cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
A secured proxy-based data sharing module in IoT environments using blockchain
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: Attribute-Based Encryption (ABE)
blockchain
cyber-security
fine-grained access control
Inner-Product Encryption (IPE)
Internet of Things (IoT)
proxy re-encryption

description: © 2019 by the authors. Licensee MDPI, Basel, Switzerland. Access and utilization of data are central to the cloud computing paradigm. With the advent of the Internet of Things (IoT), the tendency of data sharing on the cloud has seen enormous growth. With data sharing comes numerous security and privacy issues. In the process of ensuring data confidentiality and fine-grained access control to data in the cloud, several studies have proposed Attribute-Based Encryption (ABE) schemes, with Key Policy-ABE (KP-ABE) being the prominent one. Recent works have however suggested that the confidentiality of data is violated through collusion attacks between a revoked user and the cloud server. We present a secured and efficient Proxy Re-Encryption (PRE) scheme that incorporates an Inner-Product Encryption (IPE) scheme in which decryption of data is possible if the inner product of the private key, associated with a set of attributes specified by the data owner, and the associated ciphertext is equal to zero (0). We utilize a blockchain network whose processing node acts as the proxy server and performs re-encryption on the data. In ensuring data confidentiality and preventing collusion attacks, the data are divided into two, with one part stored on the blockchain network and the other part stored on the cloud. Our approach also achieves fine-grained access control.
A fog computing solution for context-based privacy leakage detection for android healthcare devices
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: privacy leakage detection
intelligent medical service
fog computing
Android
context information

description: © 2019 by the authors. Licensee MDPI, Basel, Switzerland. Intelligent medical service system integrates wireless internet of things (WIoT), including medical sensors, wireless communications, and middleware techniques, so as to collect and analyze patients’ data to examine their physical conditions by many personal health devices (PHDs) in real time. However, large amount of malicious codes on the Android system can compromise consumers’ privacy, and further threat the hospital management or even the patients’ health. Furthermore, this sensor-rich system keeps generating large amounts of data and saturates the middleware system. To address these challenges, we propose a fog computing security and privacy protection solution. Specifically, first, we design the security and privacy protection framework based on the fog computing to improve tele-health and tele-medicine infrastructure. Then, we propose a context-based privacy leakage detection method based on the combination of dynamic and static information. Experimental results show that the proposed method can achieve higher detection accuracy and lower energy consumption compared with other state-of-art methods.
Loose Hamiltonian cycles forced by large (k-2)-degree - sharp version
Creators: name: Bastos, Josefran De Oliveira
name: Mota, Guilherme Oliveira
name: Schacht, Mathias
name: Schnitzer, Jakob
name: Schulenburg, Fabian
Publisher: name: Faculty of Science, University of Calgary
Year: 2018
Subjects: Hypergraphs; Hamiltonian cycles; Degree conditions

description: We prove for all k\geq 4 and 1\leq \ell
description: Contributions to Discrete Mathematics, Vol 13, No 2 (2018)
title: Celebration and Narration
title: Metaleptic features in Ex 12:1 – 13,16
Creators: name: Müllner, Ilse
Publisher: name: Universität Kassel
Year: 2014
Subjects: subject: 230
subject: Erzähltheorie
subject: Bibel. Altes Testament
subject: Metalepse
subject: Katholische Theologie
subject: Narrativität

description: Enthält Beiträge der Konferenz "Narratology, Hermeneutics, and Midrash", 23.-25. Oktober 2011 in Wien.
description: Gedruckt mit freundlicher Unterstützung des Rektorats der Universität Wien
Compatible quadratic Poisson brackets related to a family of elliptic curves
Creators: name: Odesskii, Alexander
name: Wolf, Thomas
Publisher: name: arXiv
Year: 2012
Subjects: subject: Quantum Algebra (math.QA)
subject: Algebraic Geometry (math.AG)
subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: FOS: Mathematics
subject: FOS: Physical sciences

description: We construct nine pairwise compatible quadratic Poisson structures such that a generic linear combination of them is associated with an elliptic algebra in n generators. Explicit formulas for Casimir elements of this elliptic Poisson structure are obtained.
description: 17 pages, Latex, major changes
Extensive reliability evaluation of docking-based target-fishing strategies
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: target fishing
docking
reverse screening
consensus docking

description: © 2019 by the authors. Licensee MDPI, Basel, Switzerland. The development of target-fishing approaches, aimed at identifying the possible protein targets of a small molecule, represents a hot topic in medicinal chemistry. A successful target-fishing approach would allow for the elucidation of the mechanism of action of all therapeutically interesting compounds for which the actual target is still unknown. Moreover, target-fishing would be essential for preventing adverse effects of drug candidates, by predicting their potential off-targets, and it would speed up drug repurposing campaigns. However, due to the huge number of possible protein targets that a small-molecule might interact with, experimental target-fishing approaches are out of reach. In silico target-fishing represents a valuable alternative, and examples of receptor-based approaches, exploiting the large number of crystallographic protein structures determined to date, have been reported in the literature. To the best of our knowledge, no proper evaluation of such approaches is, however, reported yet. In the present work, we extensively assessed the reliability of docking-based target-fishing strategies. For this purpose, a set of X-ray structures belonging to different targets was selected, and a dataset of compounds, including 10 experimentally active ligands for each target, was created. A target-fishing benchmark database was then obtained, and used to assess the performance of 13 different docking procedures, in identifying the correct target of the dataset ligands. Moreover, a consensus docking-based target-fishing strategy was developed and evaluated. The analysis highlighted that specific features of the target proteins could affect the reliability of the protocol, which however, proved to represent a valuable tool in the proper applicability domain. Our study represents the first extensive performance assessment of docking-based target-fishing approaches, paving the way for the development of novel efficient receptor-based target fishing strategies.
Small on-line Ramsey numbers---a new approach
Creators: name: Pralat, Pawel
name: Gordinowicz, Przemyslaw
Publisher: name: Faculty of Science, University of Calgary
Year: 2018
Subjects: on-line Ramsey numbers

description: In this note, we revisit the problem of calculating small on-line Ramsey numbers R(G,H). A new approach is proposed that reduces the running time of the algorithm determining that R(K_3,K_4)=17 by a factor of at least 2*10^6 comparing to the previously used approach. Using high performance computing networks, we determined that R(K_4,K_4) <= 26, R(K_3,K_5) < 25, and that R(K_3,K_3,K_3) <= 20 for a natural generalization to three colours. All graphs on 3 or 4 vertices are investigated as well, including non-symmetric cases.
description: Contributions to Discrete Mathematics, Vol 13, No 2 (2018)
Quantum tops as examples of commuting differential operators
Creators: name: Adler, V. E.
name: Marikhin, V. G.
name: Shabat, A. B.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences
subject: 81S05 47A67

description: We study the quantum analogs of tops on Lie algebras $so(4)$ and $e(3)$ represented by differential operators.
description: 24 pp
27 Years and 81 Million Opportunities Later: Investigating the Use of Email Encryption for an Entire University
Creators: name: Stransky, Christian
name: Wiese, Oliver
name: Roth, Volker
name: Acar, Yasemin
name: Fahl, Sascha
Publisher: name: CISPA
Year: 2023

description: Email is one of the main communication tools and has seen significant adoption in the past decades. However, emails are sent in plain text by default and allow attackers easy access. Users can protect their emails by end-to-end encrypting them using tools such as S/MIME or PGP. Although PGP had already been introduced in 1991, it is a commonly held belief that email encryption is a niche tool that has not seen widespread adoption to date. Previous user studies identified ample usability issues with email encryption such as key management and user interface challenges, which likely contribute to the limited success of email encryption. However, so far ground truth based on longitudinal field data is missing in the literature. Towards filling this gap, we measure the use of email encryption based on 27 years of data for 37,089 users at a large university. While attending to ethical and data privacy concerns, we were able to analyze the use of S/MIME and PGP in 81,612,595 emails. We found that only 5.46% of all users ever used S/MIME or PGP. This led to 0.06% encrypted and 2.8% signed emails. Users were more likely to use S/MIME than PGP by a factor of six. We saw that using multiple email clients had a negative impact on signing as well as encrypting emails and that only 3.36% of all emails between S/MIME users who had previously exchanged certificates were encrypted on average. Our results imply that the adoption of email encryption is indeed very low and that key management challenges negatively impact even users who have set up S/MIME or PGP previously.
Arrangements of Homothets of a Convex Body II
Creators: name: Naszodi, Marton
name: Swanepoel, Konrad
Publisher: name: Faculty of Science, University of Calgary
Year: 2018
Subjects: convex body, homothets, Minkowski arrangement, packing, covering

description: A family of homothets of an o-symmetric convex body K in d-dimensional Euclidean space is called a Minkowski arrangement if no homothet contains the center of any other homothet in its interior.
We show that any pairwise intersecting Minkowski arrangement of a d-dimensional convex body has at most 2*3^d members.

This improves a result of Polyanskii (Discrete Mathematics 340 (2017), 1950--1956).

Using similar ideas, we also give a proof the following result of Polyanskii:
Let K_1,....,K_n be a sequence of homothets of the o-symmetric convex body K, such that for any i
description: Contributions to Discrete Mathematics, Vol 13, No 2 (2018)
The Complexity of Power Graphs Associated With Finite Groups
Creators: name: Kirkland, Steve
name: Moghaddamfar, Ali Reza
name: Salehy, S. Navid
name: Salehy, S. Nima
name: Zohouratar, Mahsa
Publisher: name: Faculty of Science, University of Calgary
Year: 2018
Subjects: Power graph, spanning tree, complexity, group.

description: The power graph P(G) of a finite group G is the graph whose vertex set is
G, with two elements in G being adjacent if one of them is a power of the
other. The purpose of this paper is twofold: (1) to find the complexity of
a clique-replaced graph and study some applications; (2) to derive some
explicit formulas concerning the complexity \kappa(P(G)) for various groups
G such as the cyclic group of order n, the simple groups L_2(q), the extra-
special p-groups of order p^3, the Frobenius groups, etc.
description: Contributions to Discrete Mathematics, Vol 13, No 2 (2018)
X-ray Emission Line Profiles from Wind Clump Bow Shocks in Massive Stars
Creators: name: Ignace, R.
name: Waldron, W. L.
name: Cassinelli, J. P.
Publisher: name: arXiv
Year: 2012
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: The consequences of structured flows continue to be a pressing topic in relating spectral data to physical processes occurring in massive star winds. In a preceding paper, our group reported on hydrodynamic simulations of hypersonic flow past a rigid spherical clump to explore the structure of bow shocks that can form around wind clumps. Here we report on profiles of emission lines that arise from such bow shock morphologies. To compute emission line profiles, we adopt a two component flow structure of wind and clumps using two "beta" velocity laws. While individual bow shocks tend to generate double horned emission line profiles, a group of bow shocks can lead to line profiles with a range of shapes with blueshifted peak emission that depends on the degree of X-ray photoabsorption by the interclump wind medium, the number of clump structures in the flow, and the radial distribution of the clumps. Using the two beta law prescription, the theoretical emission measure and temperature distribution throughout the wind can be derived. The emission measure tends to be power law, and the temperature distribution broad in terms of wind velocity. Although restricted to the case of adiabatic cooling, our models highlight the influence of bow shock effects for hot plasma temperature and emission measure distributions in stellar winds and their impact on X-ray line profile shapes. Previous models have focused on geometrical considerations of the clumps and their distribution in the wind. Our results represent the first time that the temperature distribution of wind clump structures are explicitly and self-consistently accounted in modeling X-ray line profile shapes for massive stars.
description: To appear in Astrophysical Journal
Face Module for Realizable Z-matroids
Creators: name: Martino, Ivan
Publisher: name: Faculty of Science, University of Calgary
Year: 2018

description: In this work, we define the face ring for a matroid over Z.  Its Hilbert series is, indeed, the expected specialization of the Grothendieck-Tutte polynomial defined by Fink and Moci in [10].
description: Contributions to Discrete Mathematics, Vol 13, No 2 (2018)
Supplementary Material. Serum Vitamin D: Correlates of Baseline Concentration and Response to Supplementation in VITAL-DKD
Creators: name: Best, Cora
Publisher: name: figshare
Year: 2021
Subjects: subject: 110306 Endocrinology
subject: FOS: Clinical medicine

description: Supplementary material of the paper "Serum Vitamin D: Correlates of Baseline Concentration and Response to Supplementation in VITAL-DKD" submitted to the Journal of Clinical Endocrinology and Metabolism. Authors: Cora M. Best, Leila R. Zelnick, Kenneth E. Thummel, Simon Hsu, Christine Limonte, Ravi Thadhani, Howard D. Sesso, JoAnn E. Manson, Julie E. Buring, Samia Mora, I-Min Lee, Nancy R. Cook, Georgina Friedenberg, Heike Luttmann-Gibson, Ian H. de Boer, and Andrew N. Hoofnagle
Finding and Exploiting CPU Features using MSR Templating
Creators: name: Kogler, Andreas
name: Weber, Daniel
name: Haubenwallner, Martin
name: Lipp, Moritz
name: Gruss, Daniel
name: Schwarz, Michael
Publisher: name: CISPA
Year: 2023

description: To ensure backward compatibility while adding new features to CPUs, CPU vendors enable a limited CPU configuration via so-called model-specific registers (MSRs). These MSRs have been introduced for various features, such as debugging, performance monitoring, or security. While many MSRs are documented, there is still a plethora of undocumented or sparsely documented MSRs in modern CPUs. Furthermore, with multiple hundred MSRs, each providing up to 64 configuration bits, it is tedious to find specific configuration options. In this paper, we show that MSRs and their configuration bits can be detected automatically on Intel and AMD CPUs. We introduce MSRevelio, a framework to automatically detect bits that influence the behavior of instructions and semi-automatically find bits controlled by BIOS settings. We show that previously overlooked bits can harden systems against microarchitectural attacks such as Medusa, CrossTalk, and software-prefetch attacks. Additionally, we show that an undocumented lock bit allows disabling AES-NI at runtime, forcing mbedTLS to fall back to an AES implementation vulnerable to cache attacks. Exploiting this fallback inside an SGX enclave, we fully recover the AES key used by the enclave. With our detection approach, we show that security features retrofitted with microcode updates can be easily detected, even before the public documentation of the underlying vulnerability. In our analysis of the Xen hypervisor, we show that Xen's handling of MSRs was flawed for a long time, allowing guests to access undocumented and unhandled MSRs and fingerprint specific Xen versions. Using automated correlation analysis between documented and undocumented MSRs, we discover a previously undocumented MSR correlating with the CPU's timestamp counter. This MSR is also accessible from Xen guests, and we demonstrate a Foreshadow attack when all other timers are unavailable or artificially deteriorated. Our results highlight that transparency is crucial for features interacting closely with CPU internals.
The UWHAM and SWHAM Software Package
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: Algorithms
Models, Molecular
Software
Stochastic Processes
Thermodynamics

description: © 2019, The Author(s). We introduce the UWHAM (binless weighted histogram analysis method) and SWHAM (stochastic UWHAM) software package that can be used to estimate the density of states and free energy differences based on the data generated by multi-state simulations. The programs used to solve the UWHAM equations are written in the C++ language and operated via the command line interface. In this paper, first we review the theoretical bases of UWHAM, its stochastic solver RE-SWHAM (replica exchange-like SWHAM)and ST-SWHAM (serial tempering-like SWHAM). Then we provide a tutorial with examples that explains how to apply the UWHAM program package to analyze the data generated by different types of multi-state simulations: umbrella sampling, replica exchange, free energy perturbation simulations, etc. The tutorial examples also show that the UWHAM equations can be solved stochastically by applying the RE-SWHAM and ST-SWHAM programs when the data ensemble is large. If the simulations at some states are far from equilibrium, the Stratified RE-SWHAM program can be applied to obtain the equilibrium distribution of the state of interest. All the source codes and the tutorial examples are available from our group’s web page: https://ronlevygroup.cst.temple.edu/software/UWHAM_and_SWHAM_webpage/index.html.
Structural Parameters for Globular Clusters in the Outer Halo of M31
Creators: name: Wang, Song
name: Ma, Jun
Publisher: name: arXiv
Year: 2012
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: In this paper, we present internal surface brightness profiles, using images in the F606W and F814W filter bands observed with the Advanced Camera for Surveys on the {\it Hubble Space Telescope}, for ten globular clusters (GCs) in the outer halo of M31. Standard King models are fitted to the profiles to derive their structural and dynamical parameters. The results show that, in general, the properties of clusters in M31 and the Milky Way fall in the same regions of parameter spaces. The outer halo GCs of M31 have larger ellipticities than most of GCs in M31 and the Milky Way. Their large ellipticities may be due to galaxy tides coming from satellite dwarf galaxies of M31 or may be related to the apparently more vigorous accretion or merger history that M31 has experienced. The tight correlation of cluster binding energy $E_b$ with mass $M_{\rm mod}$ indicates that, the "fundamental plane" does exist for clusters, regardless of their host environments, which is consistent with previous studies.
description: Accepted for Publication in AJ, 15 pages, 7 figures and 5 tables
On the Existence of Universal Lottery Tickets
Creators: name: Burkholz, Rebekka
name: Laha, Nilanjana
name: Mukherjee, Rajarshi
name: Gotovos, Alkis
Publisher: name: CISPA
Year: 2023

description: The lottery ticket hypothesis conjectures the existence of sparse subnetworks of large randomly initialized deep neural networks that can be successfully trained in isolation. Recent work has experimentally observed that some of these tickets can be practically reused across a variety of tasks, hinting at some form of universality. We formalize this concept and theoretically prove that not only do such universal tickets exist but they also do not require further training. Our proofs introduce a couple of technical innovations related to pruning for strong lottery tickets, including extensions of subset sum results and a strategy to leverage higher amounts of depth. Our explicit sparse constructions of universal function families might be of independent interest, as they highlight representational benefits induced by univariate convolutional architectures.
The complete mitochondrial genome of the benthic diatom Pleurosigma inscriptura
Creators: name: Jeong, YuJin
name: Lee, JunMo
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Evolutionary Biology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: 60506 Virology

description: Pleurosigma inscriptura M. A. Harper 2009 is a marine diatom in Naviculales (Bacillariophyceae) order distributed in New Zealand, South America, Argentina, and Korea. We assembled the complete mitochondrial genome sequence of Pleurosigma inscriptura (38,013 bp), and annotated 34 protein-coding genes, 25 transfer RNAs, and 2 ribosomal RNAs. We analyzed a maximum-likelihood tree using conserved 34 mitochondrial genes from Bacillariophyta species. In the mitochondrial phylogeny, P. inscriptura showed a strong monophyletic relationship with Haslea nusantara and Navicula ramosissima.
Temporal Stream Logic modulo Theories
Creators: name: Finkbeiner, Bernd
name: Heim, Philippe
name: Passing, Noemi
Publisher: name: CISPA
Year: 2023

description: Temporal stream logic (TSL) extends LTL with updates and predicates over arbitrary function terms. This allows for specifying data-intensive systems for which LTL is not expressive enough. In the semantics of TSL, functions and predicates are left uninterpreted. In this paper, we extend TSL with first-order theories, enabling us to specify systems using interpreted functions and predicates such as incrementation or equality. We investigate the satisfiability problem of TSL modulo the standard underlying theory of uninterpreted functions as well as with respect to Presburger arithmetic and the theory of equality: For all three theories, TSL satisfiability is neither semi-decidable nor co-semi-decidable. Nevertheless, we identify three fragments of TSL for which the satisfiability problem is (semi-)decidable in the theory of uninterpreted functions. Despite the undecidability, we present an algorithm – which is not guaranteed to terminate – for checking the satisfiability of a TSL formula in the theory of uninterpreted functions and evaluate it: It scales well and is able to validate assumptions in a real-world system design.
A self-selective correlation ship tracking method for smart ocean systems
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: ship tracking
correlation filter
negative samples mining
self-selective model
box regression

description: © 2019 by the authors. Licensee MDPI, Basel, Switzerland. In recent years, with the development of the marine industry, the ship navigation environment has become more complicated. Some artificial intelligence technologies, such as computer vision, can recognize, track and count sailing ships to ensure maritime security and facilitate management for Smart Ocean systems. Aiming at the scaling problem and boundary effect problem of traditional correlation filtering methods, we propose a self-selective correlation filtering method based on box regression (BRCF). The proposed method mainly includes: (1) A self-selective model with a negative samples mining method which effectively reduces the boundary effect in strengthening the classification ability of the classifier at the same time; (2) a bounding box regression method combined with a key points matching method for the scale prediction, leading to a fast and efficient calculation. The experimental results show that the proposed method can effectively deal with the problem of ship size changes and background interference. The success rates and precisions were over 8 % higher than Discriminative Scale Space Tracking (DSST) on the marine traffic dataset of our laboratory. In terms of processing speed, the proposed method is higher than DSST by nearly 22 frames per second (FPS).
Sex differences in corticotropin releasing factor regulation of medial septum-mediated memory formation
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: Corticotropin releasing hormone
Medial septum
Memory
Sex differences
Ovarian hormones
Stress

description: © 2019 The Authors Stress can disrupt memory and contribute to cognitive impairments in psychiatric disorders, including schizophrenia and attention deficit hyperactivity disorder. These diseases are more common in men than in women, with men showing greater cognitive impairments. Mnemonic deficits induced by stress are mediated, in part, by corticotropin releasing factor (CRF). However, where CRF is acting to regulate memory, and sex differences therein, is understudied. Here we assessed whether CRF in the medial septum (MS), which projects to the hippocampus, affected memory formation in male and female rats. CRF in the MS did not alter hippocampal-independent object recognition memory, but impaired hippocampal-dependent object location memory in both sexes. Interestingly, males were more sensitive than females to the disruptive effect of a low dose of CRF in the MS. Female resistance was not due to circulating ovarian hormones. However, compared to males, females had higher MS expression of CRF binding protein, which reduces CRF bioavailability and thus may mitigate the effect of the low dose of CRF in females. In contrast, there was no sex difference in CRF 1 expression in the MS. Consistent with this finding, CRF 1 antagonism blocked the memory impairment caused by the high dose of CRF in the MS in both sexes. Collectively, these results suggest that males are more vulnerable than females to the memory impairments caused by CRF in the MS. In both sexes, CRF 1 antagonists prevented MS-mediated memory deficits caused by high levels of CRF, and such levels can result from very stressful events. Thus, CRF 1 antagonists may be a viable option for treating cognitive deficits in stressed individuals with psychiatric disorders.
Another polymorphic mitochondrial genome of Grampus griseus and phylogeny of family Delphinidae
Creators: name: Senevirathna, Jayan Duminda M.
name: Yonezawa, Ryo
name: Saka, Taiki
name: Igarashi, Yoji
name: Yoshitake, Kazutoshi
name: Kinoshita, Shigeharu
name: Funasaka, Noriko
name: Asakawa, Shuichi
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 60506 Virology

description: Risso’s dolphin (Grampus griseus Cuvier, 1812) is the only species of genus Grampus and a cosmopolitan marine inhabitant. Here, we report a polymorphic complete mitochondrial genome of G. griseus. The size of the total mitochondrial genome was 16,386 bp in length and contains 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and a control region. 37 single nucleotide polymorphic sites (SNPs) were identified compared to the references. Based on the available total mitochondrial dolphin genomes’ phylogenetics, G. griseus has formed a clade with 0.1415 distance, sister to the following species of the subfamily Globicephalinae and the taxonomy of Orcinus orca still needs further investigations.
Aln2tbl: building a mitochondrial features table from a assembly alignment in fasta format
Creators: name: Pons, Joan
name: Ensenyat, Juan José
name: Bover, Pere
name: Serra, Miquel
name: Nardi, Francesco
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Inorganic Chemistry
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: The sequencing, annotation and analysis of complete mitochondrial genomes is an important research tool in phylogeny and evolution. Starting with the primary sequence, genes/features are generally annotated automatically to obtain preliminary annotations in the form of a feature table. Further manual curation in a graphic alignment editor is nevertheless necessary to revise annotations. As such, the automatically generated feature table is invalidated and has to be modified manually before submission to data banks. We developed aln2tbl.py, a python script that recreates a feature table from a manually refined alignment of genes mapped on the mitochondrial genome in fasta format. The feature table is populated with notes and annotations specific to mitochondrial genomes. The table can be used to create a sqn file to be submitted directly to data banks. In summary, our scripts fills one gap in the available toolbox and, combined with other software, allows the automation of the entire process, from primary sequence to annotated genome submission, even if a manual curation step is conducted in a visual sequence editor.
Asymmetric Double Quantum Wells with Smoothed Interfaces
Creators: name: Gavryushin, Vladimir
Publisher: name: arXiv
Year: 2011
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Materials Science (cond-mat.mtrl-sci)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We have derived and analyzed the wavefunctions and energy states for an asymmetric double quantum wells, broadened due to static interface disorder effects, within well known discreet variable representation approach for solving the one-dimensional Schrodinger equation. The main advantage of this approach is that it yields the energy eigenvalues and the eigenvectors in semiconductor nanostructures of different shapes as well as the strengths of the optical transitions between them. We have found that interface broadening effects change and shift energy levels to higher energies, but the resonant conditions near an energy coupling regions do not strongly distorted. A quantum-mechanical calculations based on the convolution method (smoothing procedure) of the influence of disorder on the motion of free particles in nanostructures is presented.
description: 10 pages, 4 figures
Museum educators teaching others to teach
Creators: name: McIntosh, Lisa Mary
Publisher: name: University of British Columbia
Year: 2011

description: Currently there is minimal understanding of museum educators’ practices of teaching others to teach. Museum professionals have identified this as an area that warrants investigation if museums are to further their educational potential. This research examines museum educators’ perspectives of their practices as museum-based teacher educators to gain insights into their beliefs regarding practice, generate new understandings about teaching others to teach in museums, and provide direction for professional development. This qualitative study is framed by concepts embodied in collaborative self-study methodology and community of practice and addresses the following questions: 1) What beliefs are evident in the way museum educators discuss their practice as museum-based teacher educators? 2) How do museum educators understand and reconcile the tensions that emerge from their beliefs about practice? 3) How does the opportunity to engage in conversations with colleagues about their practice, framed within collaborative self-study, contribute to museum educators’ practice? Participants’ discussions of their practice as museum-based teacher educators focus on two distinct groups of teachers, new and experienced interpreters and docents. Their practice includes five areas: interpreter selection, initial training, creating space for reflection and peer feedback, shadowing and mentoring, and professional development. They described the purposes of their work as preparing interpreters and docents for program delivery and helping them develop judgement about their teaching. Participants’ beliefs about practice are examined through beliefs about teaching as a craft, teaching as an art and experience as a good teacher. Conflicts between participants’ beliefs and their perceptions of their organisation beliefs are evident in their discussions of tensions in their practice. Analysis suggests that many of the tensions relate to the purpose of visitor experience, the nature of teaching, and the structure of the interpreter position, and in most cases remain unresolved. Participants found the opportunity to engage in conversation with colleagues a valuable form of professional development that contributed to their practice as museum-based teacher educators by presenting alternative perspectives of practice, ensuring time and a degree of accountability to reflect on practice, and positively affected their identity as a museum educator by engaging with others who share similar challenges.
Automatic analysis of EEGs using big data and hybrid deep learning architectures
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: electroencephalography
EEG
hidden markov models
HMM
deep learning
stochastic denoising autoencoders
SdA
automatic detection

description: © 2019 Golmohammadi, Harati Nejad Torbati, Lopez de Diego, Obeid and Picone. Brain monitoring combined with automatic analysis of EEGs provides a clinical decision support tool that can reduce time to diagnosis and assist clinicians in real-time monitoring applications (e.g., neurological intensive care units). Clinicians have indicated that a sensitivity of 95% with specificity below 5% was the minimum requirement for clinical acceptance. In this study, a high-performance automated EEG analysis system based on principles of machine learning and big data is proposed. This hybrid architecture integrates hidden Markov models (HMMs) for sequential decoding of EEG events with deep learning-based post-processing that incorporates temporal and spatial context. These algorithms are trained and evaluated using the Temple University Hospital EEG, which is the largest publicly available corpus of clinical EEG recordings in the world. This system automatically processes EEG records and classifies three patterns of clinical interest in brain activity that might be useful in diagnosing brain disorders: (1) spike and/or sharp waves, (2) generalized periodic epileptiform discharges, (3) periodic lateralized epileptiform discharges. It also classifies three patterns used to model the background EEG activity: (1) eye movement, (2) artifacts, and (3) background. Our approach delivers a sensitivity above 90% while maintaining a specificity below 5%. We also demonstrate that this system delivers a low false alarm rate, which is critical for any spike detection application.
GATraj: A graph- and attention-based multi-agent trajectory prediction model
Creators: name: Cheng, Hao
name: Liu, Mengmeng
name: Chen, Lin
name: Broszio, Hellward
name: Sester, Monika
name: Yang, Michael Ying
Publisher: name: Amsterdam [u.a.] : Elsevier
Year: 2023
Subjects: subject: Autonomous driving
subject: Graph model
subject: Mixture density network
subject: Pedestrian
subject: Trajectory prediction
subject: Dewey Decimal Classification::500 | Naturwissenschaften::550 | Geowissenschaften

description: Trajectory prediction has been a long-standing problem in intelligent systems like autonomous driving and robot navigation. Models trained on large-scale benchmarks have made significant progress in improving prediction accuracy. However, the importance on efficiency for real-time applications has been less emphasized. This paper proposes an attention-based graph model, named GATraj, which achieves a good balance of prediction accuracy and inference speed. We use attention mechanisms to model the spatial–temporal dynamics of agents, such as pedestrians or vehicles, and a graph convolutional network to model their interactions. Additionally, a Laplacian mixture decoder is implemented to mitigate mode collapse and generate diverse multimodal predictions for each agent. GATraj achieves state-of-the-art prediction performance at a much higher speed when tested on the ETH/UCY datasets for pedestrian trajectories, and good performance at about 100 Hz inference speed when tested on the nuScenes dataset for autonomous driving. We conduct extensive experiments to analyze the probability estimation of the Laplacian mixture decoder and compare it with a Gaussian mixture decoder for predicting different multimodalities. Furthermore, comprehensive ablation studies demonstrate the effectiveness of each proposed module in GATraj.
Thymine DNA glycosylase as a novel target for melanoma
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: Animals
Cell Cycle
Cell Line, Tumor
Cell Proliferation
Cytosine
DNA Methylation
Enzyme Inhibitors
Female
Gene Expression Regulation, Neoplastic
Humans
Melanoma
Melanoma, Experimental
Mice, Knockout
Mice, SCID
Mice, Transgenic
Molecular Targeted Therapy
Thymine DNA Glycosylase
Xenograft Model Antitumor Assays

description: © 2019, The Author(s). Melanoma is an aggressive neoplasm with increasing incidence that is classified by the NCI as a recalcitrant cancer, i.e., a cancer with poor prognosis, lacking progress in diagnosis and treatment. In addition to conventional therapy, melanoma treatment is currently based on targeting the BRAF/MEK/ERK signaling pathway and immune checkpoints. As drug resistance remains a major obstacle to treatment success, advanced therapeutic approaches based on novel targets are still urgently needed. We reasoned that the base excision repair enzyme thymine DNA glycosylase (TDG) could be such a target for its dual role in safeguarding the genome and the epigenome, by performing the last of the multiple steps in DNA demethylation. Here we show that TDG knockdown in melanoma cell lines causes cell cycle arrest, senescence, and death by mitotic alterations; alters the transcriptome and methylome; and impairs xenograft tumor formation. Importantly, untransformed melanocytes are minimally affected by TDG knockdown, and adult mice with conditional knockout of Tdg are viable. Candidate TDG inhibitors, identified through a high-throughput fluorescence-based screen, reduced viability and clonogenic capacity of melanoma cell lines and increased cellular levels of 5-carboxylcytosine, the last intermediate in DNA demethylation, indicating successful on-target activity. These findings suggest that TDG may provide critical functions specific to cancer cells that make it a highly suitable anti-melanoma drug target. By potentially disrupting both DNA repair and the epigenetic state, targeting TDG may represent a completely new approach to melanoma therapy.
Taraxacum vernelense Soest
Creators: name: Uhlemann, Ingo
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Asterales
Asteraceae
Taraxacum
Taraxacum vernelense

description: Taraxacum vernelense Soest,
Acta Bot. Neerl. 8 (2): 99 (1959) –
Abb. 8 D.
 Österreich, Salzburg: Lungau, Murtal, Schrovinkar, magerer Weiderasen, 2026 m s.m., 26.7.2009, leg. W. Diewald (Hb. Diewald 6703); – ibid., Niedere Tauern, Schladminger Tauern, Südseite, Tamsweg NE, Preberkessel an der Südwestseite des Preber, Bachufer, ca. 2300 m s.m., 18.7.2002, leg. Uhlemann (Hb. Uhlemann u. WU). — Hohe Tauern, zwischen Fuscher Törl und Edelweißspitze, ca. 2400 m s.m., 5.7. 1992, leg. Uhlemann (Hb. Uhlemann).
 Österreich, Kärnten: Dössenersee, 2250–2300 m s.m., 24. 7.1957, leg. Soest (Hb. L 0 411428 u. 0411427).
Hervorzuheben sind bei dieser Art die Laubblätter, welche große, stumpfe Endlappen, zudem wenige, schmale, dreieckige Seitenlappen tragen und grüne, ungeflügelte Stiele besitzen. Die Hüllen sind olivgrün und haben aufrecht stehende, zumeist an den Spitzen zurückgebogene äußere Involukralblätter und graugrüne Griffeläste.
Beschrieben aus der Ostschweiz (Vernelatal bei Davos), wurde diese Art auch in den genannten individuenreichen Populationen in Österreich gefunden.
description: Published as part of Uhlemann, Ingo, 2011, Notizen zur Taraxacum-Flora Österreichs und Südtirols, pp. 27-53 in Neilreichia 6 on pages 44-45, DOI: 10.5281/zenodo.303107
Nuclear export of mRNA molecules studied by SPEED microscopy
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: Nucleocytoplasmic transport
Single-particle tracking
Super-resolution microscopy
3D live-cell imaging microscopy

description: © 2018 Temple University The nuclear exit of messenger RNA (mRNA) molecules through the nuclear pore complex (NPC) is an essential step in the translation process of all proteins. The current limitations of conventional fluorescence and electron microscopy have prevented elucidation of how mRNA exports through the NPCs of live cells. In the recent years, various single-molecule fluorescence (SMF) microscopy techniques have been developed to improve the temporal and spatial resolutions of live-cell imaging allowing a more comprehensive understanding of the dynamics of mRNA export through native NPCs. In this review, we firstly evaluate the necessity of single-molecule live-cell microscopy in the study of mRNA nuclear export. Then, we highlight the application of single-point edge-excitation sub-diffraction (SPEED) microscopy that combines high-speed SMF microscopy and a 2D-to-3D transformation algorithm in the studies of nuclear transport kinetics and route for mRNAs. Finally, we summarize the new features of mRNA nuclear export found with SPEED microscopy as well as the reliability and accuracy of SPEED microscopy in mapping the 3D spatial locations of transport routes adopted by proteins and mRNAs through the NPCs.
"Synthesizing Input Grammars": A Replication Study
Creators: name: Bendrissou, Bachir
name: Gopinath, Rahul
name: Zeller, Andreas
Publisher: name: CISPA
Year: 2023

description: When producing test inputs for a program, test generators ("fuzzers") can greatly profit from grammars that formally describe the language of expected inputs. In recent years, researchers thus have studied means to _recover_ input grammars from programs and their executions. The GLADE algorithm by Bastani et al., published at PLDI 2017, was the first black-box approach to claim context-free approximation of input specification for non-trivial languages such as XML, Lisp, URLs, and more. Prompted by recent observations that the GLADE algorithm may show lower performance than reported in the original paper, we have reimplemented the Glade algorithm from scratch. Our evaluation confirms that the effectiveness score (F1) reported in the GLADE paper is overly optimistic, and in some cases, based on the wrong language. Furthermore, GLADE fares poorly in several real-world languages evaluated, producing grammars that spend megabytes to enumerate inputs.
Ubiquitous quasi-Fuchsian surfaces in cusped hyperbolic 3-manifolds
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: math.GT
math.GR
57M50, 30F40, 20H10, 20F65

description: This paper proves that every finite volume hyperbolic 3-manifold M contains a ubiquitous collection of closed, immersed, quasi-Fuchsian surfaces. These surfaces are ubiquitous in the sense that their preimages in the universal cover separate any pair of disjoint, non-asymptotic geodesic planes. The proof relies in a crucial way on the corresponding theorem of Kahn and Markovic for closed 3-manifolds. As a corollary of this result and a companion statement about surfaces with cusps, we recover Wise's theorem that the fundamental group of M acts freely and cocompactly on a CAT(0) cube complex.
Stochastic thermodynamics under coarse-graining
Creators: name: Esposito, Massimiliano
Publisher: name: arXiv
Year: 2011
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: A general formulation of stochastic thermodynamics is presented for open systems exchanging energy and particles with multiple reservoirs. By introducing a partition in terms of "macrostates" (e.g. sets of "microstates"), the consequence on the thermodynamic description of the system is studied in detail. When microstates within macrostates rapidly thermalize, the entire structure of the microscopic theory is recovered at the macrostate level. This is not the case when these microstates remain out of equilibrium leading to additional contributions to the entropy balance. Some of our results are illustrated for a model of two coupled quantum dots.
description: 12 pages, 3 figures
Tobacco Use Among Transgender and Gender Non-conforming Adults in the United States
Creators: name: (:Unkn) Unknown
Publisher: name: My University
Year: 2019
Subjects: cigars
combustible cigarettes
electronic nicotine products
gender identity
health disparities

description: Background: Findings from previous population-based studies are in conflict regarding the relative use of tobacco products among transgender populations compared with their cisgender counterparts. The purpose of this study was to estimate the prevalence of current tobacco use among transgender persons in the United States and evaluate differences in relative use between transgender and cisgender respondents. Methods: This was a secondary analysis of data from the Population Assessment of Tobacco and Health (PATH) Study Wave 2 (October 2014 and October 2015). Differences in current use of cigarettes, e-cigarettes, and cigars were examined between self-identified transgender (n = 151) and cisgender (n = 27 557) respondents. Results: In multivariable analyses, transgender identity was not associated with any of the 3 tobacco behaviors or the summary measure of tobacco use (ie, any current use of cigarettes, e-cigarettes, or cigars). In each of the models, female binary sex (compared with male), older age, Hispanic ethnicity (compared with non-Hispanic white), higher household income, and higher educational attainment were independently associated with lower odds of current use of cigarettes, e-cigarettes, or cigars, whereas sexual minority identity (ie, gay/lesbian or bisexual) was independently associated with higher odds of use. Conclusions: The prevalence of the use of cigarettes, e-cigarettes, and cigar use was statistically equivalent between transgender and cisgender populations in this national study of adults in the United States, which differs from previous research showing higher rates of tobacco use among transgender individuals. Differences in tobacco use that were identified were fully explained by sociodemographic characteristics (eg, income and education) between the transgender and cisgender populations.