cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
94. The Age-Old Question of ANCA-Associated Vasculitis
Creators: name: Batten1, Isabella
name: Robinson3, Mark W.
name: Dwivedi2, Amrita
name: O'Neill2, Pamela
name: Little2, Mark A.
name: Bourke1, Nollaig M.
Publisher: name: Zenodo
Year: 2022
Subjects: Vasculitis
ANCA
Abstracts
Giant Cell Arthritis
MPA
GPA
EGPA
Takayasu
IgA vasculitis

description: Background: Unlike most autoimmune disorders, ANCA-associated vasculitis (AAV) tends to develop later in life, with an average age of onset of about 62 years. Although chronological age is considered a major risk factor involved in AAV development and progression, the underlying mechanisdriving this remain unknown. “Inflammageing” refers to the chronic, low-grade inflammation that occurs in older individuals and is characterised by increased resting levels of inflammatory mediators such as IL-6 and TNFa. Inflammageing has been associated with the development of most, if not all, age-related diseases. Despite this, it’s role in AAV pathogenesis has never been thoroughly explored. We hypothesise that immunological changes associated with ageing and inflammageing drive AAV pathogenesis and aim to investigate the effect of age on innate immune cell function in response to stimulation with ANCA. Methods: Blood samples were collected from healthy younger (<35 years old) and older (>60 years old). Immune cells (PBMC and neutrophils) were isolated, plated and stimulated with anti-myeloperoxidase (MPO) as well as positive and negative controls for 1-4 hours. Supernatants from these cells were used to measure cytokine release using ELISA. RNA was extracted from cell pellets to measure gene expression using qPCR. Fixed cells were analysed by flow cytometry to measure NETosis and reactive oxygen species (ROS) production. Results: PBMCs isolated from older individuals show significantly increased IL-6 gene expression and cytokine production in response to anti-MPO compared to those isolated from younger individuals. No significant differences in TNFa gene expression or cytokine production were noted between PBMCs isolated from younger and older individuals. No significant differences in NETosis or ROS production by anti-MPO stimulated neutrophils were observed between the cohorts. Conclusions: Ageing may result in heightened pro-inflammatory cytokine production in response to ANCA and promote AAV pathogenesis. However healthy ageing does not seem to alter ROS production or NETosis in innate immune cells isolated from healthy donors. Increased sample numbers are needed in order to confirm these findings and these experiments are ongoing. Disclosures: None
Additional file 1 of Predictors of satisfaction after lumbar disc herniation surgery in elderly
Creators: name: Niyaz Hareni
name: Strömqvist, Fredrik
name: Strömqvist, Björn
name: Rosengren, Björn
name: Karlsson, Magnus
Publisher: name: figshare
Year: 2020
Subjects: subject: Space Science
subject: Molecular Biology
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Marine Biology

description: Additional file 1 Table S1. Post-hoc analysis, satisfied or uncertain/dissatisfied analyzed between groups with Chi2.
Angular correlation of cosmic neutrinos with ultrahigh-energy cosmic rays and implications for their sources
Creators: name: Moharana, Reetanjali
name: Razzaque, Soebur
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: Cosmic neutrino events detected by the IceCube Neutrino Observatory with energy $\gtrsim 30$ TeV have poor angular resolutions to reveal their origin. Ultrahigh-energy cosmic rays (UHECRs), with better angular resolutions at $>60$ EeV energies, can be used to check if the same astrophysical sources are responsible for producing both neutrinos and UHECRs. We test this hypothesis, with statistical methods which emphasize invariant quantities, by using data from the Pierre Auger Observatory, Telescope Array and past cosmic-ray experiments. We find that the arrival directions of the cosmic neutrinos are correlated with $\ge 100$ EeV UHECR arrival directions at confidence level $\approx 93\%$. The strength of the correlation decreases with decreasing UHECR energy and no correlation exists at energy $\sim 60$ EeV. A search in astrophysical databases within $3^\circ$ of the arrival directions of UHECRs with energy $\ge 100$ EeV, that are correlated with the IceCube cosmic neutrinos, resulted in 18 sources from the Swift-BAT X-ray catalog with redshift $z\le 0.06$. We also found 3 objects in the Kühr catalog of radio sources using the same criteria. The sources are dominantly Seyfert galaxies with Cygnus A being the most prominent member. We calculate the required neutrino and UHECR fluxes to produce the observed correlated events, and estimate the corresponding neutrino luminosity (25 TeV-2.2 PeV) and cosmic-ray luminosity (500 TeV-180 EeV), assuming the sources are the ones we found in the Swift-BAT and Kühr catalogs. We compare these luminosities with the X-ray luminosity of the corresponding sources and discuss possibilities of accelerating protons to $\gtrsim 100$ EeV and produce neutrinos in these sources.
description: 23 pages, 8 figures and 5 tables. Minor changes, improved presentation, added a new figure (Fig.4). Accepted for publication in JCAP
MEAL: Manifold Embedding-based Active Learning
Creators: name: Sreenivasaiah, Deepthi
name: Otterbach, Johannes
name: Wollmann, Thomas
Publisher: name: arXiv
Year: 2021
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: Image segmentation is a common and challenging task in autonomous driving. Availability of sufficient pixel-level annotations for the training data is a hurdle. Active learning helps learning from small amounts of data by suggesting the most promising samples for labeling. In this work, we propose a new pool-based method for active learning, which proposes promising patches extracted from full image, in each acquisition step. The problem is framed in an exploration-exploitation framework by combining an embedding based on Uniform Manifold Approximation to model representativeness with entropy as uncertainty measure to model informativeness. We applied our proposed method to the autonomous driving datasets CamVid and Cityscapes and performed a quantitative comparison with state-of-the-art baselines. We find that our active learning method achieves better performance compared to previous methods.
ADAVI: Automatic Dual Amortized Variational Inference Applied To Pyramidal Bayesian Models
Creators: name: Rouillard, Louis
name: Wassermann, Demian
Publisher: name: arXiv
Year: 2021
Subjects: subject: Machine Learning (cs.LG)
subject: Artificial Intelligence (cs.AI)
subject: Neurons and Cognition (q-bio.NC)
subject: Machine Learning (stat.ML)
subject: FOS: Computer and information sciences
subject: FOS: Biological sciences

description: Frequently, population studies feature pyramidally-organized data represented using Hierarchical Bayesian Models (HBM) enriched with plates. These models can become prohibitively large in settings such as neuroimaging, where a sample is composed of a functional MRI signal measured on 300 brain locations, across 4 measurement sessions, and 30 subjects, resulting in around 1 million latent parameters.Such high dimensionality hampers the usage of modern, expressive flow-based techniques.To infer parameter posterior distributions in this challenging class of problems, we designed a novel methodology that automatically produces a variational family dual to a target HBM. This variational family, represented as a neural network, consists in the combination of an attention-based hierarchical encoder feeding summary statistics to a set of normalizing flows. Our automatically-derived neural network exploits exchangeability in the plate-enriched HBM and factorizes its parameter space. The resulting architecture reduces by orders of magnitude its parameterization with respect to that of a typical flow-based representation, while maintaining expressivity.Our method performs inference on the specified HBM in an amortized setup: once trained, it can readily be applied to a new data sample to compute the parameters' full posterior.We demonstrate the capability and scalability of our method on simulated data, as well as a challenging high-dimensional brain parcellation experiment. We also open up several questions that lie at the intersection between normalizing flows, SBI, structured Variational Inference, and inference amortization.
Permanent versus determinant: not via saturations
Creators: name: Bürgisser, Peter
name: Ikenmeyer, Christian
name: Hüttenhain, Jesko
Publisher: name: arXiv
Year: 2015
Subjects: subject: Computational Complexity (cs.CC)
subject: Representation Theory (math.RT)
subject: FOS: Computer and information sciences
subject: FOS: Mathematics
subject: 68Q17, 14L24

description: Let Det_n denote the closure of the GL_{n^2}(C)-orbit of the determinant polynomial det_n with respect to linear substitution. The highest weights (partitions) of irreducible GL_{n^2}(C)-representations occurring in the coordinate ring of Det_n form a finitely generated monoid S(Det_n). We prove that the saturation of S(Det_n) contains all partitions lambda with length at most n and size divisible by n. This implies that representation theoretic obstructions for the permanent versus determinant problem must be holes of the monoid S(Det_n).
description: 12 pages; shortened title, corrected error in proof, added bound on stretching factor, provided explicit examples
Additional file 7 of Large-scale and small-scale population genetic structure of the medically important gastropod species Bulinus truncatus (Gastropoda, Heterobranchia)
Creators: name: Maes, Tim
name: De Corte, Zoë
name: Vangestel, Carl
name: Virgilio, Massimiliano
name: Smitz, Nathalie
name: Djuikwo-Teukeng, Félicité F.
name: Papadaki, Maria Ioanna
name: Huyse, Tine
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 7: Figure S5. Maximum likelihood tree reconstruction based on 6577 SNPs recovered in at least 70% of specimens considered in this study (see text for explanations).
MOESM1 of Predictors of satisfaction after lumbar disc herniation surgery in elderly
Creators: name: Niyaz Hareni
name: Strömqvist, Fredrik
name: Strömqvist, Björn
name: Rosengren, Björn
name: Karlsson, Magnus
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Science Policy

description: Additional file 1 Table S1. Post-hoc analysis, satisfied or uncertain/dissatisfied analyzed between groups with Chi2.
The First Billion Years Project: The escape fraction of ionizing photons in the epoch of reionization
Creators: name: Paardekooper, Jan-Pieter
name: Khochfar, Sadegh
name: Vecchia, Claudio Dalla
Publisher: name: arXiv
Year: 2015
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: Proto-galaxies forming in low-mass dark matter haloes are thought to provide the majority of ionizing photons needed to reionize the Universe, due to their high escape fractions of ionizing photons. We study how the escape fraction in high-redshift galaxies relates to the physical properties of the halo in which the galaxies form, by computing escape fractions in more than 75000 haloes between redshifts 27 and 6 that were extracted from the First Billion Years project, high-resolution cosmological hydrodynamics simulations of galaxy formation. We find that the main constraint on the escape fraction is the gas column density in a radius of 10 pc around the stellar populations, causing a strong mass dependence of the escape fraction. The lower potential well in haloes with virial mass below 1e8 solar mass results in low column densities that can be penetrated by radiation from young stars (age < 5 Myr). In haloes with virial mass above 1e8 solar mass supernova feedback is important, but only 30% of the haloes in this mass range have an escape fraction higher than 1%. We find a large range of escape fractions in haloes with similar properties, caused by different distributions of the dense gas in the halo. This makes it very hard to predict the escape fraction on the basis of halo properties and results in a highly anisotropic escape fraction. The strong mass dependence, the large spread and the large anisotropy of the escape fraction may strongly affect the topology of reionization and is something current models of cosmic reionization should strive to take into account.
description: 21 pages, 17 figures, accepted for publication in MNRAS
Enhancing the Analysis of Software Failures in Cloud Computing Systems with Deep Learning
Creators: name: Cotroneo, Domenico
name: De Simone, Luigi
name: Liguori, Pietro
name: Natella, Roberto
Publisher: name: arXiv
Year: 2021
Subjects: subject: Artificial Intelligence (cs.AI)
subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences

description: Identifying the failure modes of cloud computing systems is a difficult and time-consuming task, due to the growing complexity of such systems, and the large volume and noisiness of failure data. This paper presents a novel approach for analyzing failure data from cloud systems, in order to relieve human analysts from manually fine-tuning the data for feature engineering. The approach leverages Deep Embedded Clustering (DEC), a family of unsupervised clustering algorithms based on deep learning, which uses an autoencoder to optimize data dimensionality and inter-cluster variance. We applied the approach in the context of the OpenStack cloud computing platform, both on the raw failure data and in combination with an anomaly detection pre-processing algorithm. The results show that the performance of the proposed approach, in terms of purity of clusters, is comparable to, or in some cases even better than manually fine-tuned clustering, thus avoiding the need for deep domain knowledge and reducing the effort to perform the analysis. In all cases, the proposed approach provides better performance than unsupervised clustering when no feature engineering is applied to the data. Moreover, the distribution of failure modes from the proposed approach is closer to the actual frequency of the failure modes.
description: Paper accepted to the Journal of Systems and Software on June 28th, 2021
91. In ANCA disease, blockade of certain inflammatory mediators improves kidney disease but worsens lung disease
Creators: name: Peiqi Hu1
name: Xiao1, Hong
name: Yanglin Hu1
name: Shen-Ju Gou1
name: Alba1, Marco
name: Falk1, Ronald
name: Jennette1, Charles
Publisher: name: Zenodo
Year: 2022
Subjects: Vasculitis
ANCA
Abstracts
Giant Cell Arthritis
MPA
GPA
EGPA
Takayasu
IgA vasculitis

description: Background: Kidney disease with glomerulonephritis (GN) and lung disease (LD) with capillaritis/microabscesses/granulomatosis are common components of ANCA disease. Targeted blockade of innate immune system inflammatory mediators has been shown to be effective therapy for ANCA glomerulonephritis (GN). In this study, we used a murine model of MPO-ANCA disease to compare the effects of knockout (KO) of multiple innate immune system components on GN and LD. Methods: Anti-MPO IgG purified from MPO KO mice immunized with murine MPO was injected iv into wild-type C57BL/6j mice (WT B6), and mice with KO of complement factors B (FB), complement factor I (CFI), C5, bradykinin 1 receptor (B1R), LFA-1, Mac-1, or CCR2. Proteinuria, hematuria and leukocyturia were monitored, and mice were sacrificed at day 6 and kidney and lung tissue obtained for pathologic examination. GN was scored based on % glomeruli with crescents, and lungs scored based on microabscess/granuloma formation (0-3+). Results: All WT B6 mice developed GN with crescents, but none developed LD. All mice with KO of any innate immune components tested had prevention or amelioration of GN. However, all mice with KO of Mac-1, CCR2 or CFI developed multiple small lung microabscesses/granulomas histologically identical to human ANCA lung disease. The Figure shows % glomeruli with crescents (left) and semiquantitative score of lung lesions (right) with a central core of neutrophils (PMNs) surrounded by a thin rim of macrophages (MPs). Conclusions: In a preclinical model of ANCA disease, blockade of some but not all components of innate immunity prevents or reduces GN but facilitates LD. We hypothesize that reduced MP recruitment to early sites of lung injury caused by ANCA-activated PMNs allows initiation of microabscesses that are the precursors to lung granulomatosis. Blockade of mediators that sufficiently prevent early lung injury by PMNs do not result in LD even if macrophages are impaired. These observations raise the possibility that some treatment strategies that are effective for ANCA GN may exacerbate ANCA LD. Disclosures: PH, HX and JCJ disclose research funding from NIH NIDDK, ChemoCentryx and Alexion. JCJ discloses consultant services for BioCryst Pharmaceuticals and ChemoCentryx. All other authors have no disclosures. Figure 1.
Implementation and effectiveness of telemedicine-based interventions for the treatment of diabetes in low- and middle-income countries: a systematic review and meta-analysis
Creators: name: Correia, Jorge
name: Meraj, Hafsa
name: Teoh, Soo Huat
name: Waqas, Ahmed
name: Maaz Ahmad
name: Lapão, Luis Velez
name: Zoltan Pataky
name: Golay, Alain
Publisher: name: figshare
Year: 2020
Subjects: subject: 80702 Health Informatics
subject: FOS: Media and communications
subject: Medicine
subject: 111799 Public Health and Health Services not elsewhere classified
subject: FOS: Health sciences

description: Online supplementary data
Calabi-Yau Threefolds Fibred by Kummer Surfaces Associated to Products of Elliptic Curves
Creators: name: Doran, Charles F.
name: Harder, Andrew
name: Novoseltsev, Andrey Y.
name: Thompson, Alan
Publisher: name: arXiv
Year: 2015
Subjects: subject: Algebraic Geometry (math.AG)
subject: FOS: Mathematics
subject: 14D06, 14J28, 14J30, 14J32

description: We study threefolds fibred by Kummer surfaces associated to products of elliptic curves, that arise as resolved quotients of threefolds fibred by certain lattice polarized K3 surfaces under a fibrewise Nikulin involution. We present a general construction for such surfaces, before specializing our results to study Calabi-Yau threefolds arising as resolved quotients of threefolds fibred by mirror quartic K3 surfaces. Finally, we give some geometric properties of the Calabi-Yau threefolds that we have constructed, including expressions for Hodge numbers.
description: v2: Minor corrections, references updated. Final version, accepted for publication in String-Math 2014, forthcoming volume in the Proceedings of Symposia in Pure Mathematics series
Proposal for measuring out-of-time-ordered correlators at finite temperature with coupled spin chains
Creators: name: Sundar, Bhuvanesh
name: Elben, Andreas
name: Joshi, Lata Kh
name: Zache, Torsten V.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Quantum Physics (quant-ph)
subject: Quantum Gases (cond-mat.quant-gas)
subject: Chaotic Dynamics (nlin.CD)
subject: FOS: Physical sciences

description: Information scrambling, which is the spread of local information through a system's many-body degrees of freedom, is an intrinsic feature of many-body dynamics. In quantum systems, the out-of-time-ordered correlator (OTOC) quantifies information scrambling. Motivated by experiments that have measured the OTOC at infinite temperature and a theory proposal to measure the OTOC at finite temperature using the thermofield double state, we describe a protocol to measure the OTOC in a finite temperature spin chain that is realized approximately as one half of the ground state of two moderately-sized coupled spin chains. We consider a spin Hamiltonian with particle-hole symmetry, for which we show that the OTOC can be measured without needing sign-reversal of the Hamiltonian. We describe a protocol to mitigate errors in the estimated OTOC, arising from the finite approximation of the system to the thermofield double state. We show that our protocol is also robust to main sources of decoherence in experiments.
description: 19 pages, 7 figures + References + Appendix; Added Figures 7, A2, D1-D4
Additional file 1 of Comprehensive longitudinal study of epigenetic mutations in aging
Creators: name: Yunzhang Wang
name: Karlsson, Robert
name: Jylhävä, Juulia
name: Hedman, Åsa
name: Almqvist, Catarina
name: Karlsson, Ida
name: Pedersen, Nancy
name: Almgren, Malin
name: Hägg, Sara
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Neuroscience
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Developmental Biology
subject: Cancer

description: Additional file 1: Figure S1. The distribution of number of epigenetic mutations. A) The number of epigenetic mutations showed a right-skewed distribution. B) After log-transformation, the distribution is close to normal distribution. Figure S2. The examples of epigenetic mutations in two directions. The distribution of methylation levels of A) cg02018277 (higily methylated outlier) and B) cg15057747 (lowly methylation outlier). The methylation levels of epigenetic mutations were greatly different to normal samples, exceeding three times of inter quantile range of the first or third quantile. The samples in red had epigenetic mutations and their methylation levels greatly differed to normal samples in blue. Figure S3. The number of epigenetic mutations shared between twins in association with age and twin zygosity. The number of shared epigenetic mutations significantly increased with age for A) all CpGs and B) non-meQTL CpGs. In both cases, monozygotic twins (MZ) shared more epigenetic mutations than dizygotic twins (DZ), indicating genetic effect. C) But for meQTL CpGs, epigenetic mutations shared by twins was not associated with age, which suggested that meQTLs were stable over time. None of the three regressions showed age-zygosity interaction, indicating that genetic does not influence the rate of age-associated increase of epigenetic mutations. Table S1. The association of epigenetic mutations with age and covariates from mixed model using individuals with four or more measures. Table S2. The survival analysis of epigenetic mutations in association with cancer incidence using a Cox proportional hazard model. For all epigenetic mutations, frequent HMOs and frequent LMOs, the hazard ratios represent the ratio of an increase of 10 epigenetic mutations. Table S3. The mean expression levels of gene PRDM7 in tumor and normal adjacent tissues for different cancer types. A t-test was used to compare the mean expression levels in tumor and normal adjacent tissues. The gene expression data were downloaded from TCGA through Wanderer.
CHARMM forcefield parameters for C6-FA and C6-LYSO
Creators: name: Lorenz, Chris
name: Pink, Demi
Publisher: name: Zenodo
Year: 2020
Subjects: molecular dynamics
CHARMM forcefield
fatty acid
lyso-PC

description: Forcefield parameters that were generated for the CGENFF server for the products of the lipid digestion of a PC phospholipid with two six hydrocarbon tails: a 6 carbon fatty acid and a 6 carbon lyso-PC lipid.
Gating orbital memory with an atomic donor
Creators: name: Knol, Elze J.
name: Kiraly, Brian
name: Rudenko, Alexander N.
name: van Weerdenburg, Werner M. J.
name: Katsnelson, Mikhail I.
name: Khajetoorians, Alexander A.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Orbital memory is defined by two stable valencies that can be electrically switched and read-out. To explore the influence of an electric field on orbital memory, we studied the distance-dependent influence of an atomic Cu donor on the state favorability of an individual Co atom on black phosphorus. Using low temperature scanning tunneling microscopy/spectroscopy, we characterized the electronic properties of individual Cu donors, corroborating this behavior with ab initio calculations based on density functional theory. We studied the influence of an individual donor on the charging energy and stochastic behavior of an individual Co atom. We found a strong impact on the state favorability in the stochastic limit. These findings provide quantitative information about the influence of local electric fields on atomic orbital memory.
Comment on some articles regarding magnetization switching and computing using strain-mediated multiferroic composites
Creators: name: Roy, Kuntal
Publisher: name: arXiv
Year: 2015
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: This posting addresses the incorrect information (about my papers) and analysis provided in the following articles: arXiv:1405.4000/Nanotechnology 26, 245202 (2015), arXiv:1412.7765/Scientific Reports 4, 7553 (2014), Appl. Phys. Lett. 105, 176101 (2014), arXiv:1407.2140/Appl. Phys. Lett. 105, 072408 (2014), arXiv:1402.5356/Appl. Phys. Lett. 104, 232403 (2014), Appl. Phys. Lett. 103, 232401 (2013), arXiv:1005.5358/Appl. Phys. Lett. 97, 173105 (2010)
MOESM1 of Comprehensive longitudinal study of epigenetic mutations in aging
Creators: name: Yunzhang Wang
name: Karlsson, Robert
name: Jylhävä, Juulia
name: Hedman, Åsa
name: Almqvist, Catarina
name: Karlsson, Ida
name: Pedersen, Nancy
name: Almgren, Malin
name: Hägg, Sara
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Neuroscience
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Developmental Biology
subject: Cancer

description: Additional file 1: Figure S1. The distribution of number of epigenetic mutations. A) The number of epigenetic mutations showed a right-skewed distribution. B) After log-transformation, the distribution is close to normal distribution. Figure S2. The examples of epigenetic mutations in two directions. The distribution of methylation levels of A) cg02018277 (higily methylated outlier) and B) cg15057747 (lowly methylation outlier). The methylation levels of epigenetic mutations were greatly different to normal samples, exceeding three times of inter quantile range of the first or third quantile. The samples in red had epigenetic mutations and their methylation levels greatly differed to normal samples in blue. Figure S3. The number of epigenetic mutations shared between twins in association with age and twin zygosity. The number of shared epigenetic mutations significantly increased with age for A) all CpGs and B) non-meQTL CpGs. In both cases, monozygotic twins (MZ) shared more epigenetic mutations than dizygotic twins (DZ), indicating genetic effect. C) But for meQTL CpGs, epigenetic mutations shared by twins was not associated with age, which suggested that meQTLs were stable over time. None of the three regressions showed age-zygosity interaction, indicating that genetic does not influence the rate of age-associated increase of epigenetic mutations. Table S1. The association of epigenetic mutations with age and covariates from mixed model using individuals with four or more measures. Table S2. The survival analysis of epigenetic mutations in association with cancer incidence using a Cox proportional hazard model. For all epigenetic mutations, frequent HMOs and frequent LMOs, the hazard ratios represent the ratio of an increase of 10 epigenetic mutations. Table S3. The mean expression levels of gene PRDM7 in tumor and normal adjacent tissues for different cancer types. A t-test was used to compare the mean expression levels in tumor and normal adjacent tissues. The gene expression data were downloaded from TCGA through Wanderer.
87. Siglec-9 engagement attenuates ANCA-mediated neutrophil activation
Creators: name: Dana Kidder1, 2
name: Nellany3, Kristine
name: Brown4, Paul
name: De Bari1, Cosimo
name: Walls1, Catriona
Publisher: name: Zenodo
Year: 2022
Subjects: Vasculitis
ANCA
Abstracts
Giant Cell Arthritis
MPA
GPA
EGPA
Takayasu
IgA vasculitis

description: Background: Sialic acid-binding Ig-like lectin 9 (Siglec-9) is constitutively expressed on neutrophils and monocytes. The expression and potential role of siglec-9 in ANCA-associated vasculitis (AAV) is yet to be determined. We aimed to examine the expression of siglec-9 in patients with AAV and explore the impact of siglec-9 engagement on ANCA-mediated neutrophil responses in vitro. Methods: Leukocytes and serum were isolated from peripheral venous blood of AAV patients and siglec-9 expression was measured by flow cytometry and ELISA, respectively. Immunohistochemistry was performed on kidney biopsies of AAV patients with AAGN and stained for siglec-9, recombinant siglec-9 Fc chimera and leukocyte markers. Functional studies were done using healthy donor neutrophils in the presence of ANCA and siglec-9 mAb to investigate its role in ANCA-induced ROS production and neutrophil extracellular traps (NETs) formation. Results: We found increased serum siglec-9 expression in active AAV compared to remission AAV and a positive correlation with disease activity. Neutrophils and intermediate (CD14+/CD16+) monocytes from PR3-AAV patients displayed higher siglec-9 expression compared to MPO-AAV patients. Siglec-9 expression in AAGN was restricted to areas of active inflammation. Using recombinant siglec-9 Fc chimera protein in immunohistochemistry experiments, we identified glomerular endothelial cells to express siglec-9 ligands. ANCA stimulation of primed neutrophils was associated with siglec-9 shedding. Siglec-9 engagement using anti-siglec-9 mAb was associated with reduction in ROS production and NETs formation compared to isotype control. Conclusion: Siglec-9 expression correlates with disease activity in AAV. Surface expression of siglec-9 on key cellular players in AAV pathogenesis, is biased towards PR3-AAV. The biologic relevance of this finding is unclear. Our in vitro experiments support a potential role for siglec-9 in attenuating ANCA-mediated neutrophil responses. Further work is required to determine the nature of siglec-9 ligand on endothelial cells and relevance of our findings on neutrophil-endothelial interactions in vivo. Disclosures: None
Решение уравнений Максвелла для конденсатора в цепи постоянного тока. Природа потенциальной энергии конденсатора.
Creators: name: Khmelnik, Solomon
Publisher: name: Zenodo
Year: 2020

description: Ниже показано, что в конденсаторе, который включен в цепь постоянного тока, существует электромагнитное поле и существуют потоки электромагнитной энергии. Показано также теоретически и экспериментально, что поток электромагнитной энергии продолжает циркулировать и после отключения от источника постоянного напряжения. Он остается даже тогда, когда удалены металлические обкладки, т.е. энергия конденсатора хранится в диэлектрике конденсатора даже в отсутствии зарядов. Та энергия, которая содержится в конденсаторе и которую принято считать электрической потенциальной энергией, является электромагнитной энергией, хранящейся в конденсаторе в виде стационарного потока.
title: The construction of a regulatory risk device: an examination of the historical emergence and performative effects of the Basel Committee on Banking Supervision’s market risk framework
Creators: name: Claeys, Irene
Publisher: name: London School of Economics and Political Science (LSE)
Year: 2021

description: The thesis examines the historical developments in the conceptualisation of ‘market risk’ within the BCBS’ Minimum Capital Requirements. It traces the ideas and practices around market risk management, from within the growth of modern finance theory between the 1920-70s, to their assimilation and reformulations in Basel’s Market Risk Amendment, the Basel 2.5 Agreement and the Fundamental Review of the Trading Book. The central argument in the thesis is that the BCBS’ market risk framework does not primarily embody a set of objective measurement instruments, but rather constitutes a strategic device, understood as a material and discursive assemblage involved in constructing the financial markets. This means that the framework is both contingently constructed and capable of producing performative effects, in line with the theoretical commitments and objectives embedded within it. Moreover, in addition to treating Basel’s market risk framework as a strategic device, the thesis argues that it can also be reconceived as a technology of power. The framework’s interventions have, unsurprisingly, predominantly supported the commercial interests of the major trading banks. However, this is not a unidirectional story: despite the many ways in which Basel’s risk framework can be instrumentalised by powerful commercial actors, the thesis also demonstrates that it has the potential to be leveraged by a variety of actors to different and competing ends. Moreover, it is capable of reflexively reshaping the entities involved in its creation and ongoing reformulations. Thus, the thesis reveals the mutually constitutive nature between Basel’s market risk framework and the various banks and regulatory entities which brought it into being. In doing so, the thesis further shows that focusing on these relationships helps to uncover new explanations of contemporary banking developments, and suggests that leveraging the mechanics of Basel’s market risk framework might provide productive channels for interrupting these developments.
Finite anticanonical transformations in field-antifield formalism
Creators: name: Batalin, Igor A.
name: Lavrov, Peter M.
name: Tyutin, Igor V.
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We study the role of arbitrary (finite) anticanonical transformations in the field-antifield formalism, and the gauge-fixing procedure based on the use of these transformations. The properties of the generating functionals of the Green functions subjected to finite anticanonical transformations are considered.
description: 31 pages, no figures, typos corrected, published version
Experimental Tasks (Psychopy Files)
Creators: name: Beauducel, André
name: Härpfer, Kai
name: Osinsky, Roman
name: Mueller, Erik
name: Short, Cassie
name: Munk, Aisha
name: Wacker, Jan
name: Juergen Hennig
name: Stahl, Jutta
name: Rodrigues, Johannes
name: Scheffel, Christoph
name: Porth, Elisa
name: Lange, Leon
name: Carsten, Hannes Per
name: Paul, Katharina
name: Hewig, Johannes
name: Kührt, Corinna
name: Hildebrandt, Andrea
name: Rommerskirchen, Lena
name: Strobel, Alexander
name: Riesel, Anja
Publisher: name: OSF
Year: 2021
Subjects: Experimental Procedure
Experimental Task
Flanker
GoNoGo
Psychopy
Ultimatum Game

description: All Psychopy Files to run the experimental paradigms
Negative magnetic eddy diffusivities from test-field method and multiscale stability theory
Creators: name: Andrievsky, Alexander
name: Brandenburg, Axel
name: Noullez, Alain
name: Zheligovsky, Vladislav
Publisher: name: arXiv
Year: 2015
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Chaotic Dynamics (nlin.CD)
subject: FOS: Physical sciences

description: The generation of large-scale magnetic field in the kinematic regime in the absence of an alpha-effect is investigated by following two different approaches, namely the test-field method and multiscale stability theory relying on the homogenisation technique. We show analytically that the former, applied for the evaluation of magnetic eddy diffusivities, yields results that fully agree with the latter. Our computations of the magnetic eddy diffusivity tensor for the specific instances of the parity-invariant flow-IV of G.O. Roberts and the modified Taylor-Green flow in a suitable range of parameter values confirm the findings of previous studies, and also explain some of their apparent contradictions. The two flows have large symmetry groups; this is used to considerably simplify the eddy diffusivity tensor. Finally, a new analytic result is presented: upon expressing the eddy diffusivity tensor in terms of solutions to auxiliary problems for the adjoint operator, we derive relations between magnetic eddy diffusivity tensors that arise for opposite small-scale flows v(x) and -v(x).
description: 29 pp., 19 figures, 42 references
84. Genetic variation in efficacy and toxicity of cyclophosphamide in the treatment of ANCA vasculitis
Creators: name: Preciado1, Francisco Gomez
name: Calatroni2, Marta
name: Lastrucci3, Vieri
name: Buscemi3, Primo
name: Alberici4, Federico
name: Murray5, Susan L
name: Little6, Mark A.
name: Augusto Vaglio3, 7
Publisher: name: Zenodo
Year: 2022
Subjects: Vasculitis
ANCA
Abstracts
Giant Cell Arthritis
MPA
GPA
EGPA
Takayasu
IgA vasculitis

description: Background: Cyclophosphamide remains as the key immunosuppressive drugs for induction treatment of ANCA-associated vasculitis (AAV). It can produce serious side events such as myelotoxicity, infections and malignancies. To advance the mission of personalised medicine, we sought to identify genetic polymorphism associated with occurrence of adverse events and/or reduced efficacy. Methods: A cohort of 402 patients with diagnosis of AAV from two centres who had been treated with at least 2g of cyclophosphamide was recruited. We investigated the following SNPs in gene regions encoding proteins related to cyclophosphamide metabolism: rs2740574, rs3745274, rs2279343, rs8192709, rs1057910, rs4244285 and rs776746. Their demographic characteristics, disease course and adverse effects were recorded. Results: Different alleles were recorded for the population, with the distribution seen in the graph bellow. The specific association between these SNPs and outcomes is currently under analysis. Conclusions: This study may help guide the election of treatment according to patients SNPs. Disclosures: None. Figure 1.
Cognitive Control deficits associated with early childhood trauma – an EEG study
Creators: name: Riesel, Anja
name: Mueller, Erik
name: Paul, Katharina
name: Mueller, Sven C
name: Kuhnke, Alisha Penelope
name: Wacker, Jan
name: Hildebrandt, Andrea
name: Kührt, Corinna
Publisher: name: OSF Registries
Year: 2023
Subjects: subject: Clinical Psychology
subject: Health Psychology
subject: Biological Psychology
subject: Cognitive Psychology
subject: Social and Behavioral Sciences
subject: Psychology
subject: FOS: Psychology

description: In the attached document the research background, the hypotheses, applied operationalizations as well as the data preprocessing and analysis strategy is outlined. Childhood trauma and negative childhood experiences have been linked to the development of mental disorders, as well as adverse effects on the developing brain and its neural networks and functions, such as inhibitory control. Findings from EEG studies on this topic have been inconsistent. To investigate this issue, we will utilize the CoScience Project to conduct EEG research on over 700 young adults from a non-clinical sample, providing a unique opportunity to distinguish between various inhibition processes.
Control of coupled oscillator networks with application to microgrid technologies
Creators: name: Skardal, Per Sebastian
name: Arenas, Alex
Publisher: name: arXiv
Year: 2015
Subjects: subject: Adaptation and Self-Organizing Systems (nlin.AO)
subject: Mathematical Physics (math-ph)
subject: Dynamical Systems (math.DS)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: The control of complex systems and network-coupled dynamical systems is a topic of vital theoretical importance in mathematics and physics with a wide range of applications in engineering and various other sciences. Motivated by recent research into smart grid technologies we study here control of synchronization and consider the important case of networks of coupled phase oscillators with nonlinear interactions--a paradigmatic example that has guided our understanding of self-organization for decades. We develop a method for control based on identifying and stabilizing problematic oscillators, resulting in a stable spectrum of eigenvalues, and in turn a linearly stable synchronized state. Interestingly, the amount of control, i.e., number of oscillators, required to stabilize the network is primarily dictated by the coupling strength, dynamical heterogeneity, and mean degree of the network, and depends little on the structural heterogeneity of the network itself.
Orientational order of motile defects in active nematics
Creators: name: DeCamp, Stephen J.
name: Redner, Gabriel S.
name: Baskaran, Aparna
name: Hagan, Michael F.
name: Dogic, Zvonimir
Publisher: name: arXiv
Year: 2015
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: The study of liquid crystals at equilibrium has led to fundamental insights into the nature of ordered materials, as well as to practical applications such as display technologies. Active nematics are a fundamentally different class of liquid crystals, driven away from equilibrium by the autonomous motion of their constituent rod-like particles. This internally generated activity powers the continuous creation and annihilation of topological defects, which leads to complex streaming flows whose chaotic dynamics appear to destroy long-range order. Here, we study these dynamics in experimental and computational realizations of active nematics. By tracking thousands of defects over centimetre-scale distances in microtubule-based active nematics, we identify a non-equilibrium phase characterized by system-spanning orientational order of defects. This emergent order persists over hours despite defect lifetimes of only seconds. Similar dynamical structures are observed in coarse-grained simulations, suggesting that defect-ordered phases are a generic feature of active nematics.
description: 7 pages, 4 figures
Probing $WWγ$ coupling through $e^- γ\rightarrow ν_e W^-$ at ILC
Creators: name: Kumar, Satendra
name: Poulose, Poulose
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The anomalous $WWγ$ coupling is probed through $eγ\rightarrow νW$ at the ILC. With a spectacular single lepton final state, this process is well suited to study the above coupling. Cross section measurements can probe $δκ_γ$ to about $\pm 0.004$ for a luminosity of 100 fb$^{-1}$ at $500$ GeV center-of-mass energy with unpolarized electron beam. The limits derivable on $λ_γ$ from the total cross section are comparatively more relaxed. Exploiting the energy-angle double distribution of the secondary muons, kinematic regions sensitive to these couplings are identified. The derivable limit on $λ_γ< 0$ could be improved to a few per-mil, focusing on such regions. More importantly, the angular distributions at fixed energy values, and energy distribution at fixed angles present very interesting possibility of distinguishing the case of $λ_γ<0$ and $λ_γ\ge 0$.
description: 16 page, 11 figure, pdflatex (revtex4). previous conf version: arXiv:1103.4036
The contribution of the Islamic and Social banks to the concept of sustainable development
Creators: name: Aboul-Dahab, Karim Mohamed
Publisher: name: European Journal of Islamic Finance
Year: 2023

description: Islamic banking is a financial structure based on Islamic law (Sharia law) and driven by Islamic economics. The Islamic financial system, which offers alternative funding sources, is supported by four major pillars: the Islamic banking system, the Islamic money market, Islamic insurance, or takaful, and the Islamic capital market. On the other hand, social banks are founded on using financial services to “create a positive impact on the society and the environment; respectively, customers see Islamic banks, depositors, and the broader community as having a social as well as an economic role. In this respect, the main pillars of the United Nations Sustainable Development Goals (SDGs) include ending poverty and promoting sustainable development. This paper will investigate the similarities between Islamic and social banks. Furthermore, this research will highlight the contribution of the two banks toward achieving the UN Sustainable Development Goals (SDGs).
description: European Journal of Islamic Finance, Vol. 10 No. 2 (2023)
Instruments of Injustice: The Emergence of Mandatory Sentencing in Victoria
Creators: name: Stanton, Michael
Publisher: name: Monash University
Year: 2023
Subjects: Criminal law
Courts and sentencing
Human rights and justice issues (excl. law)

description: Over the past decade, sentencing law in the State of Victoria has been transformed. Through legislation enacted by both Coalition and Labor governments, and notwithstanding strong opposition from the legal profession, a mechanism for presumptive sentencing was introduced, expanded, and incrementally hardened. New offences attracting presumptive sentences have been created, exceptions have been made more difficult to satisfy, and for some offences imprisonment is now mandatory. Over this period the courts have wrestled with the correct methodological approach to the new regime and its consequences. This article sets out the pitfalls of presumptive and mandatory sentencing, examines the legislative reforms and emerging jurisprudence, and considers how the sentencing discretion of judicial officers has been systematically eroded and then removed.
Physics-inspired architecture for neural network modeling of forces and torques in particle-laden flows
Creators: name: Seyed-Ahmadi, Arman
name: Wachs, Anthony
Publisher: name: arXiv
Year: 2021
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We present a physics-inspired neural network (PINN) model for direct prediction of hydrodynamic forces and torques experienced by individual particles in stationary beds of randomly distributed spheres. In line with our findings, it has recently been demonstrated that conventional fully connected neural networks (FCNN) are incapable of making accurate predictions of force variations in a static bed of spheres. The problem arises due to the large number of input variables (i.e., the locations of individual neighboring particles) leading to an overwhelmingly large number of training parameters in a fully connected architecture. Given the typically limited size of training datasets that can be generated by particle-resolved simulations, the NN becomes prone to missing true patterns in the data, ultimately leading to overfitting. Inspired by our observations in developing the microstructure-informed probability-driven point-particle (MPP) model, we incorporate two main features in the architecture of the present PINN model: 1) superposition of pairwise hydrodynamic interactions between particles, and 2) sharing training parameters between NN blocks that model neighbor influences. These strategies helps to substantially reduce the number of free parameters and thereby control the model complexity without compromising accuracy. We demonstrate that direct force and torque prediction using NNs is indeed possible, provided that the model structure corresponds to the underlying physics of the problem. For a Reynolds number range of 2 <= Re <= 150 and solid volume fractions of 0.1 <= phi <= 0.4, the PINN's predictions prove to be as accurate as those of other microstructure-informed models.
description: 19 pages, 7 figures
Vase de sticlă din aşezarea geto-dacică de la Poiana (jud. Galaţi)
Creators: name: Teodor, Silvia
name: Chiriac, Costel
Publisher: name: Arheologia Moldovei
Year: 2022

description: Includes a summary in English translated by Adrian Poruciuc.
description: Arheologia Moldovei, Bd. 17 (1994): Arheologia Moldovei