cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
MOESM3 of Exploring d-xylose oxidation in Saccharomyces cerevisiae through the Weimberg pathway
Creators: name: Wasserstrom, Lisa
name: Portugal-Nunes, Diogo
name: Almqvist, Henrik
name: SandstrĂśm, Anders
name: LidĂŠn, Gunnar
name: Gorwa-Grauslund, Marie
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Neuroscience
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Additional file 3: Figure S2. UHPLC and HPLC chromatograms of end point samples from the bioreactor experiments. Panel A and B show UHPLC chromatograms for strain TMB4530 (A) and TMB4531 (B) at the end of the fermentation experiment. No unidentified peaks could be found indicating that no detectable amounts of Weimberg intermediates were produced. Panel C and D show HPLC chromatograms for strain TMB4530 (C) and TMB4531 (D) from the same sample. One extra small peak can be seen (medium component), which was present at the start of fermentation thereby eliminating the possibility that this peak contains Weimberg intermediates.
MOESM1 of BIN1 rs744373 variant shows different association with Alzheimer’s disease in Caucasian and Asian populations
Creators: name: Han, Zhifa
name: Wang, Tao
name: Tian, Rui
name: Zhou, Wenyang
name: Wang, Pingping
name: Ren, Peng
name: Zong, Jian
name: Hu, Yang
name: Jin, Shuilin
name: Jiang, Qinghua
Publisher: name: figshare
Year: 2019
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Cancer
subject: Science Policy

description: Additional file 1. Meta-analysis under dominant and recessive model. Table S1. The selected studies investigating the association between rs744373 and AD using dominant model and recessive model Figure S1. Funnel plot of the publication bias analysis under dominant model. Figure S2. Funnel plot of the publication bias analysis under recessive model.
Classification P=8 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=8
PEN as self-vetoing structural Material
Creators: name: Majorovits, B.
name: Eck, S.
name: Fischer, F.
name: Gooch, C.
name: Hayward, C.
name: Kraetzschmar, T.
name: van der Kolk, N.
name: Muenstermann, D.
name: Schulz, O.
name: Simon, F.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Instrumentation and Detectors (physics.ins-det)
subject: FOS: Physical sciences

description: Polyethylene Naphtalate (PEN) is a mechanically very favorable polymer. Earlier it was found that thin foils made from PEN can have very high radio-purity compared to other commercially available foils. In fact, PEN is already in use for low background signal transmission applications (cables). Recently it has been realized that PEN also has favorable scintillating properties. In combination, this makes PEN a very promising candidate as a self-vetoing structural material in low background experiments. Components instrumented with light detectors could be built from PEN. This includes detector holders, detector containments, signal transmission links, etc. The current R\&D towards qualification of PEN as a self-vetoing low background structural material is be presented.
description: 4 pages, 7 figures, contribution to Proceedings of the sixth workshop on Low Radioactivity Techniques 2017, 23-27 May 2017 Seoul, to be published at AIP, editor: D. Leonard
Weighted variants of the Andrásfai-Erdős-Sós Theorem
Creators: name: Lüders, Clara M.
name: Reiher, Christian
Publisher: name: arXiv
Year: 2017
Subjects: subject: Combinatorics (math.CO)
subject: FOS: Mathematics
subject: 05C35, 05C22

description: A well known result due to Andrásfai, Erdős, and Sós asserts that for $r\ge 2$ every $K_{r+1}$-free graph on $n$ vertices with $δ(G)>\frac{3r-4}{3r-1}n$ is $r$-partite. We study related questions in the context of weighted graphs, which are motivated by recent work on the Ramsey-Turán problem for cliques.
description: 8 figures; revised according to referee report
Repartition of edges on p-cage holes from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Graphical proof of the repartition of the edges on the p-cage holes for the octahedron, dodecahedron and icosahedron.
Carving out context; strengthening the case for an early human presence at archaeological sites in Asia and Australia
Creators: name: Quinn, Molly Elizabeth
Publisher: name: Macquarie University
Year: 2024
Subjects: classificationCode: 430101
subject: Archaeological science

description: In the last few decades, the regions of Asia and Oceania have played a major role in the debate over human origins. These regions represent a ‘hotbed’ of hominin discoveries: new species (H. luzonensis, H. floresiensis, H. denisova), new genetic evidence of their interactions, and new H. sapiens early arrival sites (Lida Ajer, Fuyan Cave, Madjedbebe). This novel evidence has challenged conventional beliefs regarding the exit times out of Africa and the timing of dispersal through the region. However, establishing an early human presence in Asia and Oceania can be challenging. The analysis of human bones has had an immense impact on our origin story, but the context of the discovery and site is paramount to a secure interpretation of human remains and evidence. The two most vital contexts are the ‘when’ and the ‘where’, i.e., the timing and environmental setting. Environmental changes have forced human migration and it is widely acknowledged that despite Asia and Oceania’s importance in human history, the region’s environmental history is poorly understood due to a fragmentary record. Furthermore, the dating of human evidence is crucial for interpretation, but has been problematic in these regions due to criticism of association, provenance, and methodology.
In this research, a multi-disciplinary approach is used to develop a temporal and environmental context to establish an early hominin presence within sites in Asia and Oceania. An initial review highlights the under-utilised potential of faunal stable isotopes and clumped isotope thermometry to reconstruct the environmental context within these regions. The temporal context is explored within a site in Parramatta, Sydney, Australia, establishing a pre-last glacial maximum (LGM) human presence within the Sydney Basin. This represents the earliest continuous occupation in the region starting at ~32 ka and continuing through the LGM. The environmental context of Chinese hominin site Baxian Cave is explored using faunal stable isotopes and is directly compared to faunal stable isotopes from Lang Trang Cave in Vietnam. This revealed that hominins at Baxian were present in a dense C3 forest from 210-156 ka. For the first time, clumped isotope thermometry was applied to an archeologically relevant breccia from Baxian Cave and nearby Ma Feng Cave to reconstruct a paleo air temperature of 12º C alongside a wet climate.
These reconstructed temporal and environmental contexts provide vital details on climates at defined time periods, which strengthens the case for a human presence. Furthermore, they support evidence for human adaptions over time, from cold wet forests to extreme dry and dusty habitats. This provides valuable insights into hominin behaviour within Asia and Oceania.
Search for supersymmetry in events with $b$-tagged jets and missing transverse momentum in $pp$ collisions at $\sqrt{s}=13$ TeV 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 the supersymmetric partners of the Standard Model bottom and top quarks is presented. The search uses 36.1 fb$^{-1}$ of $pp$ collision data at $\sqrt{s}=13$ TeV collected by the ATLAS experiment at the Large Hadron Collider. Direct production of pairs of bottom and top squarks ($\tilde{b}_{1}$ and $\tilde{t}_{1}$) is searched for in final states with $b$-tagged jets and missing transverse momentum. Distinctive selections are defined with either no charged leptons (electrons or muons) in the final state, or one charged lepton. The zero-lepton selection targets models in which the $\tilde{b}_{1}$ is the lightest squark and decays via $\tilde{b}_{1} \rightarrow b \tildeχ^{0}_{1}$, where $\tildeχ^{0}_{1}$ is the lightest neutralino. The one-lepton final state targets models where bottom or top squarks are produced and can decay into multiple channels, $\tilde{b}_{1} \rightarrow b \tildeχ^{0}_{1}$ and $\tilde{b}_{1} \rightarrow t \tildeχ^{\pm}_{1}$, or $\tilde{t}_{1} \rightarrow t \tildeχ^{0}_{1}$ and $\tilde{t}_{1} \rightarrow b \tildeχ^{\pm}_{1}$, where $\tildeχ^{\pm}_{1}$ is the lightest chargino and the mass difference $m_{\tildeχ^{\pm}_{1}}- m_{\tildeχ^{0}_{1}}$ is set to 1 GeV. No excess above the expected Standard Model background is observed. Exclusion limits at 95\% confidence level on the mass of third-generation squarks are derived in various supersymmetry-inspired simplified models.
description: 50 pages in total, author list starting page 34, 7 figures, 10 tables, submitted to JHEP, All figures including auxiliary figures are available at http://atlas.web.cern.ch/Atlas/GROUPS/PHYSICS/PAPERS/SUSY-2016-28/
Solar Extreme UV radiation and quark nugget dark matter model
Creators: name: Zhitnitsky, Ariel
Publisher: name: arXiv
Year: 2017
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We advocate the idea that the surprising emission of extreme ultra violet (EUV) radiation and soft x-rays from the Sun are powered externally by incident dark matter (DM) particles. The energy and the spectral shape of this otherwise unexpected solar irradiation is estimated within the quark nugget dark matter model. This model was originally invented as a natural explanation of the observed ratio $Ω_{\rm dark} \sim Ω_{\rm visible}$ when the DM and visible matter densities assume the same order of magnitude values. This generic consequence of the model is a result of the common origin of both types of matter which are formed during the same QCD transition and both proportional to the same fundamental dimensional parameter $Λ_{\rm QCD}$. We also present arguments suggesting that the transient brightening-like "nano-flares" in the Sun may be related to the annihilation events which inevitably occur in the solar atmosphere within this dark matter scenario.
description: new section on nanoflares. matches the published version (JCAP)
Additional file 13: of AKT1 restricts the invasive capacity of head and neck carcinoma cells harboring a constitutively active PI3 kinase activity
Creators: name: Brolih, Sanja
name: Parks, Scott
name: Vial, Valérie
name: Durivault, Jérôme
name: Mostosi, Livio
name: Pouysségur, Jacques
name: Pagès, Gilles
name: Picco, Vincent
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Figure S4 Analysis of e-cadherin expression and localization by immunofluorescence in CAL27 and Detroit562 cells. Immunostaining of e-cadherin (green) and Alexa555-phalloidin (red) staining of the actin cytoskeleton (F-actin) in CAL27 and Detroit562 cells treated with the pan-AKT inhibitor MK-2206 (MK), Rapamycin (Rapa) or Erlotinib (Erlo). Nuclear DNA was counterstained with Hoechst 33,342 (blue). (PDF 247 kb)
Classification P=13 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=13
Absolute convergence of the twisted Arthur-Selberg trace formula
Creators: name: Parab, Abhishek
Publisher: name: arXiv
Year: 2017
Subjects: subject: Number Theory (math.NT)
subject: Representation Theory (math.RT)
subject: FOS: Mathematics

description: We show that the distributions occurring in the geometric and spectral side of the twisted Arthur-Selberg trace formula extend to non-compactly supported test functions. The geometric assertion is modulo a hypothesis on root systems proven when the group is split. The result extends the work of Finis-Lapid (and Müller, spectral side) to the twisted setting. We use the absolute convergence to give a geometric interpretation of sums of residues of certain Rankin-Selberg L-functions.
description: Accepted to be published in Mathematische Zeitschrift. Removed proof of RCL for base change; Section 8 now requires Assumption 8.1. Also, minor corrections
Central Limit theorem for spectral Partial Bergman kernels
Creators: name: Zelditch, Steve
name: Zhou, Peng
Publisher: name: arXiv
Year: 2017
Subjects: subject: Complex Variables (math.CV)
subject: Spectral Theory (math.SP)
subject: FOS: Mathematics

description: Partial Bergman kernels $Π_{k, E}$ are kernels of orthogonal projections onto subspaces $\mathcal{k} \subset H^0(M, L^k)$ of holomorphic sections of the $k$th power of an ample line bundle over a Kahler manifold $(M, ω)$. The subspaces of this article are spectral subspaces $\{\hat{H}_k \leq E\}$ of the Toeplitz quantization $\hat{H}_k$ of a smooth Hamiltonian $H: M \to \mathbb{R}$. It is shown that the relative partial density of states $\frac{Π_{k, E}(z)}{Π_k(z)} \to {1}_{\mathcal{A}}$ where $\mathcal{A} = \{H < E\}$. Moreover it is shown that this partial density of states exhibits `Erf'-asymptotics along the interface $\partial \mathcal{A}$, that is, the density profile asymptotically has a Gaussian error function shape interpolating between the values $1,0$ of ${1}_{\mathcal{A}}$. Such `erf'-asymptotics are a universal edge effect. The different types of scaling asymptotics are reminiscent of the law of large numbers and central limit theorem
Additional file 12: of AKT1 restricts the invasive capacity of head and neck carcinoma cells harboring a constitutively active PI3 kinase activity
Creators: name: Brolih, Sanja
name: Parks, Scott
name: Vial, Valérie
name: Durivault, Jérôme
name: Mostosi, Livio
name: Pouysségur, Jacques
name: Pagès, Gilles
name: Picco, Vincent
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: 60506 Virology

description: Figure S3 Cell viability and proliferation assays. (A) The viability of CAL33 cells expressing a control shRNA (CAL33), two independent shRNA sequences targeting AKT1 (shAKT1.1 and shAKT1.2) or treated with the pan-AKT inhibitor MK-2206 (MK) or the mTORC1 inhibitor Rapamycin (Rapa) was measured after 48 h. Statistical analysis was performed using one-way ANOVA with Bonferroni’s post-test: *** p
A Quasi-Static Approach to Structure Formation in Black Hole Universes
Creators: name: Durk, Jessie
name: Clifton, Timothy
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: Motivated by the existence of hierarchies of structure in the Universe, we present four new families of exact initial data for inhomogeneous cosmological models at their maximum of expansion. These data generalise existing black hole lattice models to situations that contain clusters of masses, and hence allow the consequences of cosmological structures to be considered in a well-defined and non-perturbative fashion. The degree of clustering is controlled by a parameter $λ$, in such a way that for $λ\sim 0$ or $1$ we have very tightly clustered masses, whilst for $λ\sim 0.5$ all masses are separated by cosmological distance scales. We study the consequences of structure formation on the total net mass in each of our clusters, as well as calculating the cosmological consequences of the interaction energies both within and between clusters. The locations of the shared horizons that appear around groups of black holes, when they are brought sufficiently close together, are also identified and studied. We find that clustering can have surprisingly large effects on the scale of the cosmology, with models that contain thousands of black holes sometimes being as little as 30% of the size of comparable Friedmann models with the same total proper mass. This deficit is comparable to what might be expected to occur from neglecting gravitational interaction energies in Friedmann cosmology, and suggests that these quantities may have a significant influence on the properties of the large-scale cosmology.
description: 33 pages, 10 figures, v2: matches published version, typos corrected
Classification P=7 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=7
Classification P=16 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=16
Alternate Models to Dark Energy
Creators: name: Arun, Kenath
name: Gudennavar, S B
name: Prasad, A
name: Sivaram, C
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Physics (physics.gen-ph)
subject: FOS: Physical sciences

description: One of the unresolved questions currently in cosmology is that of the non-linear accelerated expansion of the universe. This has been attributed to the so called Dark Energy (DE). The accelerated expansion of the universe is deduced from measurements of Type Ia supernovae. Here we propose alternate models to account for the Type Ia supernovae measurements without invoking dark energy.
description: 9 pages, 3 figures, 1 table
Accelerated Directional Search with non-Euclidean prox-structure
Creators: name: Vorontsova, Evgeniya
name: Gasnikov, Alexander
name: Gorbunov, Eduard
Publisher: name: arXiv
Year: 2017
Subjects: subject: Optimization and Control (math.OC)
subject: FOS: Mathematics
subject: G.1.6
subject: 90C25, 90C30, 68Q25, 65K05, 65Y20, 68W40

description: In the paper we propose an accelerated directional search method with non-euclidian prox-structure. We consider convex unconstraint optimization problem in $\mathbb{R}^n$. For simplicity we start from the zero point. We expect in advance that 1-norm of the solution is close enough to its 2-norm. In this case the standard accelerated Nesterov's directional search method can be improved. In the paper we show how to make Nesterov's method $n$-times faster (up to a $\log n$-factor) in this case. The basic idea is to use linear coupling, proposed by Allen-Zhu & Orecchia in 2014, and to make Grad-step in 2-norm, but Mirr-step in 1-norm. We show that for constrained optimization problems this approach stable upon an obstacle.
description: in Russian, 13 pages, 3 figures
title: Trader and his son: how a trader taught his son how to handle the ups and downs of commerce
Creators: name: Michaud, Alexis
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2014
Subjects: subject: Yongning Na
subject: nru

description: A narrative about how a trader taught his son to manage trade wisely. To his son’s surprise, the father asked him to collect stories along the way, as gifts to the father, instead of buying presents. The father’s message was that traders must avoid being left without sufficient stocks of food when they come back, and therefore should not spend their money hastily on pretty objects on sale at distant places.
description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
Additional file 1: of Natural language processing in text mining for structural modeling of protein complexes
Creators: name: Badal, Varsha
name: Kundrotas, Petras
name: Vakser, Ilya
Publisher: name: figshare
Year: 2018
Subjects: subject: Biophysics
subject: Biochemistry
subject: Molecular Biology
subject: Sociology
subject: FOS: Sociology
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: Marine Biology
subject: Computational Biology

description: Supporting information for the main manuscript, including Additional file 1: Figure S1-S9 and TableÂ S1. (PDF 151Â kb)
Additional file 8 of RNA-based amplicon sequencing is ineffective in measuring metabolic activity in environmental microbial communities
Creators: name: Wang, Ya
name: Thompson, Kelsey N.
name: Yan, Yan
name: Short, Meghan I.
name: Zhang, Yancong
name: Franzosa, Eric A.
name: Shen, Jiaxian
name: Hartmann, Erica M.
name: Huttenhower, Curtis
Publisher: name: figshare
Year: 2023
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics

description: Additional file 8: Supplementary Figure 2. Taxonomic composition of control samples. Relative abundance of eight control samples is presented here, prepared from swabs dipped (exposed) in 102 E.coli culture, 106 E.coli culture, indoor air, outdoor air, blank culture broth, one blank DNA extraction buffer (EB buffer), one distilled water and one sterile 0.85% saline used in the lab space.
Relaxation-limited electronic currents in extended reservoir simulations
Creators: name: Gruss, Daniel
name: Smolyanitsky, Alex
name: Zwolak, Michael
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Chemical Physics (physics.chem-ph)
subject: Computational Physics (physics.comp-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Open-system approaches are gaining traction in the simulation of charge transport in nanoscale and molecular electronic devices. In particular, "extended reservoir" simulations, where explicit reservoir degrees of freedom are present, allow for the computation of both real-time and steady-state properties but require relaxation of the extended reservoirs. The strength of this relaxation, $γ$, influences the conductance, giving rise to a "turnover" behavior analogous to Kramers' turnover in chemical reaction rates. We derive explicit, general expressions for the weak and strong relaxation limits. For weak relaxation, the conductance increases linearly with $γ$ and every electronic state of the total explicit system contributes to the electronic current according to its "reduced" weight in the two extended reservoir regions. Essentially, this represents two conductors in series -- one at each interface with the implicit reservoirs that provide the relaxation. For strong relaxation, a "dual" expression -- one with the same functional form -- results, except now proportional to $1/γ$ and dependent on the system of interest's electronic states, reflecting that the strong relaxation is localizing electrons in the extended reservoirs. Higher order behavior (e.g., $γ^2$ or $1/γ^2$) can occur when there is a gap in the frequency spectrum. Moreover, inhomogeneity in the frequency spacing can give rise to a pseudo-plateau regime. These findings yield a physically motivated approach to diagnosing numerical simulations and understanding the influence of relaxation, and we examine their occurrence in both simple models and a realistic, fluctuating graphene nanoribbon.
description: 6 pages, 3 figures
Classification P=12 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=12
Additional file 7 of Efficacy and safety of esketamine for sedation among patients undergoing gastrointestinal endoscopy: a systematic review and meta-analysis
Creators: name: Lian, Xianghong
name: Lin, Yunzhu
name: Luo, Ting
name: Jing, Yang
name: Yuan, Hongbo
name: Guo, Yixin
Publisher: name: figshare
Year: 2023
Subjects: Space Science
Medicine
Biological Sciences not elsewhere classified
Cancer
Science Policy

description: Additional file 7.
Black holes, the Big Bang and the habitable universe: Are they really compatible?
Creators: name: Hujeirat, A. A.
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Physics (physics.gen-ph)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: Astronomical observations have confirmed the existence of BHs and the occurrence of the Big Bang event to beyond any reasonable doubt. While quantum field theory and general theory of relativity predict the mass-spectrum of BHs to be unlimited, both theories agree that their creation is irreversible. In this article I argue that the recently-proposed SuSu-objects (: objects that are made of incompressible superconducting gluon-qurak superfluids), may not only entail the required properties to be excellent BH-candidates, but also encoding a hidden connection to dark matter and dark energy in cosmology. If such connection indeed exists, then the inevitable consequence would be that our universe is infinite and subject to repeated Big Bang events of the second kind, which makes the habitability of the universe certain and our cosmic relevance insignificant and meaningless.
description: 6 pages, 3 figures
Classification P=10 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=10
The role of traction in membrane curvature generation
Creators: name: Alimohamadi, Haleh
name: Vasan, Ritvik
name: Hassinger, Julian E.
name: Stachowiak, Jeanne C.
name: Rangamani, Padmini
Publisher: name: arXiv
Year: 2017
Subjects: subject: Biological Physics (physics.bio-ph)
subject: FOS: Physical sciences

description: Curvature in biological membranes can be generated by a variety of different molecular mechanisms such as protein scaffolding, lipid or protein asymmetry, cytoskeletal forces, etc. These mechanisms have the net effect of generating stresses on the bilayer that are translated into distinct final shapes of the membrane. We propose reversing this input-output relationship by using the shape of a curved membrane to infer physical quantities like the magnitude of the applied forces acting on the bilayer. To do this, we calculate the normal and tangential tractions along the membrane using the known material properties of the membrane along with its shape. These tractions are a quantitative measure of the response of the membrane to external forces or sources of spontaneous curvature. We demonstrate the utility of this approach first by showing that the magnitude of applied force can be inferred from the shape of the membrane alone in both simulations and experiments of membrane tubulation. Next, we show that membrane budding by local differences in spontaneous curvature is driven purely by the generation of traction in the radial direction and the emergence of an effective line tension at the boundary of these regions. Finally, we show that performing this calculation on images of phase-separated giant vesicles yields a line tension similar to experimentally determined values.
title: Food shortage: how parents set out to sell children, and then changed their mind. Version 2.
Creators: name: Michaud, Alexis
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2014
Subjects: subject: Yongning Na
subject: nru

description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
Classification P=9 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=9
MOESM1 of Predicting drug-target interactions from drug structure and protein sequence using novel convolutional neural networks
Creators: name: Hu, ShanShan
name: Zhang, Chenglin
name: Chen, Peng
name: Gu, Pengying
name: Zhang, Jun
name: Wang, Bing
Publisher: name: figshare
Year: 2019
Subjects: Biophysics
Biochemistry
Medicine
Molecular Biology
Pharmacology
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified
Information Systems not elsewhere classified
Computational Biology

description: Additional file 1 This file records the detailed drug-target pairs on enzymes, ion channels, GPCRs and nuclear receptors of the Dataset2.
Additional file 11: of AKT1 restricts the invasive capacity of head and neck carcinoma cells harboring a constitutively active PI3 kinase activity
Creators: name: Brolih, Sanja
name: Parks, Scott
name: Vial, Valérie
name: Durivault, Jérôme
name: Mostosi, Livio
name: Pouysségur, Jacques
name: Pagès, Gilles
name: Picco, Vincent
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Figure S2 Analysis of e-cadherin expression and localization by immunofluorescence in CAL33 cells. Immunostaining of e-cadherin (green) and Alexa555-phalloidin (red) staining of the actin cytoskeleton (F-actin) in CAL33 cells expressing a control shRNA (shCont), an shRNA sequences targeting AKT1 (sh1.2) or control cells treated with the pan-AKT inhibitor MK-2206 (MK), Rapamycin (Rapa) or Erlotinib (Erlo). Nuclear DNA was counterstained with Hoechst 33,342 (blue). (PDF 1545 kb)
title: Dog: How dog and man exchanged their lifespan (version 2)
Creators: name: Michaud, Alexis
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2013
Subjects: subject: Yongning Na
subject: nru

description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
Derivation of regular p-cages from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: A derivation of all the regular connectivity-invariant convex homogeneous p-cages for P = 6 to 20.
Gut Dysbiosis and Neurobehavioral Alterations in Rats Exposed to Silver Nanoparticles
Creators: name: Javurek, Angela B.
name: Suresh, Dhananjay
name: Spollen, William G.
name: Hart, Marcia L.
name: Hansen, Sarah A.
name: Ellersieck, Mark R.
name: Bivens, Nathan J.
name: Givan, Scott A.
name: Upendran, Anandhi
name: Kannan, Raghuraman
name: Rosenfeld, Cheryl S.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Tissues and Organs (q-bio.TO)
subject: Molecular Networks (q-bio.MN)
subject: FOS: Biological sciences

description: Due to their antimicrobial properties, silver nanoparticles (AgNPs) are being used in non-edible and edible consumer products. It is not clear though if exposure to these chemicals can exert toxic effects on the host and gut microbiome. Conflicting studies have been reported on whether AgNPs result in gut dysbiosis and other changes within the host. We sought to examine whether exposure of Sprague-Dawley male rats for two weeks to different shapes of AgNPs, cube (AgNC) and sphere (AgNS) affects gut microbiota, select behaviors, and induces histopathological changes in the gastrointestinal system and brain. In the elevated plus maze (EPM), AgNS-exposed rats showed greater number of entries into closed arms and center compared to controls and those exposed to AgNC. AgNS and AgNC treated groups had select reductions in gut microbiota relative to controls. Clostridium spp., Bacteroides uniformis, Christensenellaceae, and Coprococcus eutactus were decreased in AgNC exposed group, whereas, Oscillospira spp., Dehalobacterium spp., Peptococcaeceae, Corynebacterium spp., Aggregatibacter pneumotropica were reduced in AgNS exposed group. Bacterial reductions correlated with select behavioral changes measured in the EPM. No significant histopathological changes were evident in the gastrointestinal system or brain. Findings suggest short-term exposure to AgNS or AgNC can lead to behavioral and gut microbiome changes.
description: 14 figures, 15 pages
MOESM1 of Exploring d-xylose oxidation in Saccharomyces cerevisiae through the Weimberg pathway
Creators: name: Wasserstrom, Lisa
name: Portugal-Nunes, Diogo
name: Almqvist, Henrik
name: SandstrĂśm, Anders
name: LidĂŠn, Gunnar
name: Gorwa-Grauslund, Marie
Publisher: name: figshare
Year: 2018
Subjects: subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: 69999 Biological Sciences not elsewhere classified

description: Additional file 1: Table S1. Primers used in the present study.
Dini and Schauder estimates for nonlocal fully nonlinear parabolic equations with drifts
Creators: name: Dong, Hongjie
name: Jin, Tianling
name: Zhang, Hong
Publisher: name: arXiv
Year: 2017
Subjects: subject: Analysis of PDEs (math.AP)
subject: FOS: Mathematics

description: We obtain Dini and Schauder type estimates for concave fully nonlinear nonlocal parabolic equations of order $σ\in (0,2)$ with rough and non-symmetric kernels, and drift terms. We also study such linear equations with only measurable coefficients in the time variable, and obtain Dini type estimates in the spacial variable. This is a continuation of the work [10, 11] by the first and last authors.
description: 42 pages, some corrections in the proof of Theorem 1.5 were made. References updated. arXiv admin note: text overlap with arXiv:1612.08310
Classification P=14 from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the near-miss connectivity-invariant homogeneous convex p-cages with less than 10% deformation for P=14
title: How the Lake was created (version 4)
Creators: name: Michaud, Alexis
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2013
Subjects: subject: Yongning Na
subject: nru

description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
MPEC 2025-H184 : 2025 HS5
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2025
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469
subject: 2025 HS5

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.
Charge Pattern Matching as a "Fuzzy" Mode of Molecular Recognition for the Functional Phase Separations of Intrinsically Disordered Proteins
Creators: name: Lin, Yi-Hsuan
name: Brady, Jacob P.
name: Forman-Kay, Julie D.
name: Chan, Hue Sun
Publisher: name: arXiv
Year: 2017
Subjects: subject: Biomolecules (q-bio.BM)
subject: FOS: Biological sciences

description: Biologically functional liquid-liquid phase separation of intrinsically disordered proteins (IDPs) is driven by interactions encoded by their amino acid sequences. Little is currently known about the molecular recognition mechanisms for distributing different IDP sequences into various cellular membraneless compartments. Pertinent physics was addressed recently by applying random-phase-approximation (RPA) polymer theory to electrostatics, which is a major energetic component governing IDP phase properties. RPA accounts for charge patterns and thus has advantages over Flory-Huggins and Overbeek-Voorn mean-field theories. To make progress toward deciphering the phase behaviors of multiple IDP sequences, the RPA formulation for one IDP species plus solvent is hereby extended to treat polyampholyte solutions containing two IDP species. The new formulation generally allows for binary coexistence of two phases, each containing a different set of volume fractions $(ϕ_1,ϕ_2)$ for the two different IDP sequences. The asymmetry between the two predicted coexisting phases with regard to their $ϕ_1/ϕ_2$ ratios for the two sequences increases with increasing mismatch between their charge patterns. This finding points to a multivalent, stochastic, "fuzzy" mode of molecular recognition that helps populate various IDP sequences differentially into separate phase compartments. An intuitive illustration of this trend is provided by Flory-Huggins models, whereby a hypothetical case of ternary coexistence is also explored. Augmentations of the present RPA theory with a relative permittivity $ε_{\rm r}(ϕ)$ that depends on IDP volume fraction $ϕ=ϕ_1+ϕ_2$ lead to higher propensities to phase separate, in line with the case with one IDP species we studied previously. ...
description: Accepted for publication in New Journal of Physics (IOP) for the "Focus On Phase Transitions in Cells" Special Issue; 37 pages, 11 figures
Additional file 1: of I-124 codrituzumab imaging and biodistribution in patients with hepatocellular carcinoma
Creators: name: Carrasquillo, Jorge
name: O’Donoghue, Joseph
name: Beylergil, Volkan
name: Shutian Ruan
name: Pandit-Taskar, Neeta
name: Larson, Steven
name: Smith-Jones, Peter
name: Lyashchenko, Serge
name: Ohishi, Norihisa
name: Ohtomo, Toshihiko
name: Abou-Alfa, Ghassan
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Computational Biology

description: Table S1. H score by Ventana method for GPC3 expression. Figure S1. SUVs over normal organs and tissues derived from VOI analysis were divided by SUV in the blood pool at various imaging times. With the exception of the thyroid, which showed increasing accumulation over time and therefore rising tumor-to-blood-pool ratios, activity in other organs had fixed organ-to-blood-pool ratios (spleen and lung) or minimally significantly increased in the liver, kidney, and marrow over time (one-way ANOVA p ≤ 0.05, suggesting that accumulation in those organs was accounted for mainly by the blood pool). Figure S2. Correlation between SUVmax in tumor and soluble GPC3 values measured by GT30/GT607 pair (A) or GT96/M3C11 pair (B). There is a suggestion of some correlation of uptake to sGPC3 values. Figure S3. Pearson correlation between SUVmax in tumor compared to IHC score based on cytoplasm (A) or membrane staining (B). There is a trend to correlation of uptake of antibody expressed in terms of SUV to IHC score. Figure S4. No correlation was observed between SUVmax uptake and various clinical outcomes. (DOCX 300 kb)
title: Coordinative compounds. Speaker F4. Version 2.
Creators: name: Michaud, Alexis
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2013
Subjects: subject: Yongning Na
subject: nru

description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
Additional file 10: of AKT1 restricts the invasive capacity of head and neck carcinoma cells harboring a constitutively active PI3 kinase activity
Creators: name: Brolih, Sanja
name: Parks, Scott
name: Vial, Valérie
name: Durivault, Jérôme
name: Mostosi, Livio
name: Pouysségur, Jacques
name: Pagès, Gilles
name: Picco, Vincent
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Figure S1. AKT1 and AKT2 isoform expression in CAL33, Detroit562 and CAL27 cells. AKT1 and AKT2 expression levels were evaluated by immunoblot with specific anti-AKT antibody in CAL33 cells expressing a control shRNA (shCont), two independent shRNA sequences targeting AKT1 (sh1.1 and sh1.2) and in Detroit562 and CAL27 cells. GAPDH was used as a loading control. (PDF 26 kb)
Regular p-cages from Characterization of near-miss connectivity-invariant homogeneous convex polyhedral cages
Creators: name: Piette, Bernard M.A.G.
name: Kowalczyk, Agnieszka
name: Heddle, Jonathan G.
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biochemistry
subject: 10299 Applied Mathematics not elsewhere classified
subject: FOS: Mathematics
subject: 19999 Mathematical Sciences not elsewhere classified

description: Figures of all the regular connectivity-invariant homogeneous convex p-cages for P=6-20.
Relativistic and Electromagnetic Molecular Dynamics Simulations for a Carbon-Gold Nanotube Accelerator
Creators: name: Tanaka, Motohiko
name: Murakami, Masakatsu
Publisher: name: arXiv
Year: 2017
Subjects: subject: Applied Physics (physics.app-ph)
subject: Plasma Physics (physics.plasm-ph)
subject: FOS: Physical sciences

description: Relativistic molecular dynamics are described in ultra-high temperature and MeV energy behaviors. In strongly-coupled systems, the Coulomb electrostatic field is collected in the infinite space, and the electromagnetic fields are added in the coordinate space. Separation of the electromagnetic and electrostatic electric fields is a good approximation for short time periods. For a numerical application, a nanotube accelerator under an $E \times B$ pulse is studied. Positive ions are accelerated in the parallel direction, whereas the electrons proceed in the perpendicular direction. Rapid expansion to infinite space and short-range electromagnetic radiation cooperate for large intensities. At $10^{22}\rm{W/cm}^{2}$, pulsation oscillations for gold and carbon ions flare up and electrons acquire the relativistic velocities. They are observed in relativistic molecular dynamics simulation.
description: 23 pages, 9 figures, 3 tables