cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
C57BL/6 and 129 inbred mouse strains differ in Gbp2 and Gbp2b expression in response to inflammatory stimuli in vivo.
Creators: name: Clough, Barbara
name: Finethy, Ryan
name: Khan, Rabia T
name: Fisch, Daniel
name: Jordan, Sarah
name: Harshil Patel
name: Coers, Jörn
name: Eva-Maria Frickel
Publisher: name: The Francis Crick Institute
Year: 2020
Subjects: subject: Model organisms
subject: Tumour Biology
subject: Genetics & Genomics
subject: Genome Integrity & Repair
subject: Cell Biology
subject: Chemical Biology & High Throughput
subject: Infectious Disease
subject: Immunology
subject: FOS: Clinical medicine
subject: Computational & Systems Biology

description: Background: Infections cause the production of inflammatory cytokines such as Interferon gamma (IFNγ). IFNγ in turn prompts the upregulation of a range of host defence proteins including members of the family of guanylate binding proteins (Gbps). In humans and mice alike, GBPs restrict the intracellular replication of invasive microbes and promote inflammation. To study the physiological functions of Gbp family members, the most commonly chosen in vivo models are mice harbouring loss-of-function mutations in either individual Gbp genes or the entire Gbp gene cluster on mouse chromosome 3. Individual Gbp deletion strains differ in their design, as some strains exist on a pure C57BL/6 genetic background, while other strains contain a 129-derived genetic interval encompassing the Gbp gene cluster on an otherwise C57BL/6 genetic background. Methods: To determine whether the presence of 129 alleles of paralogous Gbps could influence the phenotypes of 129-congenic Gbp-deficient strains, we studied the expression of Gbps in both C57BL/6J and 129/Sv mice following in vivo stimulation with adjuvants and after infection with either Toxoplasma gondii or Shigella flexneri. Results: We show that C57BL/6J relative to 129/Sv mice display moderately elevated expression of Gbp2, but more prominently, are also defective for Gbp2b (formerly Gbp1) mRNA induction upon immune priming. Notably, Toxoplasma infections induce robust Gbp2b protein expression in both strains of mice, suggestive of a Toxoplasma-activated mechanism driving Gbp2b protein translation. We further find that the higher expression of Gbp2b mRNA in 129/Sv mice correlates with a gene duplication event at the Gbp2b locus resulting in two copies of the Gbp2b gene on the haploid genome of the 129/Sv strain. Conclusions: Our findings demonstrate functional differences between 129 and C57BL/6 Gbp alleles which need to be considered in the design and interpretation of studies utilizing mouse models, particularly for phenotypes influenced by Gbp2 or Gbp2b expression.
Non-extremal superdescendants of the D1D5 CFT
Creators: name: Bombini, Alessandro
name: Giusto, Stefano
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We construct solutions of IIB supergravity dual to non-supersymmetric states of the D1D5 system. These solutions are constructed as perturbations carrying both left and right moving momentum around the maximally rotating D1D5 ground state at linear order. They are found by extending to the asymptotically flat region the geometry generated in the decoupling limit by the action of left and right R-currents on a known D1D5 microstate. The perturbations are regular everywhere and do not carry any global charge. We also study the near-extremal limit of the solutions and derive the first non-trivial correction to the extremal geometry.
description: 25 pages
Hybrid QINN-BP for Algorithmic Trading: A Quantum-Inspired 5D Reinforcement Learning Approach for Financial Markets
Creators: name: MacDonald, Nathaniel
Publisher: name: Zenodo
Year: 2025

description: This paper introduces a Hybrid Quantum-Inspired Neural Network (QINN) with Backpropagation (BP) for reinforcement learning in financial trading. The model leverages QINN for early exploration and BP for long-term stability, significantly outperforming traditional RL methods (DQN, PPO, A2C) and Buy & Hold strategies. In simulated BTC-USD trading, QINN-BP achieved a 463.5% ROI, demonstrating its potential for adaptive decision-making in dynamic environments. The research highlights quantum-inspired techniques in AI and proposes future applications in high-frequency trading and real-time portfolio optimization.

Keywords: Reinforcement Learning, Quantum-Inspired Neural Networks, Backpropagation, Algorithmic Trading, Financial AI

📜 Copyright Notice:© Nate, 2025. This work is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0). Redistribution, adaptation, and use are permitted with proper attribution.

🚀 This research lays the foundation for next-generation AI-driven financial strategies.
Spectral analysis of gravitational waves from binary neutron star merger remnants
Creators: name: Maione, Francesco
name: De Pietri, Roberto
name: Feo, Alessandra
name: Löffler, Frank
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: In this work we analyze the gravitational wave signal from hypermassive neutron stars formed after the merger of binary neutron star systems, focusing on its spectral features. The gravitational wave signals are extracted from numerical relativity simulations of models already considered by De Pietri et al. [Phys. Rev. D 93, 064047 (2016)], Maione et al. [Classical Quantum Gravity 33, 175009 (2016)], and Feo et al. [Classical Quantum Gravity 34, 034001 (2017)], and allow us to study the effect of the total baryonic mass of such systems (from $2.4 M_{\odot}$ to $3 M_{\odot}$), the mass ratio (up to $q = 0.77$), and the neutron star equation of state, both in equal and highly unequal mass binaries. We use the peaks we find in the gravitational spectrum as an independent test of already published hypotheses of their physical origin and empirical relations linking them with the characteristics of the merging neutron stars. In particular, we highlight the effects of the mass ratio, which in the past was often neglected. We also analyze the temporal evolution of the emission frequencies. Finally, we introduce a modern variant of Prony's method to analyze the gravitational wave postmerger emission as a sum of complex exponentials, trying to overcome some drawbacks of both Fourier spectra and least-squares fitting. Overall, the spectral properties of the postmerger signal observed in our simulation are in agreement with those proposed by other groups. More specifically, we find that the analysis of Bauswein and Stergioulas [Phys. Rev. D 91, 124056 (2015)] is particularly effective for binaries with very low masses or with a small mass ratio and that the mechanical toy model of Takami et al. [Phys. Rev. D 91, 064001 (2015)] provides a comprehensive and accurate description of the early stages of the postmerger.
description: 19 pages, 6 figures
Morphological Segregation in the Surroundings of Cosmic Voids
Creators: name: Ricciardelli, Elena
name: Cava, Antonio
name: Varela, Jesus
name: Tamone, Amelie
Publisher: name: arXiv
Year: 2017
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We explore the morphology of galaxies living in the proximity of cosmic voids, using a sample of voids identified in the Sloan Digital Sky Survey Data Release 7. At all stellar masses, void galaxies exhibit morphologies of a later type than galaxies in a control sample, which represent galaxies in an average density environment. We interpret this trend as a pure environmental effect, independent of the mass bias, due to a slower galaxy build-up in the rarefied regions of voids. We confirm previous findings about a clear segregation in galaxy morphology, with galaxies of a later type being found at smaller void-centric distances with respect to the early-type galaxies. We also show, for the first time, that the radius of the void has an impact on the evolutionary history of the galaxies that live within it or in its surroundings. In fact, an enhanced fraction of late-type galaxies is found in the proximity of voids larger than the median void radius. Likewise, an excess of early-type galaxies is observed within or around voids of a smaller size. A significant difference in galaxy properties in voids of different sizes is observed up to 2 Rvoid, which we define as the region of influence of voids. The significance of this difference is greater than 3sigma for all the volume-complete samples considered here. The fraction of star-forming galaxies shows the same behavior as the late-type galaxies, but no significant difference in stellar mass is observed in the proximity of voids of different sizes.
description: Published in ApJL
Optimised oligonucleotide substrates to assay XPF-ERCC1 nuclease activity for the discovery of DNA repair inhibitors.
Creators: name: Thomas, Adam M
name: Brolih, Sanja
name: McGouran, Joanna F
name: El-Sagheer, Afaf H
name: Ptchelkine, Denis
name: Jones, Morgan
name: McDonald, Neil Q
name: McHugh, Peter J
name: Brown, Tom
Publisher: name: The Francis Crick Institute
Year: 2020
Subjects: Biochemistry & Proteomics
Structural Biology & Biophysics
Signalling & Oncogenes

description: We report the design and optimisation of novel oligonucleotide substrates for a sensitive fluorescence assay for high-throughput screening and functional studies of the DNA repair enzyme, XPF-ERCC1, with a view to accelerating inhibitor and drug discovery.
Additional file 3: of Whole exome sequencing in three families segregating a pediatric case of sarcoidosis
Creators: name: Calender, Alain
name: Farnier, Pierre Rollat
name: Buisson, Adrien
name: Pinson, Stéphane
name: Abderrazzaq Bentaher
name: Lebecque, Serge
name: Corvol, Harriet
name: Taam, Rola Abou
name: Houdouin, Véronique
name: Bardel, Claire
name: Roy, Pascal
name: Devouassoux, Gilles
name: Cottin, Vincent
name: Seve, Pascal
name: Jean-François Bernaudin
name: Lim, Clarice
name: Weichhart, Thomas
name: Valeyre, Dominique
name: Pacheco, Yves
name: Clement, Annick
name: Nathan, Nadia
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: Pharmacology
subject: Evolutionary Biology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: Computational Biology

description: Table S3. Composite heterozygocity observed in a common gene in at least two different trios. Possibly pathogenic compound heterozygous variants (allelic heterogeneity) observed in different positions of a common gene in at least two trios. The origin of either the paternal and maternal allele was detailed for each variant. Abbreviations are the same as in Tables 1, 2, Additional files 1 and 2: Tables S1 and S2. (DOCX 51 kb)
Additional file 3 of False negative rate of COVID-19 PCR testing: a discordant testing analysis
Creators: name: Kanji, Jamil N.
name: Zelyas, Nathan
name: MacDonald, Clayton
name: Pabbaraju, Kanti
name: Khan, Muhammad Naeem
name: Prasad, Abhaya
name: Hu, Jia
name: Diggle, Mathew
name: Berenger, Byron M.
name: Tipples, Graham
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Molecular Biology
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology
subject: Computational Biology

description: Additional file 3: Figure S1. Results of COVID-19 testing from the first 100,001 tests completed.
Acylation-coupled lipophilic induction of polarisation (Acyl-cLIP): a universal assay for lipid transferase and hydrolase enzymes
Creators: name: Lanyon-Hogg, Thomas
name: Ritzefeld, Markus
name: Sefer, Lea
name: Bickel, Jasmine K
name: Rudolf, Amalie F
name: Nattawadee Panyain
name: Bineva-Todd, Ganka
name: Ocasio, Cory A
name: O'Reilly, Nicola
name: Siebold, Christian
name: Magee, Anthony I
name: Tate, Edward W
Publisher: name: The Francis Crick Institute
Year: 2020
Subjects: Chemical Biology & High Throughput
Structural Biology & Biophysics

description: A highly accurate and versatile fluorescence polarisation assay for any enzyme adding or removing lipid posttranslational modifications, with the potential to accelerate drug discovery against these targets.
Cheap and near exact CASSCF with large active spaces
Creators: name: Smith, James E. T.
name: Holmes, Adam A.
name: Mussard, Bastien
name: Sharma, Sandeep
Publisher: name: arXiv
Year: 2017
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We use the recently-developed Heat-bath Configuration Interaction (HCI) algorithm as an efficient active-space solver to perform multi-configuration self-consistent field calculations (HCISCF) with large active spaces. We give a detailed derivation of the theory and show that difficulties associated with non-variationality of the HCI procedure can be overcome by making use of the Lagrangian formulation to calculate the HCI relaxed two body reduced density matrix. HCISCF is then used to study the electronic structure of butadiene, pentacene, and Fe-porphyrin. One of the most striking results of our work is that the converged active space orbitals obtained from HCISCF are relatively insensitive to the accuracy of the HCI calculation. This allows us to obtain nearly converged CASSCF energies with an estimated error of less than 1 mHa using the orbitals obtained from the HCISCF procedure in which the integral transformation is the dominant cost. For example, an HCISCF calculation on Fe-Porphyrin model complex with an active space of (44e, 44o) took only 412 seconds per iteration on a single node containing 28 cores, out of which 185 seconds were spent in the HCI calculation and the remaining 227 seconds were mainly used for integral transformation. Finally, we also show that active-space orbitals can be optimized using HCISCF to substantially speed up the convergence of the HCI energy to the Full CI limit because HCI is not invariant to unitary transformations within the active space.
description: 14 pages, 4 figures
Dynamical selection of Nash equilibria using Experience Weighted Attraction Learning: emergence of heterogeneous mixed equilibria
Creators: name: Nicole, Robin
name: Sollich, Peter
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computer Science and Game Theory (cs.GT)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Machine Learning (cs.LG)
subject: General Economics (econ.GN)
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences
subject: FOS: Economics and business

description: We study the distribution of strategies in a large game that models how agents choose among different double auction markets. We classify the possible mean field Nash equilibria, which include potentially segregated states where an agent population can split into subpopulations adopting different strategies. As the game is aggregative, the actual equilibrium strategy distributions remain undetermined, however. We therefore compare with the results of Experience-Weighted Attraction (EWA) learning, which at long times leads to Nash equilibria in the appropriate limits of large intensity of choice, low noise (long agent memory) and perfect imputation of missing scores (fictitious play). The learning dynamics breaks the indeterminacy of the Nash equilibria. Non-trivially, depending on how the relevant limits are taken, more than one type of equilibrium can be selected. These include the standard homogeneous mixed and heterogeneous pure states, but also \emph{heterogeneous mixed} states where different agents play different strategies that are not all pure. The analysis of the EWA learning involves Fokker-Planck modeling combined with large deviation methods. The theoretical results are confirmed by multi-agent simulations.
description: 35 pages, 16 figures
Additional file 1 of ATPIF1 maintains normal mitochondrial structure which is impaired by CCM3 deficiency in endothelial cells
Creators: name: Wang, Kang
name: Chen, Haixuan
name: Zhou, Zhongyang
name: Zhang, Haifeng
name: Zhou, Huanjiao Jenny
name: Min, Wang
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Developmental Biology
subject: Cancer
subject: Computational Biology

description: Additional file 1: Fig. S1. Clustering Analysis for CCM3ECKO Cell RNA-Seq Result. Total 92 genes with significant differential expression were subjected to DAVID GOBP analysis, and an enrichment map was built by Cytoscape with Enrichment Map Apps. Each node denotes one enriched GOBP cluster (p < 0.005, FDR q < 0.1, overlap cutoff > 0.5). Node size is proportional to the total number of genes in each cluster; Edge width is proportional to the number of shared genes in each cluster. Similar GOBP clusters were sorted and marked with circles and labels.
Fisher-Rao Metric, Geometry, and Complexity of Neural Networks
Creators: name: Liang, Tengyuan
name: Poggio, Tomaso
name: Rakhlin, Alexander
name: Stokes, James
Publisher: name: arXiv
Year: 2017
Subjects: subject: Machine Learning (cs.LG)
subject: Artificial Intelligence (cs.AI)
subject: Machine Learning (stat.ML)
subject: FOS: Computer and information sciences

description: We study the relationship between geometry and capacity measures for deep neural networks from an invariance viewpoint. We introduce a new notion of capacity --- the Fisher-Rao norm --- that possesses desirable invariance properties and is motivated by Information Geometry. We discover an analytical characterization of the new capacity measure, through which we establish norm-comparison inequalities and further show that the new measure serves as an umbrella for several existing norm-based complexity measures. We discuss upper bounds on the generalization error induced by the proposed measure. Extensive numerical experiments on CIFAR-10 support our theoretical findings. Our theoretical analysis rests on a key structural lemma about partial derivatives of multi-layer rectifier networks.
description: To appear in the proceedings of the 22nd International Conference on Artificial Intelligence and Statistics (AISTATS) 2019
Additional file 1: Table S1. of Metabolomics characterization of colostrum in three sow breeds and its influences on pigletsâ survival and litter growth rates
Creators: name: Picone, Gianfranco
name: Zappaterra, Martina
name: Luise, Diana
name: Trimigno, Alessia
name: Capozzi, Francesco
name: Motta, Vincenzo
name: Davoli, Roberta
name: Costa, Leonardo Nanni
name: Bosi, Paolo
name: Trevisi, Paolo
Publisher: name: figshare
Year: 2018
Subjects: subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology

description: The main bins accounting for the spectral differentiation and their relative chemical shift. (DOCX 21 kb)
Additional file 1: of Loss of stomach, loss of appetite? Sequencing of the ballan wrasse (Labrus bergylta) genome and intestinal transcriptomic profiling illuminate the evolution of loss of stomach function in fish
Creators: name: Lie, Kai
name: Tørresen, Ole
name: Solbakken, Monica
name: Rønnestad, Ivar
name: Tooming-Klunderud, Ave
name: Nederbragt, Alexander
name: Jentoft, Sissel
name: Sæle, Øystein
Publisher: name: figshare
Year: 2018
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Illumina de novo brain and intestine transcriptome assembly statistics. (PDF 154 kb)
Out-of-plane Piezoelectricity and Ferroelectricity in Layered $α$-In2Se3 Nano-flakes
Creators: name: Zhou, Yu
name: Wu, Di
name: Zhu, Yihan
name: Cho, Yujin
name: He, Qing
name: Yang, Xiao
name: Herrera, Kevin
name: Chu, Zhaodong
name: Han, Yu
name: Downer, Michael C.
name: Peng, Hailin
name: Lai, Keji
Publisher: name: arXiv
Year: 2017
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Piezoelectric and ferroelectric properties in the two dimensional (2D) limit are highly desired for nanoelectronic, electromechanical, and optoelectronic applications. Here we report the first experimental evidence of out-of-plane piezoelectricity and ferroelectricity in van der Waals layered $α$-In2Se3 nano-flakes. The non-centrosymmetric R3m symmetry of the $α$-In2Se3 samples is confirmed by scanning transmission electron microscopy, second-harmonic generation, and Raman spectroscopy measurements. Domains with opposite polarizations are visualized by piezo-response force microscopy. Single-point poling experiments suggest that the polarization is potentially switchable for $α$-In2Se3 nano-flakes with thicknesses down to ~ 10 nm. The piezotronic effect is demonstrated in two-terminal devices, where the Schottky barrier can be modulated by the strain-induced piezopotential. Our work on polar $α$-In2Se3, one of the model 2D piezoelectrics and ferroelectrics with simple crystal structures, shows its great potential in electronic and photonic applications.
description: 17 pages, 5 figures, just accepted by Nano Letters
Nonequilibrium phase transition in spin-S Ising ferromagnet driven by Propagating and Standing magnetic field wave
Creators: name: Halder, Ajay
name: Acharyya, Muktish
Publisher: name: arXiv
Year: 2017
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: The dynamical response of spin-S (S=1, 3/2, 2, 3) Ising ferromagnet to the plane propagating wave , standing magnetic field wave and uniformly oscillating field with constant frequency are studied separately in two dimensions by extensive Monte Carlo simulation. Depending upon the strength of the magnetic field and the value of the spin state of the Ising spin lattice two different dynamical phases are observed. For a fixed value of S and the amplitude of the propagating magnetic field wave the system undergoes a dynamical phase transition from propagating phase to pinned phase as the temperature of the system is cooled down. Similarly in case with standing magnetic wave the system undergoes dynamical phase transition from high temperature phase where spins oscillates coherently in alternate bands of half wavelength of the standing magnetic wave to the low temperature pinned or spin frozen phase. For a fixed value of the amplitude of magnetic field oscillation the transition temperature is observed to decrease to a limiting value as the value of spin S is increased. The time averaged magnetisation over a full cycle of the magnetic field oscillation plays the role of the dynamic order parameter. A comprehensive phase boundary is drawn in the plane of magnetic field amplitude and dynamic transition temperature. It is found that the phase boundary shrinks inwards for high value of spin state S. Also in the low temperature (and high field) region the phase boundaries are closely spaced.
description: 25 pages Latex including 15 captioned eps figures, Commun. Theor. Phys. (2017) (In press)
Additional file 1: of Studying microbial functionality within the gut ecosystem by systems biology
Creators: name: Hornung, Bastian
name: Vitor Martins Dos Santos
name: Smidt, Hauke
name: Schaap, Peter
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Inorganic Chemistry

description: Supplementary Materials and Methods. Description on how data for Figs.Â 1 and 2 were obtained. (DOCX 16 kb)
Additional file 2 of Heterogeneous constitutional mismatch repair deficiency with MSH6 missense mutation clinically benefits from pembrolizumab and regorafenib combination therapy: a case report and literature review
Creators: name: Xie, Tong
name: Feng, Qin
name: Li, Zhongwu
name: Lu, Ming
name: Li, Jian
name: Lizaso, Analyn
name: Xiang, Jianxing
name: Zhang, Lu
name: Shen, Lin
name: Peng, Zhi
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 2: Table S1. Summary of targeted sequencing results from 2 tissue samples and blood sample of the patient. Table S2. Review of literature on CMMRD patients treated with immune checkpoint inhibitors.
Equivariant models of spherical varieties
Creators: name: Borovoi, Mikhail
name: Gagliardi, Giuliano
Publisher: name: arXiv
Year: 2017
Subjects: subject: Algebraic Geometry (math.AG)
subject: Group Theory (math.GR)
subject: FOS: Mathematics
subject: 14M27 (Primary), 14M17, 14G27, 20G15 (Secondary)

description: Let $G$ be a connected semisimple group over an algebraically closed field $k$ of characteristic 0. Let $Y=G/H$ be a spherical homogeneous space of $G$, and let $Y'$ be a spherical embedding of $Y$. Let $k_0$ be a subfield of $k$. Let $G_0$ be a $k_0$ -model ($k_0$-form) of $G$. We show that if $G_0$ is an inner form of a split group and if the subgroup $H$ of $G$ is spherically closed, then $Y$ admits a $G_0$-equivariant $k_0$-model. If we replace the assumption that $H$ is spherically closed by the stronger assumption that $H$ coincides with its normalizer in $G$, then $Y$ and $Y'$ admit compatible $G_0$-equivariant $k_0$-models, and these models are unique.
description: V2, 33 pages. A strong version of Losev's Uniqueness Theorem has been added. V3, 37 pages. Section 1 has been rewritten, an example due to Roman Avdeev has been added. V4, 40 pages. V5, 42 pages, final version, to appear in Transformation Groups
title: NALBB: Enquête dialectologique à Bodilis (1)
Creators: name: Le Dû, Jean
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2011
Subjects: subject: Breton
subject: bre

description: Conforms to: doi:10.34847/cocoon.69c4fa74-f324-3ddb-9f1a-580867fd5826
title: NALBB: Enquête dialectologique à Bodilis (2)
Creators: name: Le Dû, Jean
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2011
Subjects: subject: Breton
subject: bre

description: Conforms to: doi:10.34847/cocoon.69c4fa74-f324-3ddb-9f1a-580867fd5826
Additional file 5: of A sophisticated, differentiated Golgi in the ancestor of eukaryotes
Creators: name: Lael Barlow
name: Nývltová, Eva
name: Aguilar, Maria
name: Tachezy, Jan
name: Dacks, Joel
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Plant Biology
subject: Cardiology

description: Figure S3. Validation of antibodies used against M. balamuthi. Western blot analysis of M. balamuthi lysate and corresponding recombinant proteins using (A) anti-COPI-β and (B) anti-PDI Abs. (C) Immunofluorescence images of M. balamuthi incubated with pre-immune serum showing lack of fluorescence in the absence of the raised antibody. We speculate that, based on the estimated size of the larger band in panel A, the antibody is showing a dimer of the protein. In line with this, we performed preliminary proteomics of an SDS Page sample of proteins at the ~100 and ~200 KDa range. In both cases, we identified COPI-β as an abundant protein (data not shown). (PDF 14393 kb)
Adverse Events of Special Interest Following the Use of BNT162b2 in Adolescents: A Population-Based Retrospective Cohort Study
Creators: name: Lai, Francisco Tsz Tsun
name: MBBS, Gilbert T Chua
name: Chan, Edward Wai Wa
name: MSc, Lei Huang
name: MSc, Mike Yat Wah Kwan
name: Ma, Tiantian
name: Qin, Xiwen
name: Chui, Celine Sze Ling
name: Li, Xue
name: Wan, Eric Yuk Fai
name: Wong, Carlos King Ho
name: Chan, Esther Wai Yin
name: Wong, Ian Chi Kei
name: Ip, Patrick
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Accruing evidence suggests an increased risk of myocarditis in adolescents from messenger RNA COVID-19 vaccines. However, other potential adverse events remain under-researched. We conducted a retrospective cohort study of adolescents aged 12–18 with a territory-wide electronic healthcare database of the Hong Kong population linked with population-based vaccination records and supplemented with age- and sex-specific population numbers. Two age- and sex-matched retrospective cohorts were formed to observe 28 days following the first and second doses of BNT162b2 and estimate the age- and sex-adjusted incidence rate ratios between the vaccinated and unvaccinated. Thirty AESIs adapted from the World Health Organization’s Global Advisory Committee on Vaccine Safety were examined. Eventually, the first-dose cohort comprised 274,881 adolescents (50.25% received the first dose) and the second-dose cohort 237,964 (50.29% received the second dose). Ninety-four (34.2 per 100,000 persons) adolescents in the first-dose cohort and 130 (54.6 per 100,000 persons) in the second-dose cohort experienced ≥1 AESIs. There were no statistically significant differences in the risk of any AESI associated with BNT162b2 except myocarditis [first-dose cohort: incidence rate ratio (IRR) = 9.15, 95% confidence interval (CI) 1.14–73.16; second-dose cohort: IRR = 29.61, 95% CI 4.04–217.07] and sleeping disturbances/disorders after the second dose (IRR = 2.06, 95% CI 1.01–4.24). Sensitivity analysis showed that, with myocarditis excluded as AESIs, no significantly elevated risk of AESIs as a composite outcome associated with vaccination was observed (P = 0.195). To conclude, the overall absolute risk of AESIs was low with no evidence of an increased risk of AESIs except myocarditis and sleeping disturbances/disorders.
Functional responses can unify invasion ecology
Creators: name: Dick, Jaimie T. A.
name: Jeschke, Jonathan M.
name: Saul, Wolf-Christian
name: Alexander, Mhairi E.
name: Ricciardi, Anthony
name: Laverty, Ciaran
name: Downey, Paul O.
name: Xu, Meng
name: Hill, Matthew P.
name: Wasserman, Ryan
Publisher: name: Freie Universität Berlin
Year: 2017
Subjects: subject: functional responses
subject: resource use
subject: impact prediction
subject: predator–prey
subject: invasion hypotheses
subject: species-traits
subject: biological control
subject: context-dependency
subject: 500 Naturwissenschaften und Mathematik::590 Tiere (Zoologie)::590 Tiere (Zoologie)

description: We contend that invasion ecology requires a universal, measurable trait of species and their interactions with resources that predicts key elements of invasibility and ecological impact; here, we advocate that functional responses can help achieve this across taxonomic and trophic groups, among habitats and contexts, and can hence help unify disparate research interests in invasion ecology.
Maternal vitamin D deficiency during pregnancy and low birth weight: a systematic review and meta-analysis
Creators: name: Fang, Kehong
name: He, Yuna
name: Mu, Min
name: Liu, Kai
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Medicine
subject: Cell Biology
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Science Policy
subject: Computational Biology

description: The object of the present study was to estimate the relationship between maternal vitamin D deficiency during pregnancy and low birth weight by systematically review prevalence studies. We collected data from relevant studies published up to April 2019 using predefined inclusion/exclusion criteria. And all the studies were searched in PubMed, Embase, Cochrane Library, and Web of Science. A total of 16 studies met the criteria and were included in the meta-analysis. When compared with normal serum levels of vitamin D, the maternal vitamin D deficiency had an increased risk of low birth weight (OR = 2.39; 95%CI 1.25–4.57; p = .008), and same results were found in the comparison of the mean (the total mean birth weight decreased by 0.08 kg; 95%CI −0.10 to −0.06; p < .001). The evidence from this meta-analysis indicates a consistent association between vitamin D deficiency during pregnancy and an increased risk of low birth weight, and preventing maternal vitamin D deficiency may be an important public health strategy to help decrease the risk of low birth weight.
Additional file 2: of Whole exome sequencing in three families segregating a pediatric case of sarcoidosis
Creators: name: Calender, Alain
name: Farnier, Pierre Rollat
name: Buisson, Adrien
name: Pinson, Stéphane
name: Abderrazzaq Bentaher
name: Lebecque, Serge
name: Corvol, Harriet
name: Taam, Rola Abou
name: Houdouin, Véronique
name: Bardel, Claire
name: Roy, Pascal
name: Devouassoux, Gilles
name: Cottin, Vincent
name: Seve, Pascal
name: Jean-François Bernaudin
name: Lim, Clarice
name: Weichhart, Thomas
name: Valeyre, Dominique
name: Pacheco, Yves
name: Clement, Annick
name: Nathan, Nadia
Publisher: name: figshare
Year: 2018
Subjects: subject: Space Science
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: Computational Biology

description: Table S2. Recessive variants shared by a common gene in at least two different trios. Possibly pathogenic recessive variants observed at different positions for a single gene in at least two affected children of the trios (T). Abbreviations are the same as in Tables 1, 2 and Additional file 1: Table S1. (DOCX 31 kb)
The Reach of the High-Energy LHC for Gluinos and Top Squarks in SUSY Models with Light Higgsinos
Creators: name: Baer, Howard
name: Barger, Vernon
name: Gainer, James S.
name: Serce, Hasan
name: Tata, Xerxes
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We examine the top squark (stop) and gluino reach of the proposed 33 TeV energy upgrade of the Large Hadron Collider (LHC33) in the Minimal Supersymmetric Standard Model (MSSM) with light higgsinos and relatively heavy electroweak gauginos. In our analysis, we assume that stops decay to higgsinos via ${\tilde t}_1 \to t {\tilde{Z}}_1$, $\tilde{t}_1 \to t\tilde{Z}_2$ and $\tilde{t}$$_1 \to b\tilde{W}_1$ with branching fractions in the ratio 1:1:2 (expected if the decay occurs dominantly via the superpotential Yukawa coupling) while gluinos decay via $\tilde{g}\to t\tilde{t}_1$ or via three-body decays to third generation quarks plus higgsinos. These decay patterns are motivated by models of natural supersymmetry where higgsinos are expected to be close in mass to $m_Z$, but gluinos may be as heavy as $5 - 6$ TeV and stops may have masses up to $\sim 3 $ TeV. We devise cuts to optimize the signals from stop and gluino pair production at LHC33. We find that experiments at LHC33 should be able to discover stops with $> 5σ$ significance if $m_{\tilde{t}_1} < 2.3 \ (2.8) \ [3.2]$ TeV for an integrated luminosity of 0.3 (1)[3] ab$^{-1}$. The corresponding reach for gluinos extends to 5 (5.5) [6] TeV. These results imply that experiments at LHC33 should be able to discover at least one of the stop or gluino pair signals even with an integrated luminosity of 0.3 ab$^{-1}$ for natural SUSY models with no worse than 3% electroweak fine-tuning, and quite likely both gluinos and stops for an integrated luminosity of 3 ab$^{-1}$.
description: 37 pages, 18 figures
Additional file 4: of A sophisticated, differentiated Golgi in the ancestor of eukaryotes
Creators: name: Lael Barlow
name: NĂ˝VltovĂĄ, Eva
name: Aguilar, Maria
name: Tachezy, Jan
name: Dacks, Joel
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Plant Biology

description: Figure S2. Phylogenetic analysis of amoebozoan homologues of Adaptor protein complex and COPI complex Î˛ subunits used for classification of M. balamuthi genes within this paralogous family. Both MrBayes and RAxML were used in this analysis, yielding posterior probabilities and bootstrap values, respectively, as node support values, which are shown in the format MrBayes/RAxML (see Methods). The topology shown was reconstructed using MrBayes. Distinct clades for each of the proteins in this family were identified with significant support, allowing confident classification of M. balamuthi genes. The M. balamuthi sequences can be found in the alignment file used for this analysis (Additional file 11). (PDF 334 kb)
Lack of activity of recombinant HIF prolyl hydroxylases (PHDs) on reported non-HIF substrates.
Creators: name: Cockman, Matthew E
name: Lippl, Kerstin
name: Tian, Ya-Min
name: Pegg, Hamish B
name: Figg, William D
name: Abboud, Martine I
name: Heilig, Raphael
name: Fischer, Roman
name: Myllyharju, Johanna
name: Schofield, Christopher J
name: Ratcliffe, Peter J
Publisher: name: The Francis Crick Institute
Year: 2020
Subjects: Biochemistry & Proteomics
Metabolism
Cell Biology
Signalling & Oncogenes

description: Human and other animal cells deploy three closely related dioxygenases (PHD 1, 2 and 3) to signal oxygen levels by catalysing oxygen regulated prolyl hydroxylation of the transcription factor HIF. The discovery of the HIF prolyl-hydroxylase (PHD) enzymes as oxygen sensors raises a key question as to the existence and nature of non-HIF substrates, potentially transducing other biological responses to hypoxia. Over 20 such substrates are reported. We therefore sought to characterise their reactivity with recombinant PHD enzymes. Unexpectedly, we did not detect prolyl-hydroxylase activity on any reported non-HIF protein or peptide, using conditions supporting robust HIF-α hydroxylation. We cannot exclude PHD-catalysed prolyl hydroxylation occurring under conditions other than those we have examined. However, our findings using recombinant enzymes provide no support for the wide range of non-HIF PHD substrates that have been reported.
Detection of Interstellar HC$_5$O in TMC-1 with the Green Bank Telescope
Creators: name: McGuire, Brett A.
name: Burkhardt, Andrew M.
name: Shingledecker, Christopher N.
name: Kalenskii, Sergei V.
name: Herbst, Eric
name: Remijan, Anthony J.
name: McCarthy, Michael C.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We report the detection of the carbon-chain radical HC$_5$O for the first time in the interstellar medium toward the dark cloud TMC-1 using the 100 m Green Bank Telescope. We observe four hyperfine components of this radical in the $J = 17/2 \rightarrow 15/2$ rotational transition that originates from the $^2Π_{1/2}$ fine structure level of its ground state, and calculate an abundance of $n/n_{H_2}$ = $1.7\times 10^{-10}$, assuming an excitation temperature of $T_{ex} = 7$~K. No indication of HC$_3$O, HC$_4$O, HC$_6$O, is found in these or archival observations of the source, while we report tentative evidence for HC$_7$O. We compare calculated upper limits, and the abundance of HC$_5$O to predictions based on (1) the abundance trend of the analogous HC$_n$N family in TMC-1 and (2) a gas-grain chemical model. We find that the gas-grain chemical model well reproduces the observed abundance of HC$_5$O, as well as the upper limits of HC$_3$O, HC$_6$O, and HC$_7$O, but HC$_4$O is over produced. The prospects for astronomical detection of both shorter and longer HC$_n$O chains are discussed.
description: Accepted in The Astrophysical Journal Letters
Canned sunshine: Precomputed daylight coefficients for climate based modelling using photon mapping
Creators: name: Schregle, Roland
name: Lars O. Grobe
name: Wasilewski, Stephen
Publisher: name: Zenodo
Year: 2022
Subjects: daylight simulation
Radiance
photon map
climate-based daylight modelling

description: Recent extension of the Radiance photon map module to support precomputation in climate-based daylight modelling
Additional file 1: of Heme oxygenase-1 promoter region (GT)n polymorphism associates with increased neuroimmune activation and risk for encephalitis in HIV infection
Creators: name: Gill, Alexander
name: Garza, Rolando
name: Surendra Ambegaokar
name: Gelman, Benjamin
name: Kolson, Dennis
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Supplementary Figures. Figures S1 and S2 with corresponding figure legends. (PDF 1377 kb)
Nonequilibrium quantum bounds to Landauer's principle: Tightness and effectiveness
Creators: name: Campbell, Steve
name: Guarnieri, Giacomo
name: Paternostro, Mauro
name: Vacchini, Bassano
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantum Physics (quant-ph)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: We assess two different non-equilibrium quantum Landauer bounds: the traditional approach based on the change in entropy, referred to as the `entropic bound', and one based on the details of the dynamical map, referred to as the `thermodynamic bound'. By first restricting to a simple exactly solvable model of a single two level system coupled to a finite dimensional thermal environment and by exploiting an excitation preserving interaction, we establish the dominant role played by the population terms in dictating the tightness of these bounds with respect to the dissipated heat, and clearly establish that coherences only affect the entropic bound. Furthermore, we show that sharp boundaries between the relative performance of the two quantities emerge, and find that there are clear instances where both approaches return a bound weaker than Clausius' statement of the second law, rendering them ineffective. Finally we show that our results extend to generic interaction terms.
description: 7 pages, 5 figures
Multi-stable cholesteric liquid crystal windows with four optical states
Creators: name: Mo, Liyi
name: Sun, Haitao
name: Liang, Aihui
name: Jiang, Xiaofang
name: Shui, Lingling
name: Zhou, Guofu
name: de Haan, Laurens T.
name: Hu, Xiaowen
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biophysics
subject: Space Science
subject: Physical Sciences not elsewhere classified
subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: An electrically switchable multi-stable liquid crystal device is demonstrated based on a non-uniform cholesteric liquid crystal (CLC) structure in a single cell. The non-uniform CLC structure consists of a polymer stabilised CLC layer and a non-polymer stabilised CLC layer. By taking advantage of the difference in driving electric field strength of the two layers, the device can be switched electrically to four different states: the reflecting state, the reflecting and scattering co-existing state, the scattering-only state and the transparent state. The optical properties of the four states and the transition conditions between the states were elucidated. Moreover, all states with reflecting and/or scattering properties are stable for an extended period of time after switching off the electric field. Thanks to its multi-stability, this device can be used for energy-saving smart windows of automobiles, buildings and in architectural aesthetics. An electrically switchable multi-stable liquid crystal device is demonstrated based on a non-uniform cholesteric liquid crystal (CLC) structure in a single cell. The device can be switched electrically to four different states. All states with reflecting and/or scattering properties are stable for an extended period of time after switching off the electric field. Thanks to its multi-stability, this device can be used for energy-saving smart windows of automobiles, buildings and in architectural aesthetics.
Activated stromal cells transfer mitochondria to rescue acute lymphoblastic leukaemia cells from oxidative stress.
Creators: name: Burt, Richard
name: Dey, Aditi
name: Aref, Sarah
name: Aguiar, Melanie
name: Ayse Akarca
name: Bailey, Katharine
name: Day, William
name: Hooper, Steven
name: Kirkwood, Amy
name: Kirschner, Kristina
name: SooWah Lee
name: Celso, Cristina Lo
name: Jiten Manji
name: Mansour, Marc R
name: Marafioti, Teresa
name: Mitchell, Rachel J
name: Muirhead, Robert C
name: Ng, Kenton Cheuk Yan
name: Constandina Pospori
name: Puccio, Ignazio
name: Zuborne-Alapi, Krisztina
name: Sahai, Erik
name: Fielding, Adele K
Publisher: name: The Francis Crick Institute
Year: 2020
Subjects: Model organisms
Imaging
Tumour Biology
Cell Biology

description: We investigated and modelled the mesenchymal stromal cell (MSC) niche in adult acute lymphoblastic leukaemia (ALL). We used gene expression profiling, cytokine/chemokine quantification, flow cytometry and a variety of imaging techniques to show that MSC directly isolated from the primary bone marrow specimens of patients with ALL frequently adopted an activated, cancer-associated fibroblast phenotype. Normal, primary human MSC and the MSC cell line HS27a both became activated de novo, when exposed to the reactive oxygen species (ROS)-inducing chemotherapy agents cytarabine (AraC) and daunorubicin (DNR), a phenomenon blocked by the anti-oxidant N-acetyl cysteine. Chemotherapy-activated HS27a cells were functionally evaluated in a co-culture model with ALL targets. Activated MSC prevented therapy-induced apoptosis and death in ALL targets, via mitochondrial transfer through tunnelling nanotubes (TNT). Reduction of mitochondrial transfer by selective mitochondrial depletion or interference with TNT formation by microtubule inhibitors such as vincristine (VCR) - prevented the 'rescue' function of the activated MSC. Corticosteroids - also a mainstay of ALL therapy - prevented the activation of MSC. We also demonstrated that AraC (but not VCR) - induced activation of MSC, mitochondrial transfer and mitochondrial mass increase in a murine NSG model of disseminated SEM-derived ALL wherein CD19+ cells closely associated with nestin+ MSC after AraC but not the other conditions. Our data propose a readily clinically-exploitable mechanism for improving treatment ALL in which traditional, ROS-inducing chemotherapies are often ineffective at eradicating residual ALL, despite efficiently killing the bulk population.