cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Probing photoisomerization processes by means of multi-dimensional electronic spectroscopy: The multi-state quantum hierarchical Fokker-Planck equation approach
Creators: name: Ikeda, Tatsushi
name: Tanimura, Yoshitaka
Publisher: name: arXiv
Year: 2017
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: FOS: Physical sciences

description: Photoisomerization in a system with multiple electronic states and anharmonic potential surfaces in a dissipative environment is investigated using a rigorous numerical method employing quantum hierarchical Fokker-Planck equations (QHFPE) for multi-state systems. We have developed a computer code incorporating QHFPE for general-purpose computing on graphics processing units (GPGPU) that can treat multi-state systems in phase space with any strength of diabatic coupling of electronic states under non-perturbative and non-Markovian system-bath interactions. This approach facilitates the calculation of both linear and nonlinear spectra. We computed Wigner distributions for excited, ground, and coherent states. We then investigated excited state dynamics involving transitions among these states by analyzing linear absorption and transient absorption processes and multi-dimensional electronic spectra with various values of the heat bath parameters. Our results provide predictions for spectroscopic measurements of photoisomerization dynamics. The motion of excitation and ground state wavepackets and their coherence involved in the photoisomerization were observed as the profiles of positive and negative peaks of two-dimensional spectra.
description: 12 pages, 7 figures
Additional file 2: Table S2. of Impact of question order on prioritisation of outcomes in the development of a core outcome set: a randomised controlled trial
Creators: name: Brookes, Sara
name: Chalmers, Katy
name: Avery, Kerry
name: Coulman, Karen
name: Blazeby, Jane
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: Developmental Biology
subject: Science Policy

description: Surgeons: percentage of items rated essential within the non-comparative and comparative context (a contrast effect). (DOCX 13Â kb)
Optimal modularity and memory capacity of neural reservoirs
Creators: name: Rodriguez, Nathaniel
name: Izquierdo, Eduardo
name: Ahn, Yong-Yeol
Publisher: name: arXiv
Year: 2017
Subjects: subject: Neural and Evolutionary Computing (cs.NE)
subject: Artificial Intelligence (cs.AI)
subject: Biological Physics (physics.bio-ph)
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences

description: The neural network is a powerful computing framework that has been exploited by biological evolution and by humans for solving diverse problems. Although the computational capabilities of neural networks are determined by their structure, the current understanding of the relationships between a neural network's architecture and function is still primitive. Here we reveal that neural network's modular architecture plays a vital role in determining the neural dynamics and memory performance of the network of threshold neurons. In particular, we demonstrate that there exists an optimal modularity for memory performance, where a balance between local cohesion and global connectivity is established, allowing optimally modular networks to remember longer. Our results suggest that insights from dynamical analysis of neural networks and information spreading processes can be leveraged to better design neural networks and may shed light on the brain's modular organization.
A General Proof of the Quantum Null Energy Condition
Creators: name: Balakrishnan, Srivatsan
name: Faulkner, Thomas
name: Khandker, Zuhair U.
name: Wang, Huajia
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We prove a conjectured lower bound on $\left< T_{--}(x) \right>_ψ$ in any state $ψ$ of a relativistic QFT dubbed the Quantum Null Energy Condition (QNEC). The bound is given by the second order shape deformation, in the null direction, of the geometric entanglement entropy of an entangling cut passing through $x$. Our proof involves a combination of the two independent methods that were used recently to prove the weaker Averaged Null Energy Condition (ANEC). In particular the properties of modular Hamiltonians under shape deformations for the state $ψ$ play an important role, as do causality considerations. We study the two point function of a "probe" operator $\mathcal{O}$ in the state $ψ$ and use a lightcone limit to evaluate this correlator. Instead of causality in time we consider \emph{causality in modular time} for the modular evolved probe operators, which we constrain using Tomita-Takesaki theory as well as certain generalizations pertaining to the theory of modular inclusions. The QNEC follows from very similar considerations to the derivation of the chaos bound and the causality sum rule. We use a kind of defect Operator Product Expansion to apply the replica trick to these modular flow computations, and the displacement operator plays an important role. Our approach was inspired by the AdS/CFT proof of the QNEC which follows from properties of the Ryu-Takayanagi (RT) surface near the boundary of AdS, combined with the requirement of entanglement wedge nesting. Our methods were, as such, designed as a precise probe of the RT surface close to the boundary of a putative gravitational/stringy dual of \emph{any} QFT with an interacting UV fixed point. We also prove a higher spin version of the QNEC.
description: v2: substantial changes (mainly in Section 6) in order to fix an error in the original version. References added and typos fixed
Additional file 2: Table S1. of Slowly progressive dementia caused by MAPT R406W mutations: longitudinal report on a new kindred and systematic review
Creators: name: Ygland, Emil
name: Westen, Danielle Van
name: Englund, Elisabet
name: Rademakers, Rosa
name: Wszolek, Zbigniew
name: Nilsson, Karin
name: Nilsson, Christer
name: WaldĂś, Maria Landqvist
name: Alafuzoff, Irina
name: Hansson, Oskar
name: Gustafson, Lars
name: Puschmann, Andreas
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: MAPT haplotype determination based on exome sequencing data. Individuals, residues, and haplotype as indicated. Note that the proband, individual III-2, had Alzheimerâ s disease and was excluded from the study. (PDF 181 kb)
MOESM2 of Antioxidant activity of polyphenolic compounds isolated from ethyl-acetate fraction of Acacia hydaspica R. Parker
Creators: name: Tayyaba Afsar
name: Razak, Suhail
name: Shabbir, Maria
name: Khan, Muhammad
Publisher: name: figshare
Year: 2018
Subjects: subject: Biophysics
subject: Biochemistry
subject: Pharmacology
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: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: Additional file 2: Figure S2. 1H-NMR spectrum of A. hydaspica compounds.
A faster dual algorithm for the Euclidean minimum covering ball problem
Creators: name: Cavaleiro, Marta
name: Alizadeh, Farid
Publisher: name: arXiv
Year: 2017
Subjects: subject: Optimization and Control (math.OC)
subject: FOS: Mathematics
subject: 90C25, 90C46

description: Dearing and Zeck presented a dual algorithm for the problem of the minimum covering ball in $\mathbb{R}^n$. Each iteration of their algorithm has a computational complexity of at least $\mathcal O(n^3)$. In this paper we propose a modification to their algorithm that, together with an implementation that uses updates to the QR factorization of a suitable matrix, achieves a $\mathcal O(n^2)$ iteration.
description: Latex; 12 pages; typo corrected
title: ADCO, Ordre cistercien et abbaye de Cîteaux : comptes pour l'ordre (1337-1347), comptes du boursier (1377-1402) (11 H 1160), f. 00019
Creators: name: de la Côte-d'Or, Archives départementales
name: Petot, Frédérique
name: Projet CBMA
name: CBMA/CG21/F.PETOT/2017
name: Petot, Frédéric
name: Archives Départementales De La Côte-D'Or
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: comptes

description: Ordre cistercien et abbaye de Cîteaux : comptes pour l'ordre (1337-1347), comptes du boursier (1377-1402), Archives départementales de la Côte-d'Or, (11 H 1160). Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Ordre cistercien et abbaye de Cîteaux : comptes pour l'ordre (1337-1347), comptes du boursier (1377-1402), Archives départementales de la Côte-d'Or, (11 H 1160), f. 00019, in Projet CBMA - Corpus Burgundiae Medii Aevi \[Ressource en ligne\], https:// manuscrits.cbma-project.eu/
description: Provenance: https://www.geonames.org/3024876
description: Provenance: http://www.idref.fr/030974844/id
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb12228351v
description: Provenance: abbaye de Cîteaux
description: Provenance: http://www.wikidata.org/entity/Q843261
Molecular crystals and computational exploration of imines as drugs with reference to SARS-CoV-2 viral proteins
Creators: name: Singh, Simranjeet
name: Choudhary, Mukesh
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology

description: Three Imines (H2L1-H2L3) were designed, synthesized, and examined the molecular docking with SARS-CoV-2 Mpro (PDB ID: 6LU7 & 7LKD). The molecular docking results reveals that the imines (H2L1-H2L3) with 6LU7 protein of SARS-CoV-2 virus exhibited the binding affinity (ΔG) of −6.0, −6.4, and −6.8 kcal/mol with good inhibition constant (Ki) of 4.113, 4.237, and 4.239 µM, respectively. The docking results of the imines (H2L1-H2L3) with 7LKD also resulted binding affinity (ΔG) of −7.3, −7.8, and −7.5 kcal/mol with good inhibition constant (Ki) of 4.459, 4.897, and 5.638 µM, respectively. The molecular docking analysis predicted that the imines (H2L1-H2L3) may be used as anti-SARS-CoV-2 virus.
Additional file 1 of Productivity in relation to organization of a surgical department: a retrospective observational study
Creators: name: Eriksson, Johan
name: Fowler, Philip
name: Appelblad, Micael
name: Lindholm, Lena
name: Sund, Malin
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Biotechnology
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1: Figure S1. Patient diagnosis and departmental selection process. The process for the patients from suspicion through diagnosis and up to time of surgery.
Degenerations of $\mathbf{C}^n$ and Calabi-Yau metrics
Creators: name: Székelyhidi, Gábor
Publisher: name: arXiv
Year: 2017
Subjects: subject: Differential Geometry (math.DG)
subject: FOS: Mathematics
subject: 53C25

description: We construct infinitely many complete Calabi-Yau metrics on $\mathbf{C}^n$ for $n \geq 3$, with maximal volume growth, and singular tangent cones at infinity. In addition we construct Calabi-Yau metrics in neighborhoods of certain isolated singularities whose tangent cones have singular cross section, generalizing work of Hein-Naber.
description: 38 pages, added more details and made corrections
Additional file 1: Table S1. of Impact of question order on prioritisation of outcomes in the development of a core outcome set: a randomised controlled trial
Creators: name: Brookes, Sara
name: Chalmers, Katy
name: Avery, Kerry
name: Coulman, Karen
name: Blazeby, Jane
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology

description: Nurses: percentage of items rated essential within the non-comparative and comparative context (a consistency effect). (DOCX 13Â kb)
Gremlin is a potential target for posterior capsular opacification
Creators: name: Ma, Bo
name: Jing, Ruihua
name: Liu, Jie
name: Qi, Tiantian
name: Pei, Cheng
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biochemistry
subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences

description: Objective: The present study was conducted to determine the role of gremlin during the development of posterior capsular opacification (PCO) via in vitro and in vivo experiments. Methods: The activation, roles and relationships of the BMPs/Smad1/5, MAPK, FAK and AKT signaling pathways in human lens epithelial cells (HLECs) after gremlin induction were detected by western blotting and real-time PCR. Wound-healing, transwell, capsular bag models and rat PCO models assays were used to test the effects of gremlin on HLECs’ migration, proliferation, EMT-specific protein α-smooth muscle actin（α-SMA）and development of PCO in rats. Results: Our data showed that knockdown of the gremlin inhibited the development of PCO and reduced expression of α-SMA in rats. While gremlin did not alter the migration of HLECs, it increased the expression of p-ERK and p-AKT. Knockout of Smad2 or Smad3 inhibited the expression of p-ERK and p-AKT proteins induced by gremlin. Gremlin also reduced BMP4-induced expression of the p-Smad1/5 protein. Finally, knockout of Smad1/5 increased gremlin-induced expression of α-SMA, fibronectin and type I collagen (COL-1) in HLECs. Conclusion: These results suggested that gremlin contributed to the development of PCO by promoting LEC proliferation, activation of TGF-β/Smad, ERK and AKT signaling and inhibition of BMPs/Smad1/5 signaling. Furthermore, inhibiting gremlin effectively impaired both PCO development in rats and EMT in the lens capsule. Thus, our data suggest that gremlin might be a potential target for PCO.
Perceptual Adversarial Networks for Image-to-Image Transformation
Creators: name: Wang, Chaoyue
name: Xu, Chang
name: Wang, Chaohui
name: Tao, Dacheng
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: FOS: Computer and information sciences

description: In this paper, we propose a principled Perceptual Adversarial Networks (PAN) for image-to-image transformation tasks. Unlike existing application-specific algorithms, PAN provides a generic framework of learning mapping relationship between paired images (Fig. 1), such as mapping a rainy image to its de-rained counterpart, object edges to its photo, semantic labels to a scenes image, etc. The proposed PAN consists of two feed-forward convolutional neural networks (CNNs), the image transformation network T and the discriminative network D. Through combining the generative adversarial loss and the proposed perceptual adversarial loss, these two networks can be trained alternately to solve image-to-image transformation tasks. Among them, the hidden layers and output of the discriminative network D are upgraded to continually and automatically discover the discrepancy between the transformed image and the corresponding ground-truth. Simultaneously, the image transformation network T is trained to minimize the discrepancy explored by the discriminative network D. Through the adversarial training process, the image transformation network T will continually narrow the gap between transformed images and ground-truth images. Experiments evaluated on several image-to-image transformation tasks (e.g., image de-raining, image inpainting, etc.) show that the proposed PAN outperforms many related state-of-the-art methods.
MOESM5 of Optimizing anaerobic growth rate and fermentation kinetics in Saccharomyces cerevisiae strains expressing Calvin-cycle enzymes for improved ethanol yield
Creators: name: Papapetridis, Ioannis
name: Goudriaan, Maaike
name: MarĂ­A VĂĄzquez Vitali
name: Keijzer, Nikita
name: Broek, Marcel
name: Maris, Antonius
name: Pronk, Jack
Publisher: name: figshare
Year: 2018
Subjects: subject: Biophysics
subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Biotechnology
subject: Evolutionary Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Additional file 5. Sequence coverage plots comparing the genome of RuBisCO/PRK-expressing strain IMX774 to a published genome of CEN.PK113-7D [30], generated using BWA to map the sequence reads from IMX774 to the CEN.PK113-7D reference. Further processed by SAMtools to extract the per base sequence depth and an in-house script to calculate the average coverage for 500 bp non-overlapping windows. R script was used to plot the 500 bp windows (black dots) and median coverage (red line).
title: ADCO, Cartulaire de Cîteaux pour les domaines de Saint-Jean de Losne et Losne (XVIIIe siècle), Cart. 198-01 (11 H 1055), 185 folios, f. 0211
Creators: name: de la Côte d'Or, Archives départementales
name: Projet CBMA
name: CG21/F.PETOT/2019
name: Petot, Frédéric
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: cartulaire
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge

description: Cartulaire de Cîteaux pour les domaines de Saint-Jean de Losne et Losne (XVIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 198-01 (11 H 1055), 185 folios, f. 0211, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Cartulaire de Cîteaux pour les domaines de Saint-Jean de Losne et Losne (XVIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 198-01 (11 H 1055), 185 folios, f. 0211, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https://manuscrits.cbma-project.eu/
description: Provenance: https://www.geonames.org/3024876
description: Provenance: http://www.idref.fr/030974844/id
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb12228351v
description: Provenance: abbaye de Cîteaux
description: Provenance: http://www.wikidata.org/entity/Q843261
Non-Connected Gauge Groups and the Plethystic Program
Creators: name: Bourget, Antoine
name: Pini, Alessandro
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We present in the context of supersymmetric gauge theories an extension of the Weyl integration formula, first discovered by Robert Wendt, which applies to a class of non-connected Lie groups. This allows to count in a systematic way gauge-invariant chiral operators for these non-connected gauge groups. Applying this technique to $\mathrm{O}(n)$, we obtain, via the ADHM construction, the Hilbert series for certain instanton moduli spaces. We validate our general method and check our results via a Coulomb branch computation, using three-dimensional mirror symmetry.
Additional file 1 of Longitudinal changes of blood parameters and weight in inoperable stage III NSCLC patients treated with concurrent chemoradiotherapy followed by maintenance treatment with durvalumab
Creators: name: Guggenberger, J.
name: Kenndoff, S.
name: Taugner, J.
name: Käsmann, L.
name: Flörsch, B.
name: Belka, C.
name: Eze, C.
name: Manapov, F.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Ecology
subject: Cancer
subject: Computational Biology

description: Additional file 1: Table 1. Mean value of all analyzed parameters, including range and standard deviation [SD] at all time points (Baseline, begin durvalumab, 3 months follow up [FU], 6 months FU, 9 months FU, 12 months FU).
An Extension of Shelah's Trichotomy Theorem
Creators: name: Ahmed, Shehzad
Publisher: name: arXiv
Year: 2017
Subjects: subject: Logic (math.LO)
subject: FOS: Mathematics
subject: 03E04

description: In Sh506, Shelah develops the theory of $\mathrm{pcf}_I(A)$ without the assumption that $|A|
description: 17 pages, updated the journal reference. This article appears as in The Archive for Mathematical Logic. The final authenticated version is available online at: https://doi.org/10.1007/s00153-018-0631-6
title: Field comparison of dry deposition samplers for collection of atmospheric mineral dust: results from single-particle characterization
Creators: name: Waza, Andebo
name: Schneiders, Kilian
name: May, Jan
name: Rodríguez, Sergio
name: Epple, Bernd
name: Kandler, Konrad
Publisher: name: UNSPECIFIED
Year: 2019

description: Frequently, passive dry deposition collectors are used to sample atmospheric dust deposition. However, there exists a multitude of different instruments with different, usually not well-characterized sampling efficiencies. As a result, the acquired data might be considerably biased with respect to their size representativity and, as a consequence, also composition. In this study, individual particle analysis by automated scanning electron microscopy coupled with energy-dispersive X-ray analysis was used to characterize different, commonly used passive samplers with respect to their size-resolved deposition rate and concentration. This study focuses on the microphysical properties, i.e., the aerosol concentration and deposition rates as well as the particle size distributions. In addition, computational fluid dynamics modeling was used in parallel to achieve deposition velocities from a theoretical point of view. Scanning electron microscopy (SEM)-calculated deposition rate measurements made using different passive samplers show a disagreement among the samplers. Modified Wilson and Cooke (MWAC) and Big Spring Number Eight (BSNE) – both horizontal flux samplers – collect considerably more material than the flat plate and Sigma-2 samplers, which are vertical flux samplers. The collection efficiency of MWAC increases for large particles in comparison to Sigma-2 with increasing wind speed, while such an increase is less observed in the case of BSNE. A positive correlation is found between deposition rate and PM10 concentration measurements by an optical particle spectrometer. The results indicate that a BSNE and Sigma-2 can be good options for PM10 measurement, whereas MWAC and flat-plate samplers are not a suitable choice. A negative correlation was observed in between dust deposition rate and wind speed. Deposition velocities calculated from different classical deposition models do not agree with deposition velocities estimated using computational fluid dynamics (CFD) simulations. The deposition velocity estimated from CFD was often higher than the values derived from classical deposition velocity models. Moreover, the modeled deposition velocity ratios between different samplers do not agree with the observations.
GDI D6.6 Report outlining the recommendations on data curation and ELSI compliance
Creators: name: Campos, Dilza
Publisher: name: Zenodo
Year: 2024
Subjects: GDI
European Genomic Data Infrastructure
1+MG
1+Million Genomes Initiative
ESLI
B1MG

description: It is a challenging task to work with genomic data sequenced over several years (legacy and future data). The aim of this deliverable is to gather recommendations and best practices for the process of curating data for ingestion into GDI nodes. Data curation is a broad term that includes managing data throughout its lifecycle, overlapping with other tasks and aspects of the GDI project. Since one important aspect of data curation is to ensure its quality—the availability and fitness for use and reuse-, this report will focus on data quality aspects and ELSI compliance during the submission process to the data repository. It also discusses some possibilities on how to assure data quality and elaborates on the concepts of data quality and data curation, with a strong focus on genomic data. This report then provides a list of resources for genomic data quality assessment.
On the correspondence between thermodynamics and inference
Creators: name: LaMont, Colin H.
name: Wiggins, Paul A.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Statistics Theory (math.ST)
subject: Data Analysis, Statistics and Probability (physics.data-an)
subject: FOS: Mathematics
subject: FOS: Physical sciences

description: We expand upon a natural analogy between Bayesian statistics and statistical physics in which sample size corresponds to inverse temperature. This analogy motivates the definition of two novel statistical quantities: a learning capacity and a Gibbs entropy. The analysis of the learning capacity, corresponding to the heat capacity in thermal physics, leads to new insight into the mechanism of learning and explains why some models have anomalously-high learning performance. We explore the properties of the learning capacity in a number of examples, including a sloppy model. Next, we propose that the Gibbs entropy provides a natural device for counting distinguishable distributions in the context of Bayesian inference. We use this device to define a generalized principle of indifference (GPI) in which every distinguishable model is assigned equal a priori probability. This principle results in a new solution to a long-standing problem in Bayesian inference: the definition of an objective or uninformative prior. A key characteristic of this new approach is that it can be applied to analyses where the model dimension is unknown and circumvents the automatic rejection of higher-dimensional models in Bayesian inference.
description: 13 pages, 6 figures, 2 tables, and appendix
A fourth order gauge-invariant gradient plasticity model for polycrystals based on Kröner's incompatibility tensor
Creators: name: Ebobisse, Francois
name: Neff, Patrizio
Publisher: name: arXiv
Year: 2017
Subjects: subject: Analysis of PDEs (math.AP)
subject: FOS: Mathematics
subject: 35D30, 35D35, 74C05, 74C15, 74D10, 35J25

description: In this paper we derive a novel fourth order gauge-invariant phenomenological model of infinitesimal rate-independent gradient plasticity with isotropic hardening and Kröner's incompatibility tensor $inc(ε_p):= Curl[(Curl ε_p)^T]$, where $ε_p=sym p$ is the symmetric infinitesimal plastic strain tensor and $p$ is the (non-symmetric) infinitesimal plastic distortion. Here, gauge-invariance denotes invariance under diffeomorphic reparametrizations of the reference configuration, suitably adapted to the geometrically linear setting. The model features a defect energy contribution which is quadratic in the tensor $inc(ε_p)$ and it contains isotropic hardening based on the rate of the symmetric infinitesimal plastic strain tensor $\dot{ε_p}$. We motivate the new model by introducing a novel rotational invariance requirement in gradient plasticity, which we call micro-randomness, suitable for the description of polycrystalline aggregates on a mesoscopic scale and not coinciding with classical isotropy requirements. This new condition effectively reduces the increments of the non-symmetric infinitesimal plastic distortion $\dot{p}$ to their symmetric counterpart $\dot{ε_p}$. In the polycrystalline case, this condition is a statement about insensitivity to arbitrary superposed grain rotations. We formulate a mathematical existence result for a suitably regularized non-gauge-invariant model. The regularized model is rather invariant under reparametrizations of the reference configuration including infinitesimal conformal mappings.
description: 39 pages, 6 figures
On Ribet's isogeny for $J_0(65)$
Creators: name: Klosin, Krzysztof
name: Papikian, Mihran
Publisher: name: arXiv
Year: 2017
Subjects: subject: Number Theory (math.NT)
subject: FOS: Mathematics
subject: 11G18

description: Let $J^{65}$ be the Jacobian of the Shimura curve attached to the indefinite quaternion algebra over $\mathbb{Q}$ of discriminant $65$. We study the isogenies $J_0(65)\rightarrow J^{65}$ defined over $\mathbb{Q}$, whose existence was proved by Ribet. We prove that there is an isogeny whose kernel is supported on the Eisenstein maximal ideals of the Hecke algebra acting on $J_0(65)$, and moreover the odd part of the kernel is generated by a cuspidal divisor of order $7$, as is predicted by a conjecture of Ogg.
Additional file 2 of Longitudinal changes of blood parameters and weight in inoperable stage III NSCLC patients treated with concurrent chemoradiotherapy followed by maintenance treatment with durvalumab
Creators: name: Guggenberger, J.
name: Kenndoff, S.
name: Taugner, J.
name: Käsmann, L.
name: Flörsch, B.
name: Belka, C.
name: Eze, C.
name: Manapov, F.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Ecology
subject: Cancer
subject: Computational Biology

description: Additional file 2: Table 2. Summary of paired t-tests comparing values between the defined times of LDH and hemoglobin.
The Complexity of Counting Surjective Homomorphisms and Compactions
Creators: name: Focke, Jacob
name: Goldberg, Leslie Ann
name: Zivny, Stanislav
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computational Complexity (cs.CC)
subject: Discrete Mathematics (cs.DM)
subject: FOS: Computer and information sciences
subject: F.2.2; G.2.1

description: A homomorphism from a graph G to a graph H is a function from the vertices of G to the vertices of H that preserves edges. A homomorphism is surjective if it uses all of the vertices of H and it is a compaction if it uses all of the vertices of H and all of the non-loop edges of H. Hell and Nesetril gave a complete characterisation of the complexity of deciding whether there is a homomorphism from an input graph G to a fixed graph H. A complete characterisation is not known for surjective homomorphisms or for compactions, though there are many interesting results. Dyer and Greenhill gave a complete characterisation of the complexity of counting homomorphisms from an input graph G to a fixed graph H. In this paper, we give a complete characterisation of the complexity of counting surjective homomorphisms from an input graph G to a fixed graph H and we also give a complete characterisation of the complexity of counting compactions from an input graph G to a fixed graph H. In an addendum we use our characterisations to point out a dichotomy for the complexity of the respective approximate counting problems (in the connected case).
description: Minor revisions, to appear in SIDMA
Additional file 3 of Longitudinal changes of blood parameters and weight in inoperable stage III NSCLC patients treated with concurrent chemoradiotherapy followed by maintenance treatment with durvalumab
Creators: name: Guggenberger, J.
name: Kenndoff, S.
name: Taugner, J.
name: Käsmann, L.
name: Flörsch, B.
name: Belka, C.
name: Eze, C.
name: Manapov, F.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Ecology
subject: Cancer
subject: Computational Biology

description: Additional file 3: Table 3. ANOVA analyses on LDH, hemoglobin and TSH for comparison between defined groups.
A note, with additional information about over-dispersion, to my review "Basic features of the analysis of germination data with generalized linear mixed models" published on Data (5:6)
Creators: name: Alberto, Gianinetti
Publisher: name: Zenodo
Year: 2020
Subjects: binomial data; germination test; over-dispersion; random effects

description: This is a note, with additional information about over-dispersion, to my review “Basic features of the analysis of germination data with generalized linear mixed models” published on Data (5:6; doi: 10.3390/data5010006)
Additional file 1 of Discomfort, pain and stiffness: what do these terms mean to patients? A cross-sectional survey with lexical and qualitative analyses
Creators: name: Funabashi, Martha
name: Wang, Simon
name: Lee, Alexander D
name: C. K. Duarte, Felipe
name: Budgell, Brian
name: Stilwell, Peter
name: Hogg-Johnson, Sheilah
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Cell Biology
subject: Neuroscience
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: Additional file 1. Complete survey that was used in this study.
Additional file 1 of Multi-level barriers and facilitators to implementing a parenting intervention in prison, perceptions from deliverers and responsible managers: a mixed-methods study
Creators: name: Norman, Åsa
name: Swahnström, Simon
name: Karlström, Natalia Ulfsdotter
name: Enebrink, Pia
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer

description: Additional file 1. Interview guide used in the semi-structured interviews to collect qualitative data.
MOESM1 of Antioxidant activity of polyphenolic compounds isolated from ethyl-acetate fraction of Acacia hydaspica R. Parker
Creators: name: Tayyaba Afsar
name: Razak, Suhail
name: Shabbir, Maria
name: Khan, Muhammad
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: Developmental Biology
subject: Plant Biology

description: Additional file 1: Figure S1. ISCO chromatogram showing the peaks of fractions. Arrows indicate the pooling of fractions which leads to pure compounds.
Size effect on the spontaneous coalescence of nanowires
Creators: name: Wu, Zhenyan
name: Yang, Xiaolong
name: Wang, Zhao
Publisher: name: arXiv
Year: 2017
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: This paper investigates the size effect on the coalescence process of contacting nanoparticles. It is revealed by molecular dynamics that the nanometer-sized surface curvature coupled with the effective melting temperature exhibits a strong influence on the atom diffusion at the interface, and is therefore critical to the coalescence time. This effect is particularly pronouncing for surface curvatures below 20 nm. A phenomenological model is derived from the melting-point reduction approach to describe the kinetic process of nanowire coalescence and is validated against a variety of simulation datasets. The quantitative correlation between the sample size, the sintering temperature and the contact morphology evolution is demonstrated.
description: 4 figures
Additional file 2 of Multi-level barriers and facilitators to implementing a parenting intervention in prison, perceptions from deliverers and responsible managers: a mixed-methods study
Creators: name: Norman, Åsa
name: Swahnström, Simon
name: Karlström, Natalia Ulfsdotter
name: Enebrink, Pia
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer

description: Additional file 2. COREQ (COnsolidated criteria for REporting Qualitative research) Checklist for the study.
MOESM4 of Optimizing anaerobic growth rate and fermentation kinetics in Saccharomyces cerevisiae strains expressing Calvin-cycle enzymes for improved ethanol yield
Creators: name: Papapetridis, Ioannis
name: Goudriaan, Maaike
name: Vitali, María Vázquez
name: Keijzer, Nikita
name: Broek, Marcel
name: Maris, Antonius
name: Pronk, Jack
Publisher: name: figshare
Year: 2018
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Computational Biology

description: Additional file 4. Ploidy assessment of engineered RuBisCO/PRK-expressing strains. DNA content of each strain (blue) was measured by flow cytometric analysis and compared to the haploid strain CEN.PK113-5D (red; upper panel) and the diploid strain CEN.PK122 (red; bottom panel). A: IMX581 (GPD1 GPD2, parental of lineage); B: IMX765 (GPD1 GPD2 cbbm); C: IMX773 (GPD1 GPD2 pYEN1-prk cbbm); D: IMX774 (GPD1 GPD2 pDAN1-prk cbbm); E: IMX1489 (GPD1 gpd2Δ pDAN1-prk cbbm non-ox PPP↑).
title: ADCO, Cartulaire de l'abbaye de Cîteaux dit Cartulare Antiquum t.1 (début XIIIe siècle), Cart. 166 (11 H 64), 136 folios, f. 0101v
Creators: name: de la Côte d'Or, Archives départementales
name: CG21/F.PETOT/2012
name: Petot, Frédéric
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: cartulaire
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge

description: Cartulaire de l'abbaye de Cîteaux dit Cartulare Antiquum t.1 (début XIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 166 (11 H 64), 136 folios, f. 0101v, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Cartulaire de l'abbaye de Cîteaux dit Cartulare Antiquum t.1 (début XIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 166 (11 H 64), 136 folios, f. 0101v, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: abbaye de Cîteaux
description: Provenance: http://www.wikidata.org/entity/Q843261
description: Provenance: https://www.geonames.org/3024876
description: Provenance: http://www.idref.fr/030974844/id
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb12228351v
Metropolis-Hastings reversiblizations of non-reversible Markov chains
Creators: name: Choi, Michael C. H.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Probability (math.PR)
subject: FOS: Mathematics
subject: 60J05, 60J10 (Primary), 60J20, 37A25, 37A30 (Secondary)

description: We study two types of Metropolis-Hastings (MH) reversiblizations for non-reversible Markov chains with Markov kernel $P$. While the first type is the classical Metropolised version of $P$, we introduce a new self-adjoint kernel which captures the opposite transition effect of the first type, that we call the second MH kernel. We investigate the spectral relationship between $P$ and the two MH kernels. Along the way, we state a version of Weyl's inequality for the spectral gap of $P$ (and hence its additive reversiblization), as well as an expansion of $P$. Both results are expressed in terms of the spectrum of the two MH kernels. In the spirit of \cite{Fill91} and \cite{Paulin15}, we define a new pseudo-spectral gap based on the two MH kernels, and show that the total variation distance from stationarity can be bounded by this gap. We give variance bounds of the Markov chain in terms of the proposed gap, and offer spectral bounds in metastability and Cheeger's inequality in terms of the two MH kernels by comparison of Dirichlet form and Peskun ordering.
description: 32 pages. To appear Stochastic Process. Appl
Additional file 3 of Multi-level barriers and facilitators to implementing a parenting intervention in prison, perceptions from deliverers and responsible managers: a mixed-methods study
Creators: name: Norman, Åsa
name: Swahnström, Simon
name: Karlström, Natalia Ulfsdotter
name: Enebrink, Pia
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer

description: Additional file 3. Specified barriers and facilitators per sub-category of the qualitative findings.
Models for Configuration Space in a Simplicial Complex
Creators: name: Wiltshire-Gordon, John D.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Algebraic Topology (math.AT)
subject: Combinatorics (math.CO)
subject: FOS: Mathematics
subject: 55R80 (Primary), 55U05 (Secondary)

description: We produce combinatorial models for configuration space in a simplicial complex, and for configurations near a single point ("local configuration space.") The model for local configuration space is built out of the poset of poset structures on a finite set. The model for global configuration space relies on a combinatorial model for a simplicial complex with a deleted subcomplex. By way of application, we study the nodal curve $y^2 z = x^3 + x^2 z$, obtaining a presentation for its two-strand braid group, a conjectural presentation for its three-strand braid group, and presentations for its two- and three-strand local braid groups near the singular point.
description: 11 pages, 1 figure
Trends in Dairy Herd Genetic, Production and Reproductive Performance and Impact on Farm Profit
Creators: name: Shephard, Richard
name: Malcolm, Bill
name: Shephard, Richard
name: Malcolm, Bill
Publisher: name: Unknown
Year: 2019
Subjects: subject: Livestock Production/Industries
subject: genetic improvement
subject: dairy cows
subject: balanced performance index
subject: economic benefits

description: There is little sound information about the impact of cow genetic selection programs on whole farm profit. In this paper aggregate industry data about dairy herds are analysed to identify trends in dairy herd genetic, production and reproductive performance. The genetic distribution within herds that would result over time from a long-term genetic selection program is simulated, and a representative whole-farm bioeconomic model is used to explore the impact of genetic change in a dairy herd on the profit of a representative case farm. Analysis of an industry herd recording database revealed an average annual rate of increase in the Balanced Production Index (BPI) of 7 units for the herd (2.9 and 10.1 for the bottom and top BPI quartiles) and 10.8 units for artificial insemination sires used within herds. Modelling these trends for herds, with an age-cohort range average of 43 units of BPI and 20 per cent cohort attrition rates, shows that the natural range between bottom and top BPI quartiles expands gradually but remains between 75–100 units in most herds across 50 years of selection. This finding of persistence in the distribution of genetic merit around the herd mean indicates that the common application of comparing performance of BPI quartiles within herds provides almost no insight into impacts of genetic selection on farm profit. Bioeconomic modelling revealed that the genetic gain of a herd achieving an annual rate of increase in herd BPI of around 10 units per year contributed an average of around $2,500 extra to farm profit per annum for a 250-cow herd representative farm. Applying more widely the findings and insights from modelling genetic gain in a representative pasture-based dairy farm suggests it is likely that that, on many, or even most, dairy farms, the gains in profit from cow genetic selection is likely to be modest in light of other investment opportunities and is thus not something to be focussed on to the effective exclusion of other more profitable resource uses. ‘Ignore the principle of equi-marginal returns to all inputs at your peril’ is sage farm management economics advice to those who believe that all animal farmers need do is to improve the genetic potential of their animals. Good advice to dairy farmers would be to: (i) have realistic expectations about the role of genetic gain in their business; (ii) evaluate returns from investment in herd genetics; and (iii) compare expected returns from investments into all limiting factors present on the farm.
First Moment of Hecke $L$-functions with quartic characters at the central point
Creators: name: Gao, Peng
name: Zhao, Liangyi
Publisher: name: arXiv
Year: 2017
Subjects: subject: Number Theory (math.NT)
subject: FOS: Mathematics

description: In this paper, we study the first moment of central values of Hecke $L$-functions associated with quartic characters.
description: 11 pages
Additional file 1 of Non-prescription treatments for childhood infections: an Austrian, monocentric, cross-sectional questionnaire study
Creators: name: Gerlitz, Matthias
name: Voitl, Peter
name: Voitl, Julian J. M.
name: Diesner-Treiber, Susanne C.
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: Cancer
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1.
Additional file 2: of Measuring and stimulating progress on implementing widely recommended food environment policies: the New Zealand case study
Creators: name: Vandevijvere, Stefanie
name: Mackay, Sally
name: Swinburn, Boyd
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy

description: Healthy Food Environment Policy Index (Food-EPI) good practice indicators and recommendations made by the experts. (DOCX 62 kb)
On the intersection motive of certain Shimura varieties: the case of Siegel threefolds
Creators: name: Wildeshaus, J.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Algebraic Geometry (math.AG)
subject: FOS: Mathematics
subject: 14G35, 11F32, 11F46, 14C25, 14F20, 14F25, 14F30, 14F32, 19E15, 19F27

description: In this article, we construct a Hecke-equivariant Chow motive whose realizations equal intersection cohomology of Siegel threefolds with regular algebraic coefficients. As a consequence, we are able to define Grothendieck motives for Siegel modular forms.
description: 36 pages; accepted for publication in Annals of K-Theory. Following remarks of the referee, the proof of Cor. 1.13 is now more detailed