cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Salinity preferences : an orientation mechanism in salmon migration.
Creators: name: McInerney, John Edward
Publisher: name: University of British Columbia
Year: 2011

description: The preferred salinities of five Pacific salmon species were studied. Each species was shown to undergo a temporal sequence of preference changes. The sequence began with a preference for fresh water then changed in the direction of increasing seawater concentration, the terminal pattern indicating a preference for water of open ocean concentration. This preference sequence was shown to parallel closely the horizontal salinity gradients typical of estuaries through which juvenile salmon pass on their seaward migration. On the basis of this evidence the following orientation mechanism was postulated: that juvenile salmon are able to use estuarine salinity gradients as one of the directive cues in their seaward migration. Further study of this orientation mechanism showed that the initial part of the preference sequence develops unaffected by seawater exposure. By contrast the latter part of the sequence (corresponding to seaward end of the estuary) was found to depend on a period of exposure to seawater otherwise a regression to a premigratory freshwater preference took place. The sensory stimuli leading to the salinity preference response were shown to depend on a complex interaction of naturally occuring sea salts. Experimentally the simplest salt mixture which would elicit a normal response consisted of two cations (Na⁺ and Ca⁺⁺) and one anion (Cl¯). It was shown further that taste or the common chemical sense was the primary sensory modality underlying the response and that juvenile salmon have an ability approaching absolute salinity discrimination. Speculation concerning the evolution of the salinity preference orientation mechanism was presented. Published evidence favours the view that migratory salmonids evolved from nonmigratory forms with limited osmoregulatory abilities. On this basis it was proposed that originally the ability to orient with respect to seawater concentration was of direct survival value to the stenohaline ancestral salmonid. Later, as diadromous movements expanded along with euryhalinity, salinity preference became integrated into a temporal sequence of changes and thereby an orientation device useful for migration.
Linear stability of Hunt's flow
Creators: name: Priede, J.
name: Aleksandrova, S.
name: Molokov, S.
Publisher: name: arXiv
Year: 2009
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We analyse numerically the linear stability of the fully developed flow of a liquid metal in a rectangular duct subject to a transverse magnetic field. The walls of the duct perpendicular to the magnetic field are perfectly conducting whereas the parallel ones are insulating. In a sufficiently strong magnetic field, the flow consists of two jets at the insulating walls and a near-stagnant core. We use a vector stream function formulation and Chebyshev collocation method to solve the eigenvalue problem for small-amplitude perturbations. Due to the two-fold reflection symmetry of the base flow the disturbances with four different parity combinations over the duct cross-section decouple from each other. Magnetic field renders the flow in a square duct linearly unstable at the Hartmann number Ha 5.7 with respect to a disturbance whose vorticity component along the magnetic field is even across the field and odd along it. For this mode, the minimum of the critical Reynolds number Re_c 2018, based on the maximal velocity, is attained at Ha ~ 10. Further increase of the magnetic field stabilises this mode with Re_c growing approximately as Ha. For Ha>40, the spanwise parity of the most dangerous disturbance reverses across the magnetic field. At Ha ~ 46 a new pair of most dangerous disturbances appears with the parity along the magnetic field being opposite to that of the previous two modes. The critical Reynolds number, which is very close for both of these modes, attains a minimum Re_c ~ 1130 at Ha ~ 70 and increases as Re_c ~ Ha^1/2 for Ha >> 1. The asymptotics of the critical wavenumber is k_c ~ 0.525Ha^1/2 while the critical phase velocity approaches 0.475 of the maximum jet velocity.
description: 20 pages, 13 figures, production version, to appear in J. Fluid Mech
Additional file 6 of Integrated proteogenomic characterization of urothelial carcinoma of the bladder
Creators: name: Xu, Ning
name: Yao, Zhenmei
name: Shang, Guoguo
name: Ye, Dingwei
name: Wang, Haixing
name: Zhang, Hailiang
name: Qu, Yuanyuan
name: Xu, Fujiang
name: Wang, Yunzhi
name: Qin, Zhaoyu
name: Zhu, Jiajun
name: Zhang, Fan
name: Feng, Jinwen
name: Tian, Sha
name: Liu, Yang
name: Zhao, Jianyuan
name: Hou, Jun
name: Guo, Jianming
name: Hou, Yingyong
name: Ding, Chen
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 6. Fig. S6: Proteomic subtypes of UC and signature proteins. Related to Figure 5. (A) Consensus matrices of identified clusters (K=3), top: Clusters based on proteomic analysis data; median: clusters based on RNA data; bottom: clusters based on phosphoproteomic data. (B) Forest plot for multivariate Cox regressions for papillary, stage, never invasion, vascular invasion, gender HBP, hyperglycemia, smoking, age, and proteomic subtype, with the reference variable for each covariate set to the best-survival subtype. The main effects are presented as hazard ratios with 95% confidence intervals. (C) Signature proteins of each proteomic subtype and their association with prognosis (overall survival) (p value from log-rank test). (D) Gene expression signature scores. (Kruskal–Wallis test, p < 0.05). (E) Proteins that were differentially expressed in the three proteomic subtypes. (F) IHC profiling of proteomic subtype markers in UC. FFPE sections were stained for CYP2J2, MLH1 and PRKCB protein markers in UC tumor tissues. The scale bar indicates 100 μm.
Transforming Pipelines into Digital Platforms: An Illustrative Case Study Transforming a Traditional Pipeline Business Model in the Standardization Industry into a Digital Platform
Creators: name: Adedayo Eisape, Davis
Publisher: name: Technische Universität Berlin
Year: 2022
Subjects: subject: 600 Technik, Medizin, angewandte Wissenschaften::650 Management, Öffentlichkeitsarbeit::650 Management und unterstützende Tätigkeiten
subject: digital transformation
subject: platform business model canvas
subject: ecosystem
subject: standardization industry
subject: DIN e.V.
subject: case study

description: For many, digital transformation is the new normal. However, in particular, pipeline businesses in traditional industries, such as standard-setting organizations (SSOs), are reluctant to radically rethink their business models, as they have often successfully prevailed for decades. The literature shows that there is a great deal of theory to be found on digital transformation, but a practical and, at the same time, scientific approach is yet missing. Following the design science framework, this paper introduces a two-step approach to transform a pipeline business model into a digital standardization platform. This is achieved by mapping the incumbent pipeline business mode146l and its ecosystem with the Platform Business Model Canvas introduced by Eisape. The representation of the current ecosystem is then digitally transformed according to the three key transformation points introduced by Alstyne et al., shifting the current ecosystem into the digital realm. The illustrative case study on DIN e.V. (the German SSOs) demonstrates the new methodology and its suitability for real applications. The result is a platform business model for a digital standardization platform, which, compared via an index to the traditional business model, has the potential to disrupt the entire standardization industry.
Radio Halos From Simulations And Hadronic Models I: The Coma cluster
Creators: name: Donnert, J.
name: Dolag, K.
name: Brunetti, G.
name: Cassano, R.
name: Bonafede, A.
Publisher: name: arXiv
Year: 2009
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We use the results from a constrained, cosmological MHD simulation of the Local Universe to predict the radio halo and the gamma-ray flux from the Coma cluster and compare it to current observations. The simulated magnetic field within the Coma cluster is the result of turbulent amplification of the magnetic field during build-up of the cluster. The magnetic seed field originates from star-burst driven, galactic outflows. The synchrotron emission is calculated assuming a hadronic model. We follow four approaches with different distributions for the cosmic-ray proton (CRp) population within galaxy clusters. The radial profile the radio halo can only be reproduced with a radially increasing energy fraction within the cosmic ray proton population, reaching $>$100% of the thermal energy content at $\approx$ 1Mpc, e.g. the edge of the radio emitting region. Additionally the spectral steepening of the observed radio halo in Coma cannot be reproduced, even when accounting for the negative flux from the thermal SZ effect at high frequencies. Therefore the hadronic models are disfavored from present analysis. The emission of $γ$-rays expected from our simulated coma is still below the current observational limits (by a factor of $\sim$6) but would be detectable in the near future.
description: Submitted to MNRAS, 5pages, 3 figures, 1 table
Additional file 1 of Integrated proteogenomic characterization of urothelial carcinoma of the bladder
Creators: name: Xu, Ning
name: Yao, Zhenmei
name: Shang, Guoguo
name: Ye, Dingwei
name: Wang, Haixing
name: Zhang, Hailiang
name: Qu, Yuanyuan
name: Xu, Fujiang
name: Wang, Yunzhi
name: Qin, Zhaoyu
name: Zhu, Jiajun
name: Zhang, Fan
name: Feng, Jinwen
name: Tian, Sha
name: Liu, Yang
name: Zhao, Jianyuan
name: Hou, Jun
name: Guo, Jianming
name: Hou, Yingyong
name: Ding, Chen
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 1. Fig. S1: Multi-omics landscape of UC samples. Related to Figure 1. (A) Clinical data of our cohort. (B) Left: Sequencing depths of WES for tumors tissues and MNU tissues. Right: All input reads in RNA-seq for tumors tissues and MNU tissues. (C) The four mutational signatures identified in TCGA cohort by Sigminer analysis. (D) VENN plot of signatures identified among different cohort. (E) Proteins identified in tumor tissues and MNU tissues. (F) Cumulative number of protein identifications. Blue presents MNU samples; red presents tumor tissues. (G) Dynamic ranges of identified protein abundances identified in tumor tissues and MNU tissues. (H) The numbers of proteins identified in MNU tissues (blue) and tumor tissues (red). (I) Correlated matrix of 233 sample proteomes (Spearman’s correlation coefficients). Red color indicates high correlation; blue color indicates low correlation. (J) Distribution of protein abundances in tumors and MNUs by density plot. A unimodal distribution (dip test) was observed. All samples passed proteomic quality control. (K) Number of phosphoproteins (left) and phosphosites identified in tumors and MNUs. (L) Quality control of mass spectrometry using tryptic digest of 293T cells. The top-left half of the panel represents the pairwise Spearman’s correlation coefficients of samples and the bottom-right half of the panel depicts the pairwise scatter plots from sample comparison. (M) Number of genes identified in tumors and MNUs using RNA-seq. (N) The overlap of genes identified in the proteome, phosphoproteome and transcriptome. Top: MNU tissue, bottom: tumor tissue.
The functional morphology and ecology of the spatangoid genus Brisaster Gray
Creators: name: Gibbs, Peter Edwin
Publisher: name: University of British Columbia
Year: 2011

description: The functional morphology, taxonomy and ecology of the Spatangoid genus Brisaster Gray (Family Schizasteridae) from Howe Sound, British Columbia, have been investigated. Brisaster predominantly inhabits a mud substratum and burrows to a depth of 1 cm., constructing both a respiratory funnel and a double sanitary apparatus. Burrowing and feeding activities resemble those of Spatangids. The absence of a sub-anal fasciole in Brisaster correlates with its shallow burrowing habit. Despite the lack of a sub-anal fasciole, the ciliary current pattern of the test is similar to that of the Spatangids which possess this fasciole. This suggests a common ancestral form (perhaps for all Spatangoids) in which the basic ciliary pattern had evolved; thus the different types of fascioles appear to have evolved as superimpositions on the basic ciliary pattern rather than the reverse. The zoogeography and taxonomy of the genus is briefly reviewed and the need for qualification of certain taxonomic criteria stressed. The latero-anal fasciole, for example, is an unreliable taxonomic character since it disappears with growth to varying degrees in different species. This possibly reflects changes in niche since the isolation and speciation of the genus took place. Biometrical analyses of the lengths of the ambulacral petals and the test height indicate that only a single species of Brisaster is present along the west coast of North America. Formerly two species had been described. Taxonomic priority is given to the species Brisaster latifrons; B. townsendi thus becomes a synonym. Synonymy is also suggested for the Japanese species B. owstoni, in view of paleogeographic evidence. The gonads of Brisaster do not develop until the second year and, as the ova appear to require two years to develop to maturity, the females probably first spawn in their third year. On this basis, the first, second and third (and older) year classes were identified in the populations occurring in Howe Sound. These populations showed marked differences in their size-frequency distribution but a similar age class composition. The size differences of individuals appear to correlate with differences in the population density, larger individuals being found in less crowded areas. It is suggested that these density differences are a result of the irregular settlement of a restricted pelagic larval stage. The differences in the size of individuals can therefore be related to differences in the individual growth rate. Passive interference, both inter- and intraspecific may be responsible and two possible mechanisms have been suggested.
Manipulation of conformational change in proteins by single residue perturbations
Creators: name: Atilgan, C
name: Gerek, Z N
name: Ozkan, S B
name: Atilgan, A R
Publisher: name: arXiv
Year: 2010
Subjects: subject: Biomolecules (q-bio.BM)
subject: FOS: Biological sciences

description: Using the perturbation-response scanning (PRS) technique, we study a set of 23 proteins that display a variety of conformational motions upon ligand binding (e.g. shear, hinge, allosteric). In most cases, PRS determines residues that may be manipulated to achieve the resulting conformational change. PRS reveals that for some proteins, binding induced conformational change may be achieved through the perturbation of residues scattered throughout the protein, whereas in others, perturbation of specific residues confined to a highly specific region are necessary. Correlations between the experimental and calculated atomic displacements are always better or equivalent to those obtained from a modal analysis of elastic network models. Furthermore, best correlations obtained by the latter approach do not always appear in the most collective modes. We show that success of the modal analysis depends on the lack of redundant paths that exist in the protein. PRS thus demonstrates that several relevant modes may simultaneously be induced by perturbing a single select residue on the protein. We also illustrate the biological relevance of applying PRS on the GroEL and ADK structures in detail, where we show that the residues whose perturbation lead to the precise conformational changes usually correspond to those experimentally determined to be functionally important.
Cusp anomalous dimension in maximally supersymmetric Yang-Mills theory
Creators: name: Kotanski, Jan
Publisher: name: arXiv
Year: 2008
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The main features of the cusp anomalous dimension in N=4 supersymmetri c Yang-Mills theory are reviewed. Moreover, the strong coupling expansion of the cusp derived is presented.
description: 8 pages, 2 figures. Seminar talk presented at the XLVIII Cracow School of Theoretical Physics: "Aspects of Duality 2008", Zakopane, Poland, June 13-22, 2008 [v2: Added references]
Additional file 8 of Integrated proteogenomic characterization of urothelial carcinoma of the bladder
Creators: name: Xu, Ning
name: Yao, Zhenmei
name: Shang, Guoguo
name: Ye, Dingwei
name: Wang, Haixing
name: Zhang, Hailiang
name: Qu, Yuanyuan
name: Xu, Fujiang
name: Wang, Yunzhi
name: Qin, Zhaoyu
name: Zhu, Jiajun
name: Zhang, Fan
name: Feng, Jinwen
name: Tian, Sha
name: Liu, Yang
name: Zhao, Jianyuan
name: Hou, Jun
name: Guo, Jianming
name: Hou, Yingyong
name: Ding, Chen
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 8. Fig. S8: Immune cell infiltration in UC tumors. Related to Figure 6. (A) Comparison between RNA-seq and global proteomics for estimating immunity (right) and stromal cell (left) infiltration based on 43 UC tumor samples. (B) Kaplan–Meier curves for progression-free survival of different immune clusters (p value from log-rank test). (C) Volcano plot showing the correlation between enrichment pathway and TRAF2 protein Abundance. (D) Scatter plot showing the correlation between the mRNA abundance change of TRAF2 and the mRNA abundance change of TNF. (E) Scatter plot showing the correlation between the mRNA abundance changes in TRAF2 and TNFRSF1B. (F) Correlation between average mRNA abundance and estimated NFKB1 activity change. (G) Scatter plot showing the correlation between the mRNA abundance changes in TRAF2 and CD274. (H) Correlation between TRAF2 mRNA abundance and CD274 protein change changes in the TCGA BLCA cohort. (I) Scatter plot showing the correlated between the mRNA abundance change of TRAF2 and CD8 enrichment score. (J) TRAF2 identified in patients with PD-L1-positive by IHC in Fudan cohort. The scale bar indicates 100 μm. (K) IHC of TRAF2 and PD-L1 in PD-L1-response and non-response. The scale bar indicates 100 µm.
E1 and E2 contributions to the L3 resonance line shape in antiferromagnetic holmium
Creators: name: Bouchenoire, L
name: Mirone, A
name: Brown, S D
name: Strange, P
name: Wood, T
name: Thompson, P
name: Fort, D
name: Fernandez-Rodriguez, J
Publisher: name: arXiv
Year: 2009
Subjects: subject: Other Condensed Matter (cond-mat.other)
subject: Materials Science (cond-mat.mtrl-sci)
subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: A detailed study of the angular, energy and polarization dependences of the electric dipolar (E1: 2p->5d) and quadrupolar (E2: 2p->4f) contributions to the x-ray scattering cross-section is presented for holmium in its basal plane spiral antiferromagnetic phase at the L3 edge. The corresponding E1 and E2 scattering factors have been extracted from fits to the experimental energy line shapes taking into account for the first time a split dipole resonance. Using the imaginary part of the resonant scattering factors to retrieve the XMCD spectrum, we find qualitative agreement with the dichroic spectrum measured in transmission through a holmium foil.
description: 16 pages, 8 figures, 5 tables
Dynamics of Patterns
Creators: name: (:Unkn) Unknown
Publisher: name: Zürich : EMS Publ. House
Year: 2008
Subjects: subject: Konferenzschrift
subject: 510

description: This workshop focused on the dynamics of nonlinear waves and spatio-temporal patterns, which arise in functional and partial differential equations. Among the outstanding problems in this area are the dynamical selection of patterns, gaining a theoretical understanding of transient dynamics, the nonlinear stability of patterns in unbounded domains, and the development of efficient numerical techniques to capture specific dynamical effects.
The effects of epinephrine on bone blood flow in dogs and rabbits
Creators: name: Shim, Sun Shik
Publisher: name: University of British Columbia
Year: 2011

description: This thesis is a report of a study on bone blood flow in adult dogs and rabbits. The effects of epinephrine and some other factors were investigated: (1) by direct observation of bone bleeding through drill holes and in the medullary cavity; (2) by measurement of changes in intramedullary pressure of long bones; and (3) by quantitative estimation of bone blood flow by the Fick principle. A technique was developed for measurement of the initial Sr⁸⁵ clearance by bone by dividing the bone uptake of Sr⁸⁵ by the integrated average concentration of Sr⁸⁵ in the systemic arterial blood. This clearance will represent at least a minimum bone blood flow. It should be equivalent to effective bone blood flow on the assumption that bone clears Sr⁸⁵ rapidly and almost completely from blood circulating through bone by exchange with calcium in bone, just as PAH clearance gives a measure of effective renal blood flow. The normal rate of bone blood flow in adult rabbits by the rate of initial Sr⁸⁵ clearance appeared to be at least 16 ml. per minute per 100 gm. of fresh bone which would represent about 5-10% of the resting cardiac output. The average intramedullary pressure of the femur in dogs was about 55 mm Hg, about 1/2 of the systolic systemic arterial blood pressure. Epinephrine caused a profound reduction in bone blood flow as indicated by reduced bone bleeding, a marked (65%) reduction in intramedullary pressure of bone marrow in the presence of persistently increased systemic blood pressure, and a significant (75%) reduction in Sr⁸⁵ clearance by bone. The changes in intramedullary pressure and in Sr⁸⁵ clearance by bone thus appear to correlate very well with changes in bone blood flow.
The wake in mid-central nuclear collisions
Creators: name: Dremin, I. M.
Publisher: name: arXiv
Year: 2009
Subjects: subject: Nuclear Theory (nucl-th)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: It is argued that PHENIX collaboration observed for the first time the radiation of the longitudinal wake oscillations formed behind the parton penetrating the quark-gluon medium. It shifts the maximum of a hump in two-particle correlations and changes its width in the case of some special orientation of the trigger particle.
description: 10 p
Mykobakteriální kmen pro identifikaci specificity inhibitorů hypoxanthin-guanin fosforibosyl transferasy z Mycobacterium tuberculosis
Creators: name: Knejzlík, Zdeněk
name: Bulvas, Ondřej
name: Pichová, Iva
name: Czech Academy of Sciences, Institute of Organic Chemistry and Biochemistry
Publisher: name: Zenodo
Year: 2025

description: Funkční vzorek

Hypoxanthin-guanin fosforibosyl transferasa (HGPRT) je pro bakterii Mycobacterium tuberculosis (Mtb) esenciální enzym, který je potenciálním cílem nových mechanisticky odlišných typů antibiotik. Za účelem testování nových Mtb HGPRT inhibitorů in vivo byl připraven kmen z nepatogenního druhu Mycobacterium smegmatis exprimující Mtb HGPRT, který je současně růstově závislý na exogenním přísunu purinů v důsledku inaktivace genu purF (genotyp - hgprt::loxP, purF::HygR, attP::attB_pFLAGMtb_hgprt). Specifická Mtb HGPRT inhibiční aktivita látky se projeví neschopností růstu kmene v přítomnosti guaninu nebo hypoxanthinu, ale ne v přítomnosti adeninu. Naopak, pleotropní účinek látky (další nebo jiný typ růstové inhibice) se rozpozná neschopností růstu v přítomnosti všech purinových suplementů [1].

Tato práce byla financována z projektu Národní institut virologie a bakteriologie (Program EXCELES, ID: LX22NPO5103) – Financováno Evropskou unií – Next Generation EU.
title: In-discipline. Dialoghi sul patrimonio culturale
Creators: name: Pallottino, Elisabetta
name: Stabile, Francesca Romana
name: Beccu, Michele
name: Porretta, Paola
Publisher: name: Roma TrE-Press
Year: 2023

description:

Il volume presenta gli atti di un ciclo di incontri rivolto agli studenti dell’ultimo anno delle lauree magistrali in Architettura-Progettazione Architettonica e Architettura-Restauro del Dipartimento di Architettura di Roma Tre, organizzato dai corsi congiunti di Progetto del restauro architettonico e Laboratorio di restauro del patrimonio architettonico (docenti Michele Beccu, Elisabetta Pallottino, Paola Porretta, Francesca Romana Stabile, con la collaborazione di Cecilia Cicconi e Sara D’Abate). Le conferenze, che si sono svolte dal 2016 al 2021, sono state pensate per mettere a confronto diversi temi legati alla cultura e al progetto del patrimonio negli ambiti della storia dell’architettura e dell’ingegneria, del restauro, della progettazione architettonica e dell’arte visiva, della museografia, dell’archeologia e degli studi sul paesaggio consolidato. I saggi sono stati selezionati anche con l’intento di mettere in evidenza le potenzialità di un rapporto cogente tra progettazione e lettura del contesto storico (culturale, insediativo, formale, costruttivo). Agli studenti sono state presentate strade diverse di conoscenza e di riconoscimento valoriale perché possano imparare a muoversi in diversi ambiti metodologici, e a individuare competenze puntuali ed esperienze plurali.
Active Galactic Nuclei Shed Light on Axion-like-Particles
Creators: name: Burrage, Clare
name: Davis, Anne-Christine
name: Shaw, Douglas J.
Publisher: name: arXiv
Year: 2009
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We demonstrate that the scatter in the luminosity relations of astrophysical objects can be used to search for axion-like-particles (ALPs). This analysis is applied to observations of active galactic nuclei, where we find evidence strongly suggestive of the existence of a very light ALP.
description: 4 pages, 3 figures
Evidence theory based Machine Learning approaches for network security
Creators: name: Beechey, Matt
Publisher: name: Loughborough University
Year: 2023
Subjects: Mechanical engineering not elsewhere classified

description: In recent years, there has been an immense research interest in applying Machine Learning (ML) for defending networked systems from cyber threats. Two particular challenges in this domain are i) the identification and selection of appropriate features that ensure prompt and correct cyber threat detection and, ii) increasing the robustness of ML models against Adversarial Machine Learning (AML) attacks. AML attacks refer to changing, or perturbing, the input data of an ML model in such a way as to change the output to benefit the attacker. The main contributions of this thesis are the application of evidential ML classifiers in network security environments for Feature Selection (FS) and in addressing AML attacks. This thesis critically analyses an evidential approach to FS against state-of-the-art approaches, such as Decision Tree (DT), Random Forest (RF), L1 Regularisation (Lasso) and Analysis of Variance (ANOVA), by augmenting a Logistic Regression (LR) model to measure uncertainty within each individual feature. This thesis also analyses an evidential approach to minimise the effect of AML perturbation attacks on a Neural Network (NN) model with evidence theory, to indicate when feature values deviate through perturbation. The results of the experiments in this thesis have shown that an evidential approach to FS can create a feature subset that matches or improves on the state-of-the-art, as well as performing the training and testing in a faster time frame. The results indicate an F1 Score of 0.99 on a large, realistic network security dataset, while performing the classification in a third of the average time required across the state-of-the-art. Furthermore, an evidential approach to address the challenges of AML attacks has shown a decrease of the misclassification rates on the two perturbed malicious classes from 70.53% to 13.09%, and from 99.67% to 1.33%, respectively.
Additional file 3 of Integrated proteogenomic characterization of urothelial carcinoma of the bladder
Creators: name: Xu, Ning
name: Yao, Zhenmei
name: Shang, Guoguo
name: Ye, Dingwei
name: Wang, Haixing
name: Zhang, Hailiang
name: Qu, Yuanyuan
name: Xu, Fujiang
name: Wang, Yunzhi
name: Qin, Zhaoyu
name: Zhu, Jiajun
name: Zhang, Fan
name: Feng, Jinwen
name: Tian, Sha
name: Liu, Yang
name: Zhao, Jianyuan
name: Hou, Jun
name: Guo, Jianming
name: Hou, Yingyong
name: Ding, Chen
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 3. Fig. S3: Impact of copy number alteration on mRNA and protein expression. Related to Figure 2. (A) Left: Kaplan–Meier curves for progression-free survival based on the chromosome 5p gain and WT groups. Right: Kaplan–Meier curves for progression-free survival based on the chromosome 7q gain and WT groups. The p value was calculated by log-rank test. 95% confidence interval was also presented. (B–C) Volcano plot showing the cis-effect genes on chromosome 5p (B) and 7q (C). The dots represent proteins; the triangles represent mRNA. The p values were calculated by Spearman's correlation test. (D–E) The expression status of the SND1 gene in different cancer subtypes from the TCGA dataset using TIMER2 (@@@timer.cistrome.org/) (E) and protein abundance of SND1 in tumor and MNU groups (D). The p values were calculated by Wilcoxon rank-sum test. * P < .05; ** P < .01; *** P < .001. (F–G) Expression levels of the SND1 were analyzed by the main pathological stages of the BLCA TCGA cohort (F) and our cohort (G) Log2 (TPM + 1) was applied for log-scale (p value from Kruskal–Wallis test). (H) the correlation between enriched cell cycle pathway and SND1 protein abundance. (I–J) Correlation of SND1 protein abundance with MCM2 protein change (I) and the correlation between SND1 and STAT3 in TCGA BLCA cohort (J) (p value from Spearman's correlation test). (K) Correlation between SND1 protein abundance and estimated STAT3 activity (p value from Spearman's correlation test). (L) Overall survival analyses of UC patients with high or low levels of STAT3 protein abundance (p value from log-rank test). (M) Correlation of SND1 protein abundance with STAT3 phosphorylation change (phosphoprotein).
HIV is Our Problem Together': Developing an Indigenous-Led Response to HIV in Tanah Papua
Creators: name: Munro, Jenny
Publisher: name: Canberra, ACT : Coral Bell School of Asia Pacific Affairs, College of Asia and the Pacific, The Australian National University
Year: 2015

description: This In Brief reports on a multiday workshop on HIV that was held in Manokwari, West Papua province, Indonesia, from 27–29 November 2014. The workshop, called Developing an HIV Prevention and Control Strategy for Papuans in Tanah Papua,1 represented the culmination of over a year of preparatory work, and something new in Tanah Papua's HIV response: the mobilisation of a broad base of community and provincial- level actors committed to responding to epidemic levels of HIV among indigenous Papuans.2 Based on comparative data obtained from the World Health Organization, Tanah Papua faces the fastest growing HIV epidemic in the world, and one of the highest HIV prevalence rates in the world outside of Africa.
New Dates for Megalithic Stele Monuments of Gedeo, South Ethiopia
Creators: name: Zena, Ashenafi G.
name: Duff, Andrew I.
name: Melesse, Addisalem
name: Wolff, John A.
name: Beldados, Alemseged
name: Shackley, M. Steven
Publisher: name: Brill Online
Year: 2021
Subjects: Archaeology

description: This paper reports the results of an archaeological survey and test excavation conducted in one of the ancient megalithic stele sites in south Ethiopia, Sakaro Sodo. The Sakaro Sodo stele site is situated in Gedeo zone, which is known to have the largest number and highest concentration of megalithic stele monuments in Africa, with an estimate of more than 10,000 stelae in sixty or more sites. Prior to our work, only one absolute date was available (850±40 BP) (Joussaume 2012) from a stele site in the Gedeo zone, suggesting stele sites began to be constructed in the region approximately a millennium ago. We report here new AMS dates suggesting that stelae were being emplaced about 2000 BP, pushing the creation of these monuments back at least a millennium. Additionally, we report preliminary findings from characterizing the geochemical properties of obsidian artifacts recovered from stele sites, and stone used to make stelae. While compositional analysis of obsidian suggests long-distance movement of material from sources located in northern Kenya, petrographic microscopy and electron microprobe analyses show a strong connection of stelae to local geological tuff exposures/sources.
Project brochure
Creators: name: EUCloudEdgeIoT.Eu
Publisher: name: Zenodo
Year: 2023
Subjects: Cloud Computing
Software Technologies
Next Generation Internet of Things
Meta Operating Systems
Cognitive Cloud
Decentralised intelligence and swarms
Open source for cloud-based services

description: The European Cloud, Edge and IoT Continuum (EUCloudEdgeIoT.eu) aims to realise a pathway for the understanding and development of the CEI Continuum by promoting cooperation between a wide range of research projects, developers and suppliers, business users and potential adopters of this new technological paradigm. The European Cloud, Edge & IoT Continuum acts as an enabling force to reach key outcomes: Support the definition of the large-scale pilots envisaged by the European Commission in line with the EU Data Strategy Baseline common open architecture for computing continuum research projects Reinforce the collaboration between European public and private initiatives from cloud to edge to IoT Increase the awareness of the importance of Open Source and standards for EU digital autonomy
Kondo effect in oscillating molecules
Creators: name: Mravlje, Jernej
name: Ramsak, Anton
Publisher: name: arXiv
Year: 2009
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We consider electronic transport through break-junctions bridged by a single molecule in the Kondo regime. We describe the system by a two-channel Anderson model. We take the tunneling matrix elements to depend on the position of the molecule. It is shown, that if the modulation of the tunneling by displacement is large, the potential confining the molecule to the central position between the leads is softened and the position of the molecule is increasingly susceptible to external perturbations that break the inversion symmetry. In this regime, the molecule is attracted to one of the leads and as a consequence the conductance is small. We argue on semi-classical grounds why the softening occurs and corroborate our findings by numerical examples obtained by Wilson's numerical renormalization group and Schoenhammer-Gunnarsson's variational method.
description: 5 p., Ustron'08 conference contribution
Dilatation operator in 3d
Creators: name: Sochichiu, Corneliu
Publisher: name: arXiv
Year: 2008
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The perturbative dilatation operator in 3d is constructed at the leading two-loop order.
description: 21 pages, no figures
Doctoral thesis presentation: Comparing remotely sensed observations of clouds and aerosols in the Southern Ocean with climate model simulations
Creators: name: Kuma, Peter
name: McDonald, Adrian
name: Morgenstern, Olaf
name: Alexander, Simon P.
name: Cassano, John J.
name: Garrett, Sally
name: Halla, Jamie
name: Hartery, Sean
name: Harvey, Mike J.
name: Parsons, Simon
name: Plank, Graeme
name: Varma, Vidya
name: Williams, Jonny
name: Querel, Richard
name: Silber, Israel
name: Flynn, Connor J.
name: Zeng, Guang
Publisher: name: Zenodo
Year: 2020

description: Doctoral thesis presentation given at the University of Canterbury, Christchurch, New Zealand on 7 October 2020.
A spin-wave frequency doubler by domain wall oscillation
Creators: name: Hermsdoerfer, Sebastian J.
name: Schultheiss, Helmut
name: Rausch, Christopher
name: Schaefer, Sebastian
name: Leven, Britta
name: Kim, Sang-Koog
name: Hillebrands, Burkard
Publisher: name: arXiv
Year: 2009
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: Other Condensed Matter (cond-mat.other)
subject: FOS: Physical sciences

description: We present a new mechanism for spin-wave excitation using a pinned domain wall which is forced to oscillate at its eigenfrequency and radiates spin waves. The domain wall acts as a frequency doubler, as the excited spin waves have twice the frequency of the domain wall oscillation. The investigations have been carried out using micromagnetic simulations and enable the determination of the main characteristics of the excited spin-waves such as frequency, wavelength, and velocity. This behavior is understood by the oscillation in the perpendicular magnetization which shows two anti-nodes oscillating out of phase with respect to each other.
description: 8 pages, 3 figures
Anomalous Enhancement of the Boltzmann Conductivity in Disordered Zigzag Graphene Nanoribbons
Creators: name: Takane, Yositake
Publisher: name: arXiv
Year: 2010
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We study the conductivity of disordered zigzag graphene nanoribbons in the incoherent regime by using the Boltzmann equation approach. The band structure of zigzag nanoribbons contains two energy valleys, and each valley has an excess one-way channel. The crucial point is that the numbers of conducting channels for two propagating directions are imbalanced in each valley due to the presence of an excess one-way channel. It was pointed out that as a consequence of this imbalance, a perfectly conducting channel is stabilized in the coherent regime if intervalley scattering is absent. We show that even in the incoherent regime, the conductivity is anomalously enhanced if intervalley scattering is very weak. Particularly, in the limit of no intervalley scattering, the dimensionless conductance approaches to unity with increasing ribbon length as if there exists a perfectly conducting channel. We also show that anomalous valley polarization of electron density appears in the presence of an electric field.
description: 10 pages, 3 figures
Toric Geometry
Creators: name: (:Unkn) Unknown
Publisher: name: Zürich : EMS Publ. House
Year: 2009
Subjects: subject: Konferenzschrift
subject: 510

description: Toric Geometry originated from investigations of torus actions on geometric and algebraic objects. It is addressed through algebraic geometry, symplectic geometry, equivariant topology, as well as the theory of convex polyhedra within discrete mathematics. In spite of using their own language these completely diﬀerent disciplines often observe similar or even identical combinatorial phenomena. Thus toric geometry leads to a fascinating and fruitful interplay between these disciplines.
Magnetic Dipole, Electric Quadrupole and Magnetic Octupole Moments of the $Δ$ Baryons in Light Cone QCD Sum Rules
Creators: name: Azizi, K.
Publisher: name: arXiv
Year: 2008
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: Due to the very short life time of the $Δ$ baryons, a direct measurement on the electromagnetic moments of these systems is almost impossible in the experiment and can only be done indirectly. Although only for the magnetic dipole moments of $Δ^{++}$ and $Δ^{+}$ systems there are some experimental data, the theoretical, phenomenological and lattice calculations could play crucial role. In present work, the magnetic dipole ($μ_Δ$) , electric quadrupole ($Q_Δ$) and magnetic octupole ($O_Δ$) moments of these baryons are computed within the light cone QCD sum rules. The results are compared with the predictions of the other phenomenological approaches, lattice QCD and existing experimental data.
description: 21 Pages, 3 Figures and 2 Tables
Scientific Computing with EGI: Current Status and Future Outlook
Creators: name: , Ferrari
Publisher: name: Zenodo
Year: 2021
Subjects: Scientific computing, distributed computing, cloud, research data

description: Scientific computing is an enabling element of modern data-intensive science. Thanks to national and European investments in digital infrastructures, thousands of researchers have access to extreme scale research data and scientific tools for their research projects. The estimated scientific impact of the EGI Federation in 2020 exceeds 1600 open access publications!
On the quantum fate of singularities in a dark-energy dominated universe
Creators: name: Bouhmadi-Lopez, Mariam
name: Kiefer, Claus
name: Sandhoefer, Barbara
name: Moniz, Paulo Vargas
Publisher: name: arXiv
Year: 2009
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Classical models for dark energy can exhibit a variety of singularities, many of which occur for scale factors much bigger than the Planck length. We address here the issue whether some of these singularities, the big freeze and the big demarrage, can be avoided in quantum cosmology. We use the framework of quantum geometrodynamics. We restrict our attention to a class of models whose matter content can be described by a generalized Chaplygin gas and be represented by a scalar field with an appropriate potential. Employing the DeWitt criterium that the wave function be zero at the classical singularity, we show that a class of solutions to the Wheeler-DeWitt equation fulfilling this condition can be found. These solutions thus avoid the classical singularity. We discuss the reasons for the remaining ambiguity in fixing the solution.
description: 20 pages, 6 figures, RevTeX 4. References added. Version to appear in PRD
Mini-Workshop: Support Varieties
Creators: name: (:Unkn) Unknown
Publisher: name: Zürich : EMS Publ. House
Year: 2009
Subjects: subject: Konferenzschrift
subject: 510

description: The notion of support is a fundamental concept which provides a geometric approach for studying various algebraic structures. The prototype for this has been Quillen’s description of the algebraic variety corresponding to the cohomology ring of a ﬁnite group, based on which Carlson introduced support varieties for modular representations. This has made it possible to apply methods of algebraic geometry to obtain representation theoretic information. Their work has inspired the development of analogous theories in various contexts, notably modules over commutative complete intersection rings, and over cocommutative Hopf algebras. The aim of this workshop has been to bring together experts from these ﬁelds and to stimulate interaction and exchange of ideas.
Explorations of the Top Quark Forward-Backward Asymmetry at the Tevatron
Creators: name: Shu, Jing
name: Tait, Tim M. P.
name: Wang, Kai
Publisher: name: arXiv
Year: 2009
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: We consider the recent measurement of the top quark forward-backward asymmetry at the Fermilab Tevatron, which shows a discrepancy of slightly more than 2$σ$ compared to the SM prediction. We find that $t$-channel exchange of a color sextet or triplet scalar particle can explain the measurement, while leaving the cross section for $t \bar{t}$ production within measured uncertainties. Such particles have good discovery prospects by study of the kinematic structure of $t \bar{t}$+jets at the LHC.
description: 14 pages, 10 figures, 1 table
Infrared photometry and evolution of mass-losing AGB stars. III. Mass loss rates of MS and S stars
Creators: name: Guandalini, R.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: Context. The asymptotic giant branch (AGB) phase marks the end of the evolution for low- and intermediate-mass stars, which are fundamental contributors to the mass return to the interstellar medium and to the chemical evolution of galaxies. The detailed understanding of mass loss processes is hampered by the poor knowledge of the luminosities and distances of AGB stars. Aims. In a series of papers we are trying to establish criteria permitting a more quantitative determination of luminosities for the various types of AGB stars, using the infrared (IR) fluxes as a basis. An updated compilation of the mass loss rates is also required, as it is crucial in our studies of the evolutionary properties of these stars. In this paper we concentrate our analysis on the study of the mass loss rates for a sample of galactic S stars. Methods. We reanalyze the properties of the stellar winds for a sample of galactic MS, S, SC stars with reliable estimates of the distance on the basis of criteria previously determined. We then compare the resulting mass loss rates with those previously obtained for a sample of C-rich AGB stars. Results. Stellar winds in S stars are on average less efficient than those of C-rich AGB stars of the same luminosity. Near-to-mid infrared colors appear to be crucial in our analysis. They show a good correlation with mass loss rates in particular for the Mira stars. We suggest that the relations between the rates of the stellar winds and both the near-to-mid infrared colors and the periods of variability improve the understanding of the late evolutionary stages of low mass stars and could be the origin of the relation between the rates of the stellar winds and the bolometric magnitudes.
description: 6 pages, 4 figures, accepted for publication on A&A
Control Theory: On the Way to New Application Fields
Creators: name: (:Unkn) Unknown
Publisher: name: Zürich : EMS Publ. House
Year: 2009
Subjects: subject: Konferenzschrift
subject: 510

description: Control theory is an interdisciplinary ﬁeld that is located at the crossroads of pure and applied mathematics with systems engineering and the sciences. Recently, deep interactions are emerging with new application areas, such as systems biology, quantum control and information technology. In order to address the new challenges posed by the new application disciplines, a special focus of this workshop has been on the interaction between control theory and mathematical systems biology. To complement these more biology oriented focus, a series of lectures in this workshop was devoted to the control of networks of systems, fundamentals of nonlinear control systems, model reduction and identiﬁcation, algorithmic aspects in control, as well as open problems in control.