cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Biologic and Genetic Basis of a Histological Risk Assessment of Early Recurrence/Metastasis in Paragangliomas
Creators: name: Diaz-Cano, Salvador J.
name: Talat, Nadia
name: Blanes, Alfredo
name: Klaus-Martin Schulte
Publisher: name: figshare
Year: 2017
Subjects: subject: 111201 Cancer Cell Biology
subject: FOS: Clinical medicine
subject: 111202 Cancer Diagnosis
subject: 111203 Cancer Genetics
subject: Diseases
subject: 110306 Endocrinology
subject: 111207 Molecular Targets
subject: Pathogenesis
subject: 110316 Pathology (excl. Oral Pathology)
subject: 111209 Solid Tumours

description: Background: Mid-term outcome information in risk stratified patient cohort is needed to inform prognosis in individual patients with paragangliomas (PGL), adjuvant therapy choice and future research. The objective is to define the genetic features setting a PGL histological risk stratification scheme of early recurrences/metastasis. Design: A classification scheme for PGLs was devised, and specimens were assessed for invasion capacity (infiltrative edges, extra-adrenal extension, capsular and peritumoral vascular invasion), tumorigenic expansion, necrosis, and mitogenic activity. Patients were prospectively stratified as low histological risk (LHR) or high risk (HHR, presence of at least one feature of invasive capacity and two features of tumorigenic expansion). Patients underwent regular treatment and follow-up for their PGLs in a tertiary referral center. Whole-exome sequencing was performed on tumor and normal tissue samples, using a Random Forest machine learning approach to compare LHR vs. HHR for early recurrence/metastasis. Predictive Model Analysis Pipeline and Methods ► Functional somatic mutations unique to tumors were identified and represented as a samples x genes mutation matrix (mutated=1, non-mutated=0). ► Pairwise Random Forest models were built for each diagnostic category ► Variable selection was conducted using Fisher's Exact test with 5x10 fold cross validation design, measuring predictive accuracy in independent test sets. Results: Disease-free survival was significantly lower in HHR patients 0% vs 78.4% (p=0.004). Histological risk stratification predicts DFS with AUC of 0.8 (95% CI: 0.69-0.90; p<0.01). 7/37 HHR patients had a synchronous diagnosis of malignancy based on other criteria and four patients suffered a local recurrence. The HHR-predictive genes included ARID1A (P=5.13E-09), AKT3 (P=3.57E-08), MAX gene associated (P=6.86E-11), PIK3CA (P=1.35E-09), ELK3 (P=8.03E-16), MAP3K12 (P=4.17E-21), and TP53 (P=3.12E-40), being the accumulation of genetic abnormalities the best predictor. Conclusions: Histologic risk stratification of early recurrence/metastasis is genetically defined by the accumulation of alterations in the proliferation and cell survival pathways. A high-risk status is associated with high risk of malignancy and disease recurrence.
Optimization Techniques for Protein-Protein Co-Regulation and Interaction Prediction
Creators: name: Gremalschi, Stefan
Publisher: name: Georgia State University
Year: 2009

description: The availability of large gene expression microarray data has brought along many challenges for biological data mining. Many different clustering methods have been proposed
and widely used to analyze gene expression data. The underlying concept allows to identify
sets of genes sharing similar expression patterns across subsets of samples, and its usefulness
has been demonstrated for different organisms and data sets. Currently, there are several
biclustering methods that use different techniques; however, it is not clear how to compare the resulted biclusters with respect to biological relevance. So far, there are no available guidelines for choosing a biclustering technique from available ones.
In this work, we propose two new Mean Squared Residue (MSR) based biclustering methods. The first method is a dual biclustering algorithm which finds a set of biclusters using a greedy approach. The second method combines dual biclustering algorithm with quadratic programming. The dual biclustering algorithm reduces the size of the matrix, so that the quadratic program can find an optimal bicluster reasonably fast. We also describe the comparison method, explain how we handle bicluster’s overlap and how we treat missing data.
Predicting Protein Calcium Binding Sites
Creators: name: Wang, Xue
Publisher: name: Georgia State University
Year: 2009

description: Calcium is one of the closely relevant metal ions that involves in enormous physicochemical activities in human body, including cell division and apoptosis, muscle contraction, neurotransmitter release, enzyme activation, and blood-clotting. Calcium fulfills its functions through the binding to different classes of calcium-binding proteins. To facilitate our understanding of the roles of calcium in biological systems, and to design novel metal-binding proteins with tailored binding capabilities, it is important to develop computation algorithms to predict calcium-binding sites in different classes of proteins.

In literature, calcium-binding sites may be represented by either a spacial point, or the set of residues chelating calcium ion. A thorough statistical analysis of known calcium-binding proteins deposited in Protein Data Bank gives reference values of various parameters characterizing geometric and chemical features in calcium-binding sites including distances, angles, dihedral angles, the Hull property, coordination numbers, ligand types and formal charges. It also reveals clear differences between the well-known EF-hand calcium-binding motif and other calcium-binding motifs.

Utilizing the above multiple geometric and chemical parameters in well-formed calcium binding sites, we developed MUG (MUltiple Geometries) program. MUG can re-identify the coordinates of the documented calcium ion and the set of ligand residues. Three previously published data sets were tested. They are comprised of, respectively, 19, 44 and 54 holo protein structures with 48, 92 and 91 documented calcium-binding sites. Defining a "correct hit" as a point within 3.5 angstrom to the documented calcium location, MUG has a sensitivity around 90% and selectivity around 80%. The set of ligand residues (calcium-binding pockets) were identified for 43, 66 and 63 documented calcium ion in these three data set respectively.

In order to achieve true prediction, our program was then enhanced to predict calcium-binding pockets in apo (calcium-free) proteins. Our new program MUGSR accounts for the conformational changes involved in calcium-binding pockets before and after the binding of calcium ions. It is able to capture calcium binding pockets that may undergo local conformational changes or side chain torsional rotations, which is validated by referring back to the corresponding holo protein structure sharing more than 98% sequence similarity with the apo protein.
title: PFC: Enquête Vendée
Creators: name: Modèles, Dynamiques
name: Laks, Bernard
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2011
Subjects: subject: Français
subject: fra
subject: L'école, le travail, la vie à Treize-Vents, les amis, la famille.
subject: phonologie du français
subject: Dialecte de Centre
subject: phonetics
subject: phonology
subject: text_and_corpus_linguistics

description: Annotation du fichier de transcription PRAAT de la conversation guidée
description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
Vortex-Induced Vibration Research of Flat Steel Box Girder With Large Wind Attack Angle
Creators: name: Yang, Yang
name: Zhang, Liang Liang
name: Yao, Jia Lin
name: Sun, Yu Jia
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
PBPK modelling on the Jaqpot web platform - a PAA-peg nanoparticles case study
Creators: name: Tsiros, Periklis
name: Li, Dingsheng
name: Karatzas, Pantelis
name: Doganis, Philip
name: Sarimveis, Haralambos
Publisher: name: Zenodo
Year: 2020
Subjects: PBPK
modelling
nanosafety
nanoinformatics
Jaqpot

description: Jaqpot is a computational platform developed by NTUA, that facilitates in silico modelling, by enabling the systematic production, collection, organization, validation, storage and sharing of predictive models, with emphasis on predictive toxicology. A particular type of models that can be hosted in the Jaqpot environment are the so called Physiologically-based pharmacokinetic (PBPK) models which are used for describing and predicting the biokinetics of chemicals and pharmaceutical drugs. PBPK modelling of Nanomaterials (NMs) is more challenging due to their complicated in vivo disposition properties compared to conventional chemicals. The scientific community has addressed this problem, mainly by augmenting the system of differential equations for describing the concentration of NPs in different tissues and organs as a function of time. One such PBPK model has been developed by Li et al. (2014) for modelling the biokinetics of polyethylene glycol-coated polyacrylamide (PAA-peg) NPs in the rat. In this work we present the implementation of this PBPK model as a web service in the Jaqpot modelling platform. This development is part of the transnational access (TA) activities of the NanoCommons EU Horizon 2020 project, aiming to increase the visibility of the model and allow simulation and testing of different biodistribution scenarios by users.
description: {"references": ["Jones, H.M., Rowland\u2010Yeo, K., Basic concepts in physiologically based pharmacokinetic modeling in drug discovery and development. CPT Pharmacometrics Syst Pharmacol, 2013. 2:e63. doi: https://doi.org/10.1038/psp.2013.41", "Yuan, D., He, H., Wu, Y., Fan, J., Cao, Y., Physiologically Based Pharmacokinetic Modeling of Nanoparticles. J Pharm Sci, 2019. 108(1): p. 58\u201372. doi: https://doi.org/10.1016/j.xphs.2018.10.037", "3. Li, D., Johanson, G., Emond, C., Carlander, U., Philbert, M., Jolliet, O., Physiologically based pharmacokinetic modeling of polyethylene glycol-coated polyacrylamide nanoparticles in rats.Nanotoxicology, 2014. 8: p. 128\u2013137. doi: https://doi.org/10.3109/17435390.2013.863406"]}
Connected Dominating Set Construction and Application in Wireless Sensor Networks
Creators: name: Wu, Yiwei
Publisher: name: Georgia State University
Year: 2009

description: Wireless sensor networks (WSNs) are now widely used in many applications. Connected Dominating Set (CDS) based routing which is one kind of hierarchical methods has received more attention to reduce routing overhead. The concept of k-connected m-dominating sets (kmCDS) is used to provide fault tolerance and routing flexibility. In this thesis, we first consider how to construct a CDS in WSNs. After that, centralized and distributed algorithms are proposed to construct a kmCDS. Moreover, we introduce some basic ideas of how to use CDS in other potential applications such as partial coverage and data dissemination in WSNs.
Utilization of UV-Vis spectroscopy and related data analyses for dissolved organic matter (DOM) studies: A review
Creators: name: Penghui Li
name: Hur, Jin
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Space Science
subject: Medicine
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: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy

description: Despite the popular use of UV-Vis spectroscopy for dissolved organic matter (DOM) studies, many of the derived parameters and the related methods have been rather limitedly used for certain areas of DOM studies, which warrants the extension of their applications into a wider range of research topics as well as critical comparison of individual parameters. In this review, we comprehensively compared the UV-Vis spectroscopy–based DOM parameters widely used for the last few decades, aiming to broaden our knowledge about the utilization of the spectra for DOM studies through bridging the gaps between different research areas (e.g., natural versus engineered systems). The parameters for chromophoric DOM (CDOM) addressed here encompass absorption coefficient, absorption ratios, spectral slopes, derivative and differential spectra, Gaussian decomposition, and two-dimensional correlation analysis. The benefit of using such parameters could be maximized in complementary uses both for static environments and dynamic processes. For the fullest utilization of the spectral potential, it is recommended to open the raw UV-Vis spectra and the measurement conditions (solution chemistry, types of water, wavelengths, derivation methods, etc) to the public, which can enhance global comparison and our understanding of the fate and the distribution of CDOM and the dynamics in various aquatic environments.
Suppression of Antiferromagnetic Order by Strain in Honeycomb Cobaltate: Implication for Quantum Spin Liquid
Creators: name: Kim, Gye-Hyeon
name: Park, Miju
name: Choi, Uksam
name: Kang, Baekjune
name: Seo, Uihyeon
name: Ji, GwangCheol
name: Noh, Seunghyeon
name: Cho, Deok-Yong
name: Yoo, Jung-Woo
name: Ok, Jong Mok
name: Sohn, Changhee
Publisher: name: arXiv
Year: 2023
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: Recently, layered honeycomb cobaltates have been predicted as a new promising system for realizing the Kitaev quantum spin liquid, a many-body quantum entangled ground state characterized by fractional excitations. However, these cobaltates, similar to other candidate materials, exhibit classical antiferromagnetic ordering at low temperatures, which impedes the formation of the expected quantum state. Here, we demonstrate that the control of the trigonal crystal field of Co ions is crucial to suppress classical antiferromagnetic ordering and to locate its ground state in closer vicinity to quantum spin liquid in layered honeycomb cobaltates. By utilizing heterostructure engineering on Cu3Co2SbO6 thin films, we adjust the trigonal distortion of CoO6 octahedra and the associated trigonal crystal field. The original Néel temperature of 16 K in bulk Cu3Co2SbO6 decreases (increases) to 7.8 K (22.7 K) in strained Cu3Co2SbO6 films by decreasing (increasing) the magnitude of the trigonal crystal fields. Our experimental finding substantiates the potential of layered honeycomb cobaltate heterostructures and strain engineering to accomplish the extremely elusive quantum phase of matter.
Some Statistical Aspects of Grid Turbulence at Higher Reynolds Numbers
Creators: name: Yang, Yang
name: Li, Mingshui
name: Liao, Haili
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
title: 01_1895
Creators: name: Wesley Baldwin, John
name: Baldwin, John W.
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2018
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: L'ensemble de ces notes ont été crée par John Baldwin lors d'une de ses premières périodes de résidence à Paris. Ces documents comprennent tous les magistri qu’il avait pu rencontrer dans ses sources. Aux XIIème et XIIIème siècles, les universités n'existant pas encore, le titre de magister s'il évoque certainement une compétence n'est pas rattaché de façon systématique au passage par les écoles. De surcroît, les magistris sont le plus souvent désignés par leur seul prénom. La lecture de ces données est donc difficile et suppose un long travail pour tenter d'identifier un individu auquel on pourrait rattacher plusieurs mentions. John Baldwin avait donc renoncé à utiliser ces données pour donner un prolongement à sa magnifique étude sur les gradués d'université et leur emploi par les Capétiens et les Plantagenêts. Néanmoins, il a conservé ces données et elles sont potentiellement très utile dans le cadre de Studium, comme le sont toutes les mentions dans les volumes des Fasti Ecclesiae Gallicanae de chanoines portant ce titre de magister sans autres précisions. L'ampleur des dépouillements rend ces données très utiles et nous devons une grande reconnaissance à John Baldwin pour avoir pris la peine de faire photocopier ses fiches et de nous les avoir transmises amicalement.
Les données ainsi que les images des fiches sont accessibles sur le site Internet à l'adresse suivante : http://studium-baldwin.lamop.fr/.
Les transcriptions des fiches ont été effectuées par des étudiants de Paris 1 Panthéon - Sorbonne mais elles n'ont pas été corrigées par la suite.
description: Relation: https://lamop.hypotheses.org/
Using Network Traffic to Infer CPU and Memory Utilization for Cluster Grid Computing Applications
Creators: name: Watkins, Lanier
Publisher: name: Georgia State University
Year: 2010

description: In this body of work, we present the details of a novel method for passive resource discovery in cluster grid environments where resources constantly utilize inter-node communication. Our method offers the ability to non-intrusively identify resources that have available memory or CPU cycles; this is critical for lowering queue wait times in large cluster grid networks, and for memory-intensive cluster grid applica-tions such as Gaussian (computational chemistry package) and the Weather Research and Forecasting (WRF) modeling package. The benefits include: (1) low message complexity, (2) scalability, (3) load bal-ancing support, and (4) low maintainability. Using several test-beds (i.e., a small local test-bed and a 50-node Deterlab test-bed), we demonstrate the feasibility of our method with experiments utilizing TCP, UDP and ICMP network traffic. Using this technique, we observed a correlation between memory or CPU load and the timely response of network traffic. In such situations, we have observed that in highly utilized (due to multi-programming) nodes there will be numerous, active processes which require context switching or paging. The latency associated with numerous context switches or paging manifests as a de-lay signature within the packet transmission process. Our method detects this delay signature to determine the utilization of network resources. The aforementioned delay signature is the keystone that provides a correlation between network traffic and the internal state of the source node. We characterize this delay signature due to CPU utilization by (1) identifying the different types of assembly language instructions that source this delay and (2) describing how performance-enhancing techniques (e.g., instruction pipelin-ing, caching) impact this delay signature by using the LEON3, implemented as a 40 MHz development board. At the software level, results for medium sized networks show that our method can consistently and accurately identify nodes with available memory or CPU cycles (< 70% availability). At the hardware level, our results show that excessive context switching in active applications increases the average mem-ory access time, thus adding additional delay to the execution of LD instructions. Additionally, internal use of these instructions in heavily utilized situations to send network packets induces the delay signature into network traffic.
Structure of the Hamiltonian of mean force
Creators: name: Burke, Phillip C.
name: Nakerst, Goran
name: Haque, Masudul
Publisher: name: arXiv
Year: 2023
Subjects: subject: Quantum Physics (quant-ph)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: The Hamiltonian of mean force is an effective Hamiltonian that allows a quantum system, non-weakly coupled to an environment, to be written in an effective Gibbs state. We present results on the structure of the Hamiltonian of mean force in extended quantum systems with local interactions. We show that its spatial structure exhibits a ``skin effect'' -- its difference from the system Hamiltonian dies off exponentially with distance from the system-environment boundary. For spin systems, we identify the terms that can appear in the Hamiltonian of mean force at different orders in the inverse temperature.
description: v2: Updated with changes made for publication in Phys. Rev. E. -- Main text: 6 pages, 4 figures. Supplemental: 5 pages, 7 figures. Original version -- Main text: 6 pages, 4 figures. Supplemental: 4 pages, 6 figures
Evaluation of Mass and Damping Effects for Structures with Flexible Envelope and Dominant Opening
Creators: name: Zhang, Jingyao
name: Kopp, Gregory
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Numerical analysis of particle motion and collision of surround U-clevis in windy and sandy environment
Creators: name: Zhang, Pu
name: Yan, Zhi-tao
name: Wang, Ling-zhi
name: You, Yi
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Optimal strategy for VAC system in metro station of small and medium size city
Creators: name: Zhang, Yue
name: Li, Xiaofeng
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Aerodynamic Force Time-frequency Evolution Characteristics of the Streamlined Closed-box Girder during Vortex-induced Vibration
Creators: name: Zhao, Lin
name: Hu, Chuanxin
name: Chen, Haixin
name: Ge, Yaojun
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Revision Strategy and Self-Diagnosis in Italian L1 and L2 Argumentative Essays
Creators: name: Martari, Yahis
Publisher: name: Università Ca’ Foscari Venezia, Italia
Year: 2020

description:

The present study investigates the effects of Revision Strategy (RS) on Argumentative Essay (AE) writing. Specifically, the study provides an analysis of 58 short AEs written by L1 and L2 university students. Two different levels of errors are examined: linguistic (Spelling, (Morpho)syntax, Lexicon, Syntax, Punctuation) and structure (Text structure and Coherence) errors, in order to measure how RS influences the texts. The comparison between RS and non-RS samples shows a significant difference in favour of texts with RS. In fact, we can surmise that RS positively influences text production both in L1 and L2 writing. In the third section we provide a quantitative analysis of the errors and we find some common issues within the specific rhetorical and linguistic framework of AE.

description: EL.LE
title: Meghan Rothenberger, et al. "Brief Interruption of HIV Antiretroviral Therapy in Patients with Preserved CD4 Count and Virologic Suppression is Safe and Well Tolerated"
Creators: name: Rothenberger, Meghan
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020

description: Abstract extrait du site web https://idsa.confex.com/idsa/2012/webprogram/Paper36973.html.
description: Source: http://www.calames.abes.fr/pub/ms/Calames-201931112328303109
description: Relation: https://idsa.confex.com/idsa/2012/webprogram/Paper36973.html
The Discussion of Wind-induced Interference Effects of Large Cooling Towers Considering Wind Direction
Creators: name: Zhao, Lin
name: Zhao, Shiyu
name: Ge, Yaojun
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Large Eddy Simulation of Flow around Two Adjacent Tall Buildings
Creators: name: Zheng, Deqian
name: Tang, Yi
name: Gu, Ming
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Aerodynamic Derivative Identification Method of Parallel Twin-girder Bridges by Mixed Forced vibration Wind Tunnel Test
Creators: name: Zhou, Qi
name: Zhu, Ledong
name: Zhou, Cheng
name: Guo, Zhenshan
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Information on early menopause: is the internet the place to search?
Creators: name: J. Aleksova
name: M. Kuczynska-Burggraf
name: S. Ranasinha
name: A. Vincent
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Evolutionary Biology
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: Objective: Early menopause (EM), menopause before 45 years, affects up to 10% of women. The internet was perceived by women with EM to be the best source of information regarding EM; however, the reality is unknown. The aim of this study was to assess the quality and content of easily accessible websites relating to EM. Methods: The keyword ‘early menopause’ was used for a web search using Google. The first two pages of results, plus an additional five websites, were analyzed for website quality and content by two independent reviewers according to published methodology. Results: After excluding duplicates, 26 websites were analyzed. Geographical origin of Google domain conferred 32–53% search congruity. Commercial websites (10/26) and inclusion of advertisements (50%) were common. Few websites listed authorship (39%) or provided references (54%), and only 35% were quality certified. Most (54%) had a readability level above recommended. Median score for website content was 9/20. Medical society websites did not rank higher than other website categories for content but more frequently provided references/supporting data (p = 0.017). Conclusion: Easily accessible websites regarding EM have significant deficiencies in quality and content. This study indicates the need for higher-quality internet resources for women seeking EM information.
A LES investigation of flow over two tandem circular cylinders at an intermediate Reynolds number
Creators: name: Zhou, Qiang
name: Li, Zhiguo
name: Liao, Haili
name: Li, Mingshui
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
Effects of Turbulence and Nonuniformly Distributed Mean Wind on Vortex-induced Vibration of a Long-span Bridge
Creators: name: Zhu, Qing
name: Xu, You-Lin
name: Zhu, Le-Dong
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
The contribution of cold air pooling to the distribution of a rare and endemic plant of the Alps
Creators: name: Patsiou, Theofania S.
name: Conti, Elena
name: Theodoridis, Spyros
name: Randin, Christophe F.
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Plant Biology

description: Background: The topographic complexity typical of alpine landscapes creates a variety of (micro)climatic conditions that may mitigate the effects of a warming climate on alpine plants via such mechanisms as cold air pooling (CAP). Aims: Our primary objectives were to (1) assess whether landscape potential for CAP as a predictor improved species distribution models (SDMs) projections and (2) quantify the impact of CAP on the microclimate experienced by alpine plants compared to the macroclimate. Methods: We selected the Maritime Alps as our study area, located on the French–Italian border, and its rare endemic plant, Saxifraga florulenta, as model taxon. We generated a spatial layer in GIS (Geographic Information System) that reflected the potential of the landscape for CAP and ran five SDM algorithms with and without CAP layer as a predictor. Second, we recorded the microclimate plants experience with temperature loggers. Results:CAP as a predictor decreased the omission error of SDMs, mostly at low and mid elevations, where topography may buffer extreme temperatures, resulting in a more stable microclimate compared to macroclimate. Conclusions: We have shown that plants in an alpine landscape may be less exposed to climate warming than predicted by macroclimate. Topo-climatic GIS layers for SDM projections in mountain environments should integrate such physical mechanisms as CAP.
Real-time Physics Based Simulation for 3D Computer Graphics
Creators: name: Chen, Xiao
Publisher: name: Georgia State University
Year: 2013

description: Restoration of realistic animation is a critical part in the area of computer graphics. The goal of this sort of simulation is to imitate the behavior of the transformation in real life to the greatest extent. Physics-based simulation provides a solid background and proficient theories that can be applied in the simulation. In this dissertation, I will present real-time simulations which are physics-based in the area of terrain deformation and ship oscillations.
When ground vehicles navigate on soft terrains such as sand, snow and mud, they often leave distinctive tracks. The realistic simulation of such vehicle-terrain interaction is important for ground based visual simulations and many video games. However, the existing research in terrain deformation has not addressed this issue effectively. In this dissertation, I present a new terrain deformation algorithm for simulating vehicle-terrain interaction in real time. The algorithm is based on the classic terramechanics theories, and calculates terrain deformation according to the vehicle load, velocity, tire size, and soil concentration. As a result, this algorithm can simulate different vehicle tracks on different types of terrains with different vehicle properties. I demonstrate my algorithm by vehicle tracks on soft terrain.
In the field of ship oscillation simulation, I propose a new method for simulating ship motions in waves. Although there have been plenty of previous work on physics based fluid-solid simulation, most of these methods are not suitable for real-time applications. In particular, few methods are designed specifically for simulating ship motion in waves. My method is based on physics theories of ship motion, but with necessary simplifications to ensure real-time performance. My results show that this method is well suited to simulate sophisticated ship motions in real time applications.
Numerical Evaluation of Nonlinear Coupled Galloping of A Slender Tower
Creators: name: Zuo, Delong
name: Wu, Liang
Publisher: name: The University of Auckland
Year: 2017
Subjects: classificationCode: 409999
subject: Other engineering not elsewhere classified

description: This paper was reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
title: PFC: Enquête Vendée
Creators: name: Modèles, Dynamiques
name: Laks, Bernard
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2011
Subjects: subject: Français
subject: fra
subject: Le¨Puy du Fou, le théatre, Treize-Vents.
subject: phonologie du français
subject: Dialecte de Centre
subject: phonetics
subject: phonology
subject: text_and_corpus_linguistics

description: Annotation du fichier de transcription PRAAT de la conversation guidée
description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
Preparation and characteristics of the sulfonated chitosan derivatives electrodeposited onto 316l stainless steel surface
Creators: name: Huang, Ye
name: Peng, Guangjia
name: Chen, Bin
name: Yong, Ping
name: Yao, Nan
name: Yang, Liming
name: P. Pirraco, Rogério
name: Reis, Rui L.
name: Chen, Jie
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Physical Sciences not elsewhere classified
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Plant Biology

description: In order to ameliorate the properties of corrosion resistance and achieve applications in anti-biofouling of 316L stainless steel (SS), a sulfated derivative of chitosan was deposited onto stainless steel surface by an electrochemical method. In detail, chitosan-catechol (CS-CT) was synthesised in the hydrochloric acid solution by the Mannich reaction and then electrodeposited on the surface of the polished 316L stainless steel. The chitosan-catechol deposited SS sample was further modified with maleic anhydride and sulfite. The grafting progress was monitored by FTIR, UV spectrophotometer and X-ray photoelectron spectroscopy. Hydrophilicity and corrosion resistance of modified SS were characterized by water contact angle measurements, Tafel curves and electrochemical impedance spectroscopy. The morphology of the SS surface before and after the modification was investigated by atomic force microscopy and scanning electron microscope. Further, the anti-biofouling performance in terms of the anti-adsorption protein and anti-bacteria effects of all modified SS samples were estimated, and the modified 316L exhibits the capability of lower protein adsorption and improved antibacterial effect.
Preparation and Characteristics of the Sulfonated Chitosan Derivatives Electrodeposited onto 316L Stainless Steel Surface
Creators: name: Huang, Ye
name: Peng, Guangjia
name: Chen, Bin
name: Yong, Ping
name: Yao, Nan
name: Yang, Liming
name: P. Pirraco, Rogério
name: Reis, Rui L.
name: Chen, Jie
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Physical Sciences not elsewhere classified
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Plant Biology

description: In order to ameliorate the properties of corrosion resistance and achieve applications in anti-biofouling of 316L stainless steel (SS), a sulfated derivative of chitosan was deposited onto stainless steel surface by an electrochemical method. In detail, chitosan-catechol (CS-CT) was synthesized in the hydrochloric acid solution by the Mannich reaction and then electrodeposited on the surface of the polished 316L stainless steel. The chitosan-catechol deposited SS sample was further modified with maleic anhydride and sulfite. The grafting progress was monitored by FTIR, UV spectrophotometer and X-ray photoelectron spectroscopy (XPS). Hydrophilicity and corrosion resistance of modified SS were characterized by water contact angle measurements, Tafel curves and electrochemical impedance spectroscopy (EIS). The morphology of the SS surface before and after the modification was investigated by atomic force microscopy (AFM) and scanning electron microscope (SEM). Further, the anti-biofouling performance in terms of the anti-adsorption protein and anti-bacteria effects of all modified SS samples were estimated, and the modified 316L exhibits the capability of lower protein adsorption and improved antibacterial effect.
Intermittent fasting preserves beta-cell mass in obesity-induced diabetes via the autophagy-lysosome pathway
Creators: name: Liu, Haiyan
name: Javaheri, Ali
name: J. Godar, Rebecca
name: Murphy, John
name: Ma, Xiucui
name: Rohatgi, Nidhi
name: Mahadevan, Jana
name: Hyrc, Krzysztof
name: Saftig, Paul
name: Marshall, Connie
name: L. McDaniel, Michael
name: Remedi, Maria S.
name: Razani, Babak
name: Urano, Fumihiko
name: Diwan, Abhinav
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Statistics
subject: FOS: Mathematics
subject: Hematology
subject: Computational Biology

description: Obesity-induced diabetes is characterized by hyperglycemia, insulin resistance, and progressive beta cell failure. In islets of mice with obesity-induced diabetes, we observe increased beta cell death and impaired autophagic flux. We hypothesized that intermittent fasting, a clinically sustainable therapeutic strategy, stimulates autophagic flux to ameliorate obesity-induced diabetes. Our data show that despite continued high-fat intake, intermittent fasting restores autophagic flux in islets and improves glucose tolerance by enhancing glucose-stimulated insulin secretion, beta cell survival, and nuclear expression of NEUROG3, a marker of pancreatic regeneration. In contrast, intermittent fasting does not rescue beta-cell death or induce NEUROG3 expression in obese mice with lysosomal dysfunction secondary to deficiency of the lysosomal membrane protein, LAMP2 or haplo-insufficiency of BECN1/Beclin 1, a protein critical for autophagosome formation. Moreover, intermittent fasting is sufficient to provoke beta cell death in nonobese lamp2 null mice, attesting to a critical role for lysosome function in beta cell homeostasis under fasting conditions. Beta cells in intermittently-fasted LAMP2- or BECN1-deficient mice exhibit markers of autophagic failure with accumulation of damaged mitochondria and upregulation of oxidative stress. Thus, intermittent fasting preserves organelle quality via the autophagy-lysosome pathway to enhance beta cell survival and stimulates markers of regeneration in obesity-induced diabetes.
Supplementary Material for: Do Listeners Store in Memory a Speaker’s Habitual Utterance-Final Phonation Type?
Creators: name: Bőhm, T.
name: Shattuck-Hufnagel, S.
Publisher: name: Karger Publishers
Year: 2017
Subjects: Medicine

description: Earlier studies report systematic differences across speakers in the occurrence of utterance-final irregular phonation; the work reported here investigated whether human listeners remember this speaker-specific information and can access it when necessary (a prerequisite for using this cue in speaker recognition). Listeners personally familiar with the voices of the speakers were presented with pairs of speech samples: one with the original and the other with transformed final phonation type. Asked to select the member of the pair that was closer to the talker’s voice, most listeners tended to choose the unmanipulated token (even though they judged them to sound essentially equally natural). This suggests that utterance-final pitch period irregularity is part of the mental representation of individual speaker voices, although this may depend on the individual speaker and listener to some extent.
Liver cancer mapping based on actual medical treatment choices
Creators: name: Weng, Min
name: Liu, Tingting
name: Kang, Mengjun
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Pharmacology
subject: Ecology
subject: FOS: Biological sciences
subject: Science Policy
subject: Mental Health
subject: Plant Biology

description: The allocation of medical resources is usually inappropriate in China because it is mainly based on the population of each administrative area. In real life, individual patients make choices based on numerous other factors, such as the quality of medical service, the service capacity of certain hospitals and their own income level. This study aims to reveal the differences between theoretical medical resource allocation and the actual medical treatment choices of liver cancer patients in Shenzhen, China, based on case data from 2010 to 2012. Two categories with six group maps are used to illustrate this situation, including independent charts and analytical method-based thematic maps. Meaningful conclusions are then proposed to improve medical resource allocation.
Methods for Viral Population Analysis
Creators: name: Artyomenko, Alexander
Publisher: name: Georgia State University
Year: 2017

description: The ability of Next-Generation Sequencing (NGS) to produce massive quantities of genomic data inexpensively has allowed to study the structure of viral populations from an infected host at an unprecedented resolution. As a result of a high rate of mutation and recombination events, an RNA virus exists as a heterogeneous "swarm". Virologists and computational epidemiologists are widely using NGS data to study viral populations. However, discerning rare variants is muddled by the presence of errors introduced by the sequencing technology. We develop and implement time- and cost-efficient strategy for NGS of multiple viral samples, and computational methods to analyze large quantities of NGS data and to handle sequencing errors. In particular, we present: (i) combinatorial pooling strategy for massive NGS of viral samples; (ii) kGEM and 2SNV — methods for viral population haplotyping; (iii) ShotMCF — a Multicommodity Flow (MCF) based method for frequency estimation of viral haplotypes; (iv) QUASIM — an agent-based simulator of viral evolution taking in account viral variants and immune response.
Supporting Information from Semisynthesis and insecticidal activity of some novel fraxinellone-based thioethers containing 1,3,4-oxadiazole moiety
Creators: name: Guo, Yong
name: Wang, Xiaoguang
name: Fan, Jiangping
name: Zhang, Qian
name: Wang, Yi
name: Zhao, Yi
name: Huang, Mengxing
name: Ding, Ming
name: Zhang, Yanbing
Publisher: name: The Royal Society
Year: 2017

description: Spectra data of compounds 4e–k and 5e–k.
title: PFC: Enquête Roanne
Creators: name: Modèles, Dynamiques
name: Laks, Bernard
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2011
Subjects: subject: Français
subject: fra
subject: Formel: vie professionnelle Informelle: problèmes dans la vie professionnelle
subject: phonologie du français
subject: Dialecte de Rhône Alpes
subject: phonetics
subject: phonology
subject: text_and_corpus_linguistics

description: Annotation du fichier de transcription PRAAT de la conversation guidée
description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7
Figure S1;Figure S2 from Construction of a junction DNA nanostructure and modulation of the junction switching to quadruplexes
Creators: name: Cao, Yanwei
name: Xiang, Xiaoxuan
name: Pei, Renjun
name: Li, Yang
name: Yan, Yuting
name: Guo, Xinhua
Publisher: name: The Royal Society
Year: 2017

description: Figure S1. Normalized UV melting curves of d(G4T4G4) at 295 nm annealed in pH 4.5 buffer solutions with 100 mM K+ or 100 mM Na+ indicated by black and red lines, respectively; the final DNA concentration is 20 μM for UV melting experiments.;Figure S2. (a) 8% native PAGE image of junction DNA nanostructures, lane 1: DNA sample 3, lane 2: the molecular mass ladder, lane 3: DNA sample 7 (the 1: 1 mixtures of two C-rich and two G-rich DNA strands were annealed separately in 50 mM LiOAc buffer at pH 6.7 for four days, and then the two DNA samples were further mixed and equilibrated using the method for preparing DNA sample 3); (b) the AFM image with the scale bar of 500 nm corresponding to DNA sample 7
title: PFC: Enquête Vendée
Creators: name: Modèles, Dynamiques
name: Laks, Bernard
Publisher: name: COCOON - https://cocoon.huma-num.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2011
Subjects: subject: Français
subject: fra
subject: la famille de l'enquêté, la famille de l'enquêtrice, la guerre, la déportation, Treize-Vents.
subject: phonologie du français
subject: Dialecte de Centre
subject: phonetics
subject: phonology
subject: text_and_corpus_linguistics

description: Annotation du fichier de transcription PRAAT de la conversation libre
description: Conforms to: doi:10.34847/cocoon.49aefa90-8c1f-3ba8-a099-0ebefc6a2aa7