provides an alternative for predicting the prognosis of patients with hepatocellular carcinoma
Creators: name: Lin, Dezhao
name: Chen, Zhuoyan
name: Zeng, Yuan
name: Ding, Yinrong
name: Zhao, Luying
name: Xu, Qian
name: Yu, Fujun
name: Song, Xian
name: Zhu, Xiaohong
Publisher: name: figshare
Year: 2023
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 1. The description of pyroptosis related genes.
Rapidity distribution as a probe for elliptical flow at intermediate energies
Creators: name: Kumar, Sanjeev
name: Kaur, Varinderjit
name: Kumar, Suneel
Publisher: name: arXiv
Year: 2010
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: Interplay between the spectator and participant matter in heavy-ion collisions is investigated within isospin dependent quantum molecular dynamics (IQMD) model in term of rapidity distribution of light charged particles. The effect of different types and size rapidity distributions is studied in elliptical flow. The elliptical flow patterns show important role of the nearby spectator matter on the participant zone. This role is further explained on the basis of passing time of the spectator and expansion time of the participant zone. The transition from the in-plane to out-of-plane is observed only when the mid-rapidity region is included in the rapidity bin, otherwise no transition occurs. The transition energy is found to be highly sensitive towards the size of the rapidity bin, while weakly on the type of the rapidity distribution. The theoretical results are also compared with the experimental findings and are found in good agreement.
description: 8 figures
Fast nuclear-spin gates and electrons-nuclei entanglement of neutral atoms in weak magnetic fields
Creators: name: Shi, Xiao-Feng
Publisher: name: arXiv
Year: 2022
Subjects: subject: Quantum Physics (quant-ph)
subject: Applied Physics (physics.app-ph)
subject: Atomic Physics (physics.atom-ph)
subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: We present fast Rydberg-mediated entanglement involving nuclear spins of divalent atoms with $^{171}$Yb as an example. First, we show a nuclear-spin controlled phase gate of an arbitrary phase realizable either with two laser pulses when assisted by Stark shifts, or with three pulses. Second, we propose to create a state $(\lvert\text{cc}\rangle_{\text{e}} \otimes \lvertΦ\rangle_{\text{n}} + \lvertΦ\rangle_{\text{e}} \otimes \lvertΨ\rangle_{\text{n}} )/\sqrt{2}$ entangled between the electrons~(e) and nuclear spins~(n) of two atoms, where $\lvertΦ\rangle$ and $\lvertΨ\rangle$ are two orthogonal Bell states and $\lvert \text{c}\rangle_{\text{e}}$ denotes the clock state. For want of a better term, it is called a Super Bell State for it mimics a ``large'' Bell state incorporating three ``smaller'' Bell states. Third, we show a protocol to create a three-atom state $(\sqrt{3}\lvert\text{ccc}\rangle_{\text{e}} \otimes \lvertΛ\rangle_{\text{n}} + \lvert \text{W}\rangle_{\text{e}} \otimes \lvert \text{GHZ}\rangle_{\text{n}} )/2$, where $\lvertΛ\rangle_{\text{n}}$ is a nuclear-spin state, $\lvert \text{W}\rangle_{\text{e}}$ is a W state in the ground-clock state space, and $\lvert \text{GHZ}\rangle_{\text{n}}$ is the Greenberger-Horne-Zeilinger~(GHZ) state in the nuclear-spin state space. The four protocols possess high intrinsic fidelities, do not require single-site Rydberg addressing, and can be executed with large $Ω_{\text{m}}$ in a weak, Gauss-scale magnetic field for they involve Rydberg excitation of both nuclear-spin qubit states in each atom. The latter two protocols can enable measurement-based preparation of Bell, hyperentangled, and GHZ states.
description: 19 pages, 11 figures
Evaluation of a $^{88}$Sr$^+$ optical clock with a direct measurement of the blackbody radiation shift and determination of the clock frequency
Creators: name: Steinel, M.
name: Shao, H.
name: Filzinger, M.
name: Lipphardt, B.
name: Brinkmann, M.
name: Didier, A.
name: Mehlstäubler, T. E.
name: Lindvall, T.
name: Peik, E.
name: Huntemann, N.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We report on an evaluation of an optical clock that uses the $\phantom{}^2S_{1/2} \rightarrow \phantom{}^2D_{5/2}$ transition of a single $^{88}$Sr$^+$ ion as the reference. In contrast to previous work, we estimate the effective temperature of the blackbody radiation that shifts the reference transition directly during operation from the corresponding frequency shift and the well-characterized sensitivity to thermal radiation. We measure the clock output frequency against an independent $^{171}$Yb$^+$ ion clock, based on the $\phantom{}^2S_{1/2} (F=0) \rightarrow \phantom{}^2F_{7/2} (F=3)$ electric octupole (E3) transition, and determine the frequency ratio with a total fractional uncertainty of $2.3\times 10^{-17}$. Relying on a previous measurement of the $^{171}$Yb$^+$ (E3) clock frequency, we find the absolute frequency of the $^{88}$Sr$^+$ clock transition to be $444779044095485.271(59)\,\text{Hz}$. Our result reduces the uncertainty by a factor of $3$ compared to the previously most accurate measurement and may help to resolve so far inconsistent determinations of this value. We also show that for three simultaneously interrogated $^{88}$Sr$^+$ ions, the increased number causes the expected improvement of the short-term frequency instability of the optical clock without degrading its systematic uncertainty.
description: 6 pages, 4 figures
Inelastic chaotic scattering on a Bose-Einstein condensate
Creators: name: Hunn, Stefan
name: Hiller, Moritz
name: Buchleitner, Andreas
name: Cohen, Doron
name: Kottos, Tsampikos
Publisher: name: arXiv
Year: 2010
Subjects: subject: Quantum Physics (quant-ph)
subject: Quantum Gases (cond-mat.quant-gas)
subject: Chaotic Dynamics (nlin.CD)
subject: FOS: Physical sciences

description: We devise a microscopic scattering approach to probe the excitation spectrum of a Bose-Einstein condensate. We show that the experimentally accessible scattering cross section exhibits universal Ericson fluctuations, with characteristic properties rooted in the underlying classical field equations.
description: 11 pages, 5 figures
Verhandlungen der vom 17. bis 27. September 1912 in Hamburg abgehaltenen siebzehnten allgemeinen Conferenz der Internationalen Erdmessung. 2. Theil, Spezialberichte, Berichte über die Tätigkeit des Zentralbureaus in den Jahren 1911, 1912 und 1913 u.s.w.
Creators: name: Unkn
Publisher: name: unkn
Year: 2022

description: Verhandlungen der ... allgemeinen Conferenz der Internationalen Erdmessung
description: 1914
Additional file 2 of Optimising personal continuity for older patients in general practice: a study protocol for a cluster randomised stepped wedge pragmatic trial
Creators: name: Groot, Lex J. J.
name: Schers, Henk J.
name: Burgers, Jako S.
name: Schellevis, Francois G.
name: Smalbrugge, Martin
name: Uijen, Annemarie A.
name: van de Ven, Peter M.
name: van der Horst, Henriëtte E.
name: Maarsingh, Otto R.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
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: Cancer
subject: Science Policy
subject: Computational Biology

description: Additional file 2. Unpublished observations by van Stippend and Schers (2016). The Usual Provider Continuity index (UPC) was calculated among 9 general practices in the Nijmegen area (the Netherlands). The UPC is used to measure personal continuity and is calculated as the number of contacts with the own GP divided by the total number of general practice contacts during the study period. The score of the UPC index varies between 0 (low personal continuity) and 1 (high personal continuity)
Primordial magnetic fields with X-ray and S-Z cluster survey
Creators: name: Tashiro, Hiroyuki
name: Takahashi, Keitaro
name: Ichiki, Kiyotomo
Publisher: name: arXiv
Year: 2010
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: The effect of primordial magnetic fields on X-ray or S-Z galaxy cluster survey is investigated. After recombination, the primordial magnetic fields generate additional density fluctuations. Such density fluctuations enhance the number of galaxy clusters. Taking into account the density fluctuations generated by primordial magnetic fields, we calculate the number of galaxy clusters based on the Press-Schechter formalism. Comparing with the results of Chandra X-ray galaxy cluster survey, we found that the existence of primordial magnetic fields with amplitude larger than 10 nGuass would be inconsistent. Moreover, we show that S-Z cluster surveys also have a sensitivity to constrain primordial magnetic fields. Especially SPT S-Z cluster survey has a potential to constrain the primordial magnetic fields with several nano Gauss.
description: Submitted to MNRAS. 8 pages, 5 figures
Quark nova imprint in the extreme supernova explosion SN 2006gy
Creators: name: Ouyed, Rachid
name: Kostka, Mathew
name: Koning, Nico
name: Leahy, Denis
name: Steffen, Wolfgang
Publisher: name: arXiv
Year: 2010
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: The extremely luminous supernova 2006gy (SN 2006gy) is among the most energetic ever observed. The peak brightness was 100 times that of a typical supernova and it spent an unheard of 250 days at magnitude -19 or brighter. Efforts to describe SN 2006gy have pushed the boundaries of current supernova theory. In this work we aspire to simultaneously reproduce the photometric and spectroscopic observations of SN 2006gy using a quark nova model. This analysis considers the supernova explosion of a massive star followed days later by the quark nova detonation of a neutron star. We lay out a detailed model of the interaction between the supernova envelope and the quark nova ejecta paying special attention to a mixing region which forms at the inner edge of the supernova envelope. This model is then fit to photometric and spectroscopic observations of SN 2006gy. This QN model naturally describes several features of SN 2006gy including the late stage light curve plateau, the broad Hα line and the peculiar blue Hα absorption. We find that a progenitor mass between 20Msun and 40Msun provides ample energy to power SN 2006gy in the context of a QN.
description: 15 pages, 9 figures
Additional file 3 of Optimising personal continuity for older patients in general practice: a study protocol for a cluster randomised stepped wedge pragmatic trial
Creators: name: Groot, Lex J. J.
name: Schers, Henk J.
name: Burgers, Jako S.
name: Schellevis, Francois G.
name: Smalbrugge, Martin
name: Uijen, Annemarie A.
name: van de Ven, Peter M.
name: van der Horst, Henriëtte E.
name: Maarsingh, Otto R.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
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: Cancer
subject: Science Policy
subject: Computational Biology

description: Additional file 3. Description of the determinants for implementation of healthcare innovations.
Additional file 3 of Small nucleolar RNAs signature (SNORS) identified clinical outcome and prognosis of bladder cancer (BLCA)
Creators: name: Cao, Rui
name: Ma, Bo
name: Yuan, Lushun
name: Wang, Gang
name: Tian, Ye
Publisher: name: figshare
Year: 2020
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Computational Biology

description: Additional file 3: Table S3. Summary of univariate Cox regression analysis for snoRNAs in TCGA-BLCA cohort.
Additional file 4 of Optimising personal continuity for older patients in general practice: a study protocol for a cluster randomised stepped wedge pragmatic trial
Creators: name: Groot, Lex J. J.
name: Schers, Henk J.
name: Burgers, Jako S.
name: Schellevis, Francois G.
name: Smalbrugge, Martin
name: Uijen, Annemarie A.
name: van de Ven, Peter M.
name: van der Horst, Henriëtte E.
name: Maarsingh, Otto R.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
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: Cancer
subject: Science Policy
subject: Computational Biology

description: Additional file 4. Data management plan.
High-performance repetition cat code using fast noisy operations
Creators: name: Régent, Francois-Marie Le
name: Berdou, Camille
name: Leghtas, Zaki
name: Guillaud, Jérémie
name: Mirrahimi, Mazyar
Publisher: name: arXiv
Year: 2022
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Bosonic cat qubits stabilized by two-photon driven dissipation benefit from exponential suppression of bit-flip errors and an extensive set of gates preserving this protection. These properties make them promising building blocks of a hardware-efficient and fault-tolerant quantum processor. In this paper, we propose a performance optimization of the repetition cat code architecture using fast but noisy CNOT gates for stabilizer measurements. This optimization leads to high thresholds for the physical figure of merit, given as the ratio between intrinsic single-photon loss rate of the bosonic mode and the engineered two-photon loss rate, as well as a very interesting scaling below threshold of the required overhead, to reach an expected level of logical error rate. Relying on the specific error models for cat qubit operations, this optimization exploits fast parity measurements, using accelerated low-fidelity CNOT gates, combined with fast ancilla parity-check qubits. The significant enhancement in the performance is explained by: 1- the highly asymmetric error model of cat qubit CNOT gates with a major component on control (ancilla) qubits, and 2- the robustness of the error correction performance in presence of the leakage induced by fast operations. In order to demonstrate these performances, we develop a method to sample the repetition code under circuit-level noise that also takes into account cat qubit state leakage.
description: 19 pages, 12 figures
Additional file 10 of Small nucleolar RNAs signature (SNORS) identified clinical outcome and prognosis of bladder cancer (BLCA)
Creators: name: Cao, Rui
name: Ma, Bo
name: Yuan, Lushun
name: Wang, Gang
name: Tian, Ye
Publisher: name: figshare
Year: 2020
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Computational Biology

description: Additional file 10: Table S8. Correlation between candidate snoRNAs and mRNAs in TCGA-BLCA cohort.
Additional file 1 of Pumpkin seed oil (Cucurbita pepo) versus tamsulosin for benign prostatic hyperplasia symptom relief: a single-blind randomized clinical trial
Creators: name: Zerafatjou, Nikan
name: Amirzargar, Mohammadali
name: Biglarkhani, Mahdi
name: Shobeirian, Farzaneh
name: Zoghi, Ghazal
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Cancer

description: Additional file 1. Pairwise comparisons of IPSS scores at different time points in each group.
Preference of Right-Handed Whistler Modes and Helicon Discharge Directionality due to Plasma Density Gradients
Creators: name: Granetzny, Marcel
name: Schmitz, Oliver
name: Zepp, Michael
Publisher: name: arXiv
Year: 2022
Subjects: subject: Plasma Physics (physics.plasm-ph)
subject: FOS: Physical sciences

description: Whistlers are magnetized plasma waves in planetary magnetospheres. Bounded whistlers, known as helicons, can create high-density laboratory plasmas. We demonstrate reversal of the plasma discharge direction by changing either antenna helicity or magnetic field direction. Simulations reproduce these findings only in the presence of a radial density gradient. Inclusion of such a gradient in the wave equation gives rise to azimuthal shear currents which for the first time consistently explains the preference of right- over left-handed whistlers and the discharge directionality in helicon plasmas.
description: 8 pages, 7 figures, under review in Physics of Plasmas
Additional file 1 of Assessment of quality of routine health information system data and associated factors among departments in public health facilities of Harari region, Ethiopia
Creators: name: Shama, Adisu Tafari
name: Roba, Hirbo Shore
name: Abaerei, Admas Abera
name: Gebremeskel, Teferi Gebru
name: Baraki, Negga
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Biotechnology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1. English, Amharic and Afan Oromo versions of the questionnaire.
Additional file 2 of A pyroptosis-related gene signature provides an alternative for predicting the prognosis of patients with hepatocellular carcinoma
Creators: name: Lin, Dezhao
name: Chen, Zhuoyan
name: Zeng, Yuan
name: Ding, Yinrong
name: Zhao, Luying
name: Xu, Qian
name: Yu, Fujun
name: Song, Xian
name: Zhu, Xiaohong
Publisher: name: figshare
Year: 2023
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 2. Five kinds of immune infiltration algorithm principles.
Analogue black-white hole solitons in travelling wave parametric amplifiers with superconducting nonlinear asymmetric inductive elements
Creators: name: Katayama, Haruna
name: Hatakenaka, Noriyuki
name: Fujii, Toshiyuki
name: Blencowe, Miles P.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Quantum Physics (quant-ph)
subject: Superconductivity (cond-mat.supr-con)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Pattern Formation and Solitons (nlin.PS)
subject: FOS: Physical sciences

description: We show that existing travelling wave parametric amplifier (TWPA) setups, using superconducting nonlinear asymmetric inductive elements (SNAILs), admit soliton solutions that act as analogue event horizons. The SNAIL-TWPA circuit dynamics are described by the Korteweg-de Vries (KdV) or modified Korteweg-de Vries (mKdV) equations in the continuum field approximation, depending on the external magnetic flux bias, and validated numerically. The soliton spatially modulates the velocity for weak probes, resulting in the effective realization of analogue black hole and white hole event horizon pairs. The SNAIL external magnetic flux bias tunability facilitates a three-wave mixing process, which enhances the prospects for observing Hawking photon radiation.
description: 5 pages, 4 figures, published version
Investigating and identifying genetic predictors for cisplatin-induced hearing loss and anthracycline-induced cardiotoxicity
Creators: name: Scott, Erika
Publisher: name: University of British Columbia
Year: 2025

description: Adverse drug reactions (ADRs) can have life-altering consequences for patients. Several ADRs occur in the context of chemotherapy as it often involves multiple therapeutics at high doses and the non-specific destruction of actively growing cells. Cisplatin-induced hearing loss (CIHL) and anthracycline-induced cardiotoxicity (ACT) are severe chemotherapy-induced ADRs that can cause permanent hearing loss and congestive heart failure, respectively. It is therefore important to predict these ADRs before treatment is started such that treatment plans can potentially be altered to avoid long-term effects. Several studies have identified genetic predictors for CIHL and ACT; however, these variants do not account for all instances of these ADRs, and the clinical relevance of many identified variants remains unknown. The goal of this dissertation was therefore to investigate the clinical relevance of known, and identify novel, genetic predictors for CIHL and ACT. A systematic review of known genetic associations with CIHL was performed and determined that variants in ACYP2 and TPMT had strong evidence for association with CIHL. For ACT, in a cohort of adult patients treated with anthracyclines, genetic variants in RARG and SLC28A3 were more clinically relevant in a well-characterized subset. Through genome-wide analyses, a variant with a strong, but non-significant, risk effect on ACT was identified (rs34644385; odds ratio=5.09, 95% confidence interval=2.46-10.50, P=1.09x10⁻⁵) and calcium signalling was implicated in the development of ACT in adult patients. Finally, through transcriptome-wide association study analyses in pediatric patients treated with anthracyclines, an association between dysregulated GDF5 and ACT was identified (P=1.70x10⁻⁵), replicated in an independent cohort (P=3.54x10⁻³), and was functionally validated. Genes known to be essential for survival were also implicated in the development of ACT. The results of this dissertation enable development of a new CIHL predictive pharmacogenetic test that includes ACYP2 along with TPMT and recommend early pharmacogenetic testing to prevent CIHL. The additional genetic insight into ACT may also help improve the predictive ability of pharmacogenetic testing for ACT. This dissertation contributes to expanding the pharmacogenetic literature and improving patient care through the investigation and identification of genetic predictors for CIHL and ACT.
Decoding flat bands from compact localized states
Creators: name: Chen, Yuge
name: Huang, Juntao
name: Jiang, Kun
name: Hu, Jiangping
Publisher: name: arXiv
Year: 2022
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: The flat band system is an ideal quantum platform to investigate the kaleidoscope created by the electron-electron correlation effects. The central ingredient of realizing a flat band is to find its compact localized states. In this work, we develop a systematic way to generate the compact localized states by designing destructive interference pattern from 1-dimensional chains. A variety of 2-dimensional new flat band systems are constructed with this method. Furthermore, we show that the method can be extended to generate the compact localized states in multi-orbital systems by carefully designing the block hopping scheme, as well as in quasicrystal and disorder systems.
Word Connections Appendix
Creators: name: Toste, Jessica R.
name: Capin, Philip
name: Williams, Kelly J.
name: Kearns, Devin M.
name: Vaughn, Sharon
Publisher: name: figshare
Year: 2022
Subjects: subject: Education
subject: 130312 Special Education and Disability
subject: FOS: Educational sciences

description: The Word Connections Appendix includes additional materials needed for program delivery. We suggest printing and posting the lesson agenda. Teachers will only need one copy of the inflectional ending rules poster for use in Lesson 1 and 2. There are also materials for Word Play games, including word train cards (engine and caboose) and a spinner template to be printed and assembled. For questions or to share feedback, please contact Dr. Jessica Toste via email or visit her website. Word Connections: A Multisyllabic Word Reading Program©
Additional file 1 of The effect of ultraviolet irradiation compared to oral vitamin D supplementation on blood pressure of nursing home residents with dementia
Creators: name: Veleva, Bistra I.
name: Caljouw, Monique A. A.
name: Muurman, Astrid
name: van der Steen, Jenny T.
name: Chel, Victor G. M.
name: Numans, Mattijs E.
name: Poortvliet, Rosalinde K. E.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy

description: Additional file 1: Table A1 Characteristics of the participants at baseline by study group (additional analysis).
Author-level metrics. User manual.
Creators: name: Aguado-López, Eduardo
name: Becerril-García, Arianna
name: Macedo-García, Alejandro
name: Segundo-Escobar, Alma Rosa
Publisher: name: Zenodo
Year: 2023
Subjects: Diamond Open Access
Software Development
User Manual
Author
Metrics

description: Aguado-López, Eduardo, Becerril-García, Arianna, Macedo-García, Alejandro, & Segundo-Escobar, Alma Rosa. (2023). Author-level metrics. User manual. Zenodo. https://doi.org/10.5281/zenodo.7930944
Discovery of structure-property relations for molecules via hypothesis-driven active learning over the chemical space
Creators: name: Ghosh, Ayana
name: Kalinin, Sergei V.
name: Ziatdinov, Maxim A.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Machine Learning (cs.LG)
subject: Biomolecules (q-bio.BM)
subject: FOS: Computer and information sciences
subject: FOS: Biological sciences

description: Discovery of the molecular candidates for applications in drug targets, biomolecular systems, catalysts, photovoltaics, organic electronics, and batteries, necessitates development of machine learning algorithms capable of rapid exploration of the chemical spaces targeting the desired functionalities. Here we introduce a novel approach for the active learning over the chemical spaces based on hypothesis learning. We construct the hypotheses on the possible relationships between structures and functionalities of interest based on a small subset of data and introduce them as (probabilistic) mean functions for the Gaussian process. This approach combines the elements from the symbolic regression methods such as SISSO and active learning into a single framework. The primary focus of constructing this framework is to approximate physical laws in an active learning regime toward a more robust predictive performance, as traditional evaluation on hold-out sets in machine learning doesn't account for out-of-distribution effects and may lead to a complete failure on unseen chemical space. Here, we demonstrate it for the QM9 dataset, but it can be applied more broadly to datasets from both domains of molecular and solid-state materials sciences.
Quantifying Rare Events in Stochastic Reaction-Diffusion Dynamics Using Tensor Networks
Creators: name: Nicholson, Schuyler B.
name: Gingrich, Todd R.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: The interplay between stochastic chemical reactions and diffusion can generate rich spatiotemporal patterns. While the timescale for individual reaction or diffusion events may be very fast, the timescales for organization can be much longer. That separation of timescales makes it particularly challenging to anticipate how the rapid microscopic dynamics gives rise to macroscopic rates in the non-equilibrium dynamics of many reacting and diffusing chemical species. Within the regime of stochastic fluctuations, the standard approach is to employ Monte Carlo sampling to simulate realizations of random trajectories. Here, we present an alternative numerically tractable approach to extract macroscopic rates from the full ensemble evolution of many-body reaction diffusion problems. The approach leverages the Doi-Peliti second-quantized representation of reaction-diffusion master equations along with compression and evolution algorithms from tensor networks. By focusing on a Schlögl model with one-dimensional diffusion between $L$ otherwise well-mixed sites, we illustrate the potential of the tensor network approach to compute rates from many-body systems, here with approximately $3 \times 10^{15}$ microstates. Specifically, we compute the rate for switching between metastable macrostates, with the expense for computing those rates growing subexponentially in $L$. Because we directly work with ensemble evolutions, we crucially bypass many of the difficulties encountered by rare event sampling techniques$\unicode{x2013}$detailed balance and reaction coordinates are not needed.
Article-level metrics. User manual
Creators: name: Aguado-López, Eduardo
name: Becerril-García, Arianna
name: Macedo-García, Alejandro
name: Segundo-Escobar, Alma Rosa
Publisher: name: Zenodo
Year: 2023
Subjects: Diamond Open Access
Software Development
User Manual
Article
Metrics

description: Aguado-López, Eduardo, Becerril-García, Arianna, Macedo-García, Alejandro, & Segundo-Escobar, Alma Rosa. (2023). Article-level metrics. User manual. Zenodo. https://doi.org/10.5281/zenodo.7931087
Additional file 5 of A pyroptosis-related gene signature provides an alternative for predicting the prognosis of patients with hepatocellular carcinoma
Creators: name: Lin, Dezhao
name: Chen, Zhuoyan
name: Zeng, Yuan
name: Ding, Yinrong
name: Zhao, Luying
name: Xu, Qian
name: Yu, Fujun
name: Song, Xian
name: Zhu, Xiaohong
Publisher: name: figshare
Year: 2023
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 5. Information of the antibody used in IHC.
Additional file 1 of Antisense noncoding mitochondrial RNA-2 gives rise to miR-4485-3p by Dicer processing in vitro
Creators: name: Farfán, Nicole
name: Sanhueza, Nicole
name: Briones, Macarena
name: Burzio, Luis O.
name: Burzio, Verónica A.
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1: Stepwise cloning scheme for ASncmtRNA-2.
Additional file 2 of Antisense noncoding mitochondrial RNA-2 gives rise to miR-4485-3p by Dicer processing in vitro
Creators: name: Farfán, Nicole
name: Sanhueza, Nicole
name: Briones, Macarena
name: Burzio, Luis O.
name: Burzio, Verónica A.
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 2: Sequence of primers (sequence and Tm of primers used for RT and PCR).
Universal Detection of Backdoor Attacks via Density-based Clustering and Centroids Analysis
Creators: name: Guo, Wei
name: Tondi, Benedetta
name: Barni, Mauro
Publisher: name: arXiv
Year: 2023
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Artificial Intelligence (cs.AI)
subject: FOS: Computer and information sciences

description: We propose a Universal Defence against backdoor attacks based on Clustering and Centroids Analysis (CCA-UD). The goal of the defence is to reveal whether a Deep Neural Network model is subject to a backdoor attack by inspecting the training dataset. CCA-UD first clusters the samples of the training set by means of density-based clustering. Then, it applies a novel strategy to detect the presence of poisoned clusters. The proposed strategy is based on a general misclassification behaviour observed when the features of a representative example of the analysed cluster are added to benign samples. The capability of inducing a misclassification error is a general characteristic of poisoned samples, hence the proposed defence is attack-agnostic. This marks a significant difference with respect to existing defences, that, either can defend against only some types of backdoor attacks, or are effective only when some conditions on the poisoning ratio or the kind of triggering signal used by the attacker are satisfied.
 Experiments carried out on several classification tasks and network architectures, considering different types of backdoor attacks (with either clean or corrupted labels), and triggering signals, including both global and local triggering signals, as well as sample-specific and source-specific triggers, reveal that the proposed method is very effective to defend against backdoor attacks in all the cases, always outperforming the state of the art techniques.
Doctoral thesis recital (horn) chamber
Creators: name: Holmes, Rusty
Publisher: name: The University of Texas at Austin
Year: 2019
Subjects: Trios (Piano, horn, violin)

description: Vedana / Narong Prangcharoen -- Empyrean skies / James Naigus -- Trio for piano, violin & horn in E-flat major, op. 40 / Johannes Brahms. With Jooyeon Chang, piano, and Changming Li, violin
Master's thesis recital (double bass)
Creators: name: Kim, Doyoun
Publisher: name: The University of Texas at Austin
Year: 2019
Subjects: Double bass and piano music
Concertos (Double bass)
Sonatas (Double bass and piano)

description: Gamba sonata no. 2 / J.S. Bach -- Adagio and allegro / Robert Schumann -- Concerto for double bass in D major / Johann Baptist Vanhal. With: JooYeon Chang, piano.
Master's thesis recital (percussion)
Creators: name: Willis, Cindy
Publisher: name: The University of Texas at Austin
Year: 2019
Subjects: Marimba music
Percussion music

description: The book of grooves. IV., Dance groove drifting / Alejandro Viñao -- Cello suite no. 4 in E-flat major, BWV 1010 / Bach -- Keiskleiriana. Etude no. 2 / Jacques Delécluse -- Four movements for marimba. Perpetual ; Mecanique / Michael Burritt.
title: How much land is consumed in Germany?
title: Test - DOI
titleType: Subtitle
Creators: name: IOER-Monitor
Publisher: name: Leibniz Institute for Ecological Urban and Regional Development, Dresden, Germany
Year: 2020
Subjects: subject: FOS: Earth and related environmental sciences
subject: FOS: Computer and information sciences

description: XML example of Metadata Schema v4.3 properties.
Charge 4e superconductivity and chiral metal in the $45^\circ$-twisted bilayer cuprates and similar bilayers
Creators: name: Liu, Yu-Bo
name: Zhou, Jing
name: Wu, Congjun
name: Yang, Fan
Publisher: name: arXiv
Year: 2023
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: The material realization of the charge-4e/6e superconductivity (SC) is a big challenge. Here we propose realization of the charge-4e SC and chiral metal through stacking a homo-bilayer with the largest twist angle, forming the twist-bilayer quasi-crystal (TB-QC), exampled by the 45$^\circ$-twisted bilayer cuprates and 30$^\circ$-twisted bilayer graphene. When each mononlayer hosts a pairing state with the largest pairing angular momentum, previous studies yield that the second-order interlayer Josephson coupling would drive chiral topological SC (TSC) in the TB-QC. Here we propose that, above the $T_c$ of the chiral TSC, either the total- or relative- pairing phase of the two layers can be unilateral quasi-ordered or ordered, leading to the charge-4e SC or the chiral metal phase. Based on a thorough symmetry analysis to get the low-energy effective Hamiltonian, we conduct a combined renormalization-group and Monte-Carlo study and obtain the phase diagram, which includes the charge-4e SC and chiral metal phases.
description: Accepted by Nat. Commun
Additional file 3 of Antisense noncoding mitochondrial RNA-2 gives rise to miR-4485-3p by Dicer processing in vitro
Creators: name: Farfán, Nicole
name: Sanhueza, Nicole
name: Briones, Macarena
name: Burzio, Luis O.
name: Burzio, Verónica A.
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 3: Expression of FLAG-tagged recombinant Dicer.