cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Identification of potential isoform-selective histone deacetylase inhibitors for cancer therapy: a combined approach of structure-based virtual screening, ADMET prediction and molecular dynamics simulation assay
Creators: name: Abdullahi Ibrahim Uba
name: Yelekçi, Kemal
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biochemistry
subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Histone deacetylases (HDACs) have gained increased attention as targets for anticancer drug design and development. HDAC inhibitors have proven to be effective for reversing the malignant phenotype in HDAC-dependent cancer cases. However, lack of selectivity of the many HDAC inhibitors in clinical use and trials contributes to toxicities to healthy cells. It is believed that, the continued identification of isoform-selective inhibitors will eliminate these undesirable adverse effects – a task that remains a major challenge to HDAC inhibitor designs. Here, in an attempt to identify isoform-selective inhibitors, a large compound library containing 2,703,000 compounds retrieved from Otava database was screened against class I HDACs by exhaustive approach of structure-based virtual screening using rDOCK and Autodock Vina. A total of 41 compounds were found to show high-isoform selectivity and were further redocked into their respective targets using Autodock4. Thirty-six compounds showed remarkable isoform selectivity and passed drug-likeness and absorption, distribution, metabolism, elimination and toxicity prediction tests using ADMET Predictor™ and admetSAR. Furthermore, to study the stability of ligand binding modes, 10 ns-molecular dynamics (MD) simulations of the free HDAC isoforms and their complexes with respective best-ranked ligands were performed using nanoscale MD software. The inhibitors remained bound to their respective targets over time of the simulation and the overall potential energy, root-mean-square deviation, root-mean-square fluctuation profiles suggested that the detected compounds may be potential isoform-selective HDAC inhibitors or serve as promising scaffolds for further optimization towards the design of selective inhibitors for cancer therapy.
Generalizations of the Double-Copy: the KLT Bootstrap
Creators: name: Chi, Huan-Hang
name: Elvang, Henriette
name: Herderschee, Aidan
name: Jones, Callum R. T.
name: Paranjape, Shruti
Publisher: name: arXiv
Year: 2021
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We formulate a new program to generalize the double-copy of tree amplitudes. The approach exploits the link between the identity element of the KLT algebra and the KLT kernel, and we demonstrate how this leads to a set of KLT bootstrap equations that the double-copy kernel has to satisfy (in addition to locality constraints). We solve the KLT bootstrap equations perturbatively to find the most general higher-derivative corrections to the 4- and 5-point field theory KLT kernel. The new kernel generalizes the string KLT kernel and its associated monodromy relations. It admits new color-structures in the effective theories it double-copies. It provides distinct generalized KK and BCJ relations for the left and right single-color theories and is in that sense a heterotic-type double-copy. We illustrate the generalized double-copy in detail for 4d Yang-Mills theory with higher-derivative corrections that produce dilaton-axion-gravity with local operators up order $\nabla^{10} R^4$. Finally, we initiate a search for new double-copy kernels.
description: 56 pages
Index-like Theorem for Massless Fermions in Spherically Symmetric Monopole Backgrounds
Creators: name: Brennan, T. Daniel
Publisher: name: arXiv
Year: 2021
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Differential Geometry (math.DG)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: In this paper we study massless fermions coupled to spherically symmetric $SU(N)$ monopoles without Yukawa couplings between the Higgs and fermion fields. The corresponding Dirac operator is not Fredholm and the associated eigenfunctions are not $L^2$-normalizable. Here we derive a formula for the dimension of the plane-wave normalizable kernel of such a Dirac operator for fermions of any representation of $SU(N)$ in the presence of any spherically symmetric monopole background. Notably, our results also apply to fermions coupled to monopoles that preserve non-abelian gauge symmetry.
description: 30 pages, no figures
Additional file 2 of Metagenomic analysis reveals the microbiome and resistome in migratory birds
Creators: name: Cao, Jian
name: Hu, Yongfei
name: Liu, Fei
name: Wang, Yanan
name: Bi, Yuhai
name: Lv, Na
name: Li, Jing
name: Zhu, Baoli
name: Gao, George F.
Publisher: name: figshare
Year: 2020
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 2: Figure S2. The classes are presented in four major dominant phyla. (a) Proteobacteria, (b) Firmicutes, (c) Bacteroidetes.
Gödel-type solutions in hybrid metric-Palatini gravity
Creators: name: Gonçalves, J. S.
name: Santos, A. F.
Publisher: name: arXiv
Year: 2021
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: In this paper, the hybrid metric-Palatini gravity is an approach to modified gravity in which is added to the usual Einstein-Hilbert action a supplementary term containing a Palatini-type correction of the form $f({\cal R},T)$. Here, ${\cal R}$ is the Palatini curvature scalar, which is constructed from an independent connection and $T$ is the trace of the energy-momentum tensor. This theory describes a non-minimal coupling between matter and geometry. The modified Einstein field equations in this hybrid metric-Palatini approach are obtained. Then, it is investigated whether this modified theory of gravity and its field equations allow Gödel-type solutions, which essentially lead to violation of causality. Considering physically well-motivated matter sources, causal and non-causal solutions are explored.
description: 14 pages, accepted for publication in EPL
A catalog of early-type Hα emission line stars and 58 newly confirmed Herbig Ae/Bes from LAMOST DR7
Creators: name: Zhang, Yun-Jun
name: Hou, Wen
name: Luo, A-Li
name: Li, Shuo
name: Qin, Li
name: Lu, Yan
name: Li, Yin-Bi
name: Chen, Jian-Jun
name: Zhao, Yong-Heng
Publisher: name: arXiv
Year: 2021
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We derive a catalog of early-type emission-line stars including 30,048 spectra of 25,886 stars from LAMOST DR7, in which 3,922 have Simbad records. The sample is obtained using K-Nearest Neighbor and Random Forest methods and visually inspected. The spectra are classified into 3 morphological types (10 subtypes) based on H$α$ emission line profiles. Some spectra contaminated by nebula emission lines such as from HII regions are flagged in the catalog. We also provide a specific sub-catalog of 101 stars with the stellar wind by calculating stellar wind or accretion flow velocities based on P Cygni or inverse P Cygni profiles, in which 74\% of them having velocities below 400km/s. More important, with two color-color diagrams (H-K, K- W1) and (H-K, J-H) of a collection of known Herbig Ae/Be stars (HAeBes) and classical Ae/Be stars (CAeBes), we propose an updated criterion to separate HAeBes from CAeBes. By the criterion, we select 201 HAeBes candidates and 5,547 CAeBes candidates from the sample. We confirmed 66 of the 201 HAeBes by using both WISE images and LAMOST spectra and present a specific HAeBe sub-catalog, in which 58 are newly identified. In addition, the WISE colors (W1-W2, W1- W3, and W1-W4) show the distribution consistency between our confirmed HAeBes and that of the known HAeBes. Most of the 66 confirmed HAeBes locate in the lower edge of the main sequence of hot end in the HR diagram, while the distances of about 77\% exceed 1Kpc, which enlarges the number of far distant known HAeBes.
description: 20 Pages, 12 figures, 8 tables, Corr-author: A-Li Luo, submitted to ApJS
Structure-based virtual screening toward the discovery of novel inhibitors for impeding the protein-protein interaction between HIV-1 integrase and human lens epithelium-derived growth factor (LEDGF/p75)
Creators: name: Panwar, Umesh
name: Singh, Sanjeev Kumar
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: HIV-1 integrase is a unique promising component of the viral replication cycle, catalyzing the integration of reverse transcribed viral cDNA into the host cell genome. Generally, IN activity requires both viral as well as a cellular co-factor in the processing replication cycle. Among them, the human lens epithelium-derived growth factor (LEDGF/p75) represented as promising cellular co-factor which supports the viral replication by tethering IN to the chromatin. Due to its major importance in the early steps of HIV replication, the interaction between IN and LEDGF/p75 has become a pleasing target for anti-HIV drug discovery. The present study involves the finding of novel inhibitor based on the information of dimeric CCD of IN in complex with known inhibitor, which were carried out by applying a structure-based virtual screening concept with molecular docking. Additionally, Free binding energy, ADME properties, PAINS analysis, Density Functional Theory, and Enrichment Calculations were performed on selected compounds for getting a best lead molecule. On the basis of these analyses, the current study proposes top 3 compounds: Enamine-Z742267384, Maybridge-HTS02400, and Specs-AE-848/37125099 with acceptable pharmacological properties and enhanced binding affinity to inhibit the interaction between IN and LEDGF/p75. Furthermore, Simulation studies were carried out on these molecules to expose their dynamics behavior and stability. We expect that the findings obtained here could be future therapeutic agents and may provide an outline for the experimental studies to stimulate the innovative strategy for research community.
Carnet nº 21, commencé à Canton (p. 9)
Creators: name: Péraire, Lucien
name: CNRS
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2023

description: created: 19-7-1931
Role of Īśvara and the nature of grace in Kashmir Shaivism – Ācārya dr. Sthaneshwar Timalsina
Creators: name: Timalsina, Staneshwar
Publisher: name: Zenodo
Year: 2022
Subjects: Guhyakālī
Kubjika
amnaya
Kaula
timalsina
Divine Mother
consciousness
krama
Kula
Īśāna
shakta upāya
Saundaryalahari
Mālinīvijayottaratantra
Chandi
advaita vedanta
sthaneshwar timalsina
vimarsha-foundation
Sarvamnaya
Abhinavagupta
vedanta
Kali
Devi Mahatmya
trika
Spanda
Shiva Sutra
Tantra
mahadeva
saivadvaita
shakti
sarvamnaya-oral-tradition-archive
Vasugupta
Tripura Rahasya
sarvamnaya
anava upaya
agama
Sadāśiva
Camunda
Shiva
Bhairava
yantra
Mahakali
tripura
Tantric philosophy
Shaiva
tantraloka
Durga
shambhava
Kashmir Shaivism
Tripurasundari

description: In this clip from his dialogue with Swami Sarvapriyananda, Śaivācārya Sthaneshwar Timalsina gives a brief explanation about the role of Īśvara and the nature of grace in Kashmir Shaivism. The Īśvara, a concept very present in Advaita Vedānta, is explained by the Ācārya in terms of a technical category present in the self-concealing of Supreme Consciousness. In relation to the nature of grace, he describes grace as not limited by space or time, and how it is eternally flowing from Śiva.

Full video: https://www.youtube.com/watch?v=V-vDexl5xTw

Original YouTube video: https://www.youtube.com/watch?v=5JL8t9q_U6w

This presentation is part of the Sarvāmnāya Oral Tradition Archive.
Vimarsha Foundation. (2025). The Sarvāmnāya Oral Tradition Archive [Data set]. Zenodo. https://doi.org/10.5281/zenodo.15188107
Small scale effects in the observable power spectrum at large angular scales
Creators: name: Matthewson, William L.
name: Durrer, Ruth
Publisher: name: arXiv
Year: 2021
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: In this paper we show how effects from small scales can enter the angular-redshift power spectrum $C_\ell(z,z')$. In particular, we show that spectroscopic surveys with high redshift resolution are already affected on large angular scales, i.e. at low multipoles, by features from small scales. When considering the angular power spectrum with spectroscopic redshift resolution, it is therefore important to account for non-linearities relevant on small scales, even at low multipoles. This may also motivate the use of the correlation function in relatively wide redshift bins, which is not affected by non-linearities on large scales, instead of the angular power spectrum. The extent to which small-scale effects become visible on large scales, which is more relevant for bin auto-correlations than for cross-correlations, is quantified in detail.
description: 16 pages, 11 figures
The LEGA-C and SAMI Galaxy Surveys: Quiescent Stellar Populations and the Mass-Size Plane across 6 Gyr
Creators: name: Barone, Tania M.
name: D'Eugenio, Francesco
name: Scott, Nicholas
name: Colless, Matthew
name: Vaughan, Sam P.
name: van der Wel, Arjen
name: Fraser-McKelvie, Amelia
name: de Graaff, Anna
name: van de Sande, Jesse
name: Wu, Po-Feng
name: Bezanson, Rachel
name: Brough, Sarah
name: Bell, Eric
name: Croom, Scott M.
name: Cortese, Luca
name: Driver, Simon
name: Gallazzi, Anna R.
name: Muzzin, Adam
name: Sobral, David
name: Bland-Hawthorn, Joss
name: Bryant, Julia J.
name: Goodwin, Michael
name: Lawrence, Jon S.
name: Lorente, Nuria P. F.
name: Owers, Matt S.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We investigate the change in mean stellar population age and metallicity ([Z/H]) scaling relations for quiescent galaxies from intermediate redshift ($0.60\leq z\leq0.76$) using the LEGA-C Survey, to low redshift ($0.014\leq z\leq0.10$) using the SAMI Galaxy Survey. We find that, similarly to their low-redshift counterparts, the stellar metallicity of quiescent galaxies at $0.60\leq z\leq 0.76$ closely correlates with $M_*/R_\mathrm{e}$ (a proxy for the gravitational potential or escape velocity), in that galaxies with deeper potential wells are more metal-rich. This supports the hypothesis that the relation arises due to the gravitational potential regulating the retention of metals, by determining the escape velocity required by metal-rich stellar and supernova ejecta to escape the system and avoid being recycled into later stellar generations. On the other hand, we find no correlation between stellar age and $M_*/R_\mathrm{e}^2$ (stellar mass surface density $Σ$) in the LEGA-C sample, despite this being a strong relation at low redshift. We consider this change in the age--$Σ$ relation in the context of the redshift evolution of the star-forming and quiescent populations in the mass--size plane, and find our results can be explained as a consequence of galaxies forming more compactly at higher redshifts, and remaining compact throughout their evolution. Furthermore, galaxies appear to quench at a characteristic surface density that decreases with decreasing redshift. The $z\sim 0$ age--$Σ$ relation is therefore a result of building up the quiescent and star-forming populations with galaxies that formed at a range of redshifts and so a range of surface densities.
description: 18 pages, 11 figures, accepted to MNRAS
Design, synthesis, biological evaluation and molecular docking study of novel pleuromutilin derivatives containing substituted benzoxazole as antibacterial agents
Creators: name: Ren, Jie
name: Zhang, Qi-Wen
name: He, Xian-Jin
name: Chen, Xiao-Ying
name: Zhou, Zi-Dan
name: Zeng, Zhen-Ling
name: Jin, Zhen
name: Tang, You-Zhi
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology

description: A series of pleuromutilin analogs containing substituted benzoxazole were designed, synthesised, and assessed for their antibacterial activity both in vivo and in vitro. The MIC of the synthesised derivatives was initially assessed using the broth dilution method against four strains of Staphylococcus aureus (MRSA ATCC 43300, S. aureus ATCC 29213, clinical isolation of S. aureus AD3 and S. aureus 144). Most of the synthesised derivatives displayed prominent in vitro activity (MIC ≤ 0.5 µg/mL). Compounds 50 and 57 exhibited the most effective antibacterial effect against MRSA (MIC = 0.125 µg/mL). Furthermore, the time-kill curves showed that compounds 50 and 57 had a certain inhibitory effect against MRSA in vitro. The in vivo antibacterial activity of compound 50 was evaluated further using a murine thigh model infected with MRSA (–1.24 log10CFU/mL). Compound 50 exhibited superior antibacterial efficacy to tiamulin. It was also found that compound 50 did not display significant inhibitory effect on the proliferation of RAW 264.7 cells. Molecular docking study revealed that compound 50 can effectively bind to the active site of the 50S ribosome (the binding free energy −7.50 kcal/mol).
Additional file 1 of Prediction of the risk of C5 palsy after posterior laminectomy and fusion with cervical myelopathy using a support vector machine: an analysis of 184 consecutive patients
Creators: name: Wang, Haosheng
name: Tang, Zhi-Ri
name: Li, Wenle
name: Fan, Tingting
name: Zhao, Jianwu
name: Kang, Mingyang
name: Dong, Rongpeng
name: Qu, Yang
Publisher: name: figshare
Year: 2021
Subjects: Space Science
Medicine
Biological Sciences not elsewhere classified
Information Systems not elsewhere classified

description: Additional file 1.
FFR_FD: Effective and Fast Detection of DeepFakes Based on Feature Point Defects
Creators: name: Wang, Gaojian
name: Jiang, Qian
name: Jin, Xin
name: Cui, Xiaohui
Publisher: name: arXiv
Year: 2021
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: FOS: Computer and information sciences
subject: I.4; I.5

description: The internet is filled with fake face images and videos synthesized by deep generative models. These realistic DeepFakes pose a challenge to determine the authenticity of multimedia content. As countermeasures, artifact-based detection methods suffer from insufficiently fine-grained features that lead to limited detection performance. DNN-based detection methods are not efficient enough, given that a DeepFake can be created easily by mobile apps and DNN-based models require high computational resources. For the first time, we show that DeepFake faces have fewer feature points than real ones, especially in certain facial regions. Inspired by feature point detector-descriptors to extract discriminative features at the pixel level, we propose the Fused Facial Region_Feature Descriptor (FFR_FD) for effective and fast DeepFake detection. FFR_FD is only a vector extracted from the face, and it can be constructed from any feature point detector-descriptors. We train a random forest classifier with FFR_FD and conduct extensive experiments on six large-scale DeepFake datasets, whose results demonstrate that our method is superior to most state of the art DNN-based models.
description: 14 pages, 11 figures
Calorimetric Measurement of Multi-TeV Muons via Deep Regression
Creators: name: Kieseler, Jan
name: Strong, Giles C.
name: Chiandotto, Filippo
name: Dorigo, Tommaso
name: Layer, Lukas
Publisher: name: arXiv
Year: 2021
Subjects: subject: Instrumentation and Detectors (physics.ins-det)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: The performance demands of future particle-physics experiments investigating the high-energy frontier pose a number of new challenges, forcing us to find improved solutions for the detection, identification, and measurement of final-state particles in subnuclear collisions. One such challenge is the precise measurement of muon momentum at very high energy, where an estimate of the curvature provided by conceivable magnetic fields in realistic detectors proves insufficient for achieving good momentum resolution when detecting, e.g., a narrow, high mass resonance decaying to a muon pair. In this work we study the feasibility of an entirely new avenue for the measurement of the energy of muons based on their radiative losses in a dense, finely segmented calorimeter. This is made possible by exploiting spatial information of the clusters of energy from radiated photons in a regression task. The use of a task-specific deep learning architecture based on convolutional layers allows us to treat the problem as one akin to image reconstruction, where images are constituted by the pattern of energy released in successive layers of the calorimeter. A measurement of muon energy with better than 20% relative resolution is shown to be achievable for ultra-TeV muons.
description: V2 Updating to journal version
title: Paratexte_Les éditions d'art de la Librairie des amateurs
Creators: name: AmateurS
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2021

description: Paratexte
description: ID_PARA_00948
Enhancing Joint Motion Prediction for Individuals with Limb Loss Through Model Reprogramming
Creators: name: Dey, Sharmita
name: Nair, Sarath R.
Publisher: name: arXiv
Year: 2024
Subjects: subject: Machine Learning (cs.LG)
subject: Robotics (cs.RO)
subject: FOS: Computer and information sciences

description: Mobility impairment caused by limb loss is a significant challenge faced by millions of individuals worldwide. The development of advanced assistive technologies, such as prosthetic devices, has the potential to greatly improve the quality of life for amputee patients. A critical component in the design of such technologies is the accurate prediction of reference joint motion for the missing limb. However, this task is hindered by the scarcity of joint motion data available for amputee patients, in contrast to the substantial quantity of data from able-bodied subjects. To overcome this, we leverage deep learning's reprogramming property to repurpose well-trained models for a new goal without altering the model parameters. With only data-level manipulation, we adapt models originally designed for able-bodied people to forecast joint motion in amputees. The findings in this study have significant implications for advancing assistive tech and amputee mobility.
title: GC. 38.4.2 - « Introduction : philosophie et psychologie »
Creators: name: Planet, Camille
name: Canguilhem, Georges (1904-1995)
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020

description: created: start=1937;end=2002
Exploring the Milky Way Circumgalactic Medium in a Cosmological Context with a Semi-Analytic Model
Creators: name: Faerman, Yakov
name: Pandya, Viraj
name: Somerville, Rachel S.
name: Sternberg, Amiel
Publisher: name: arXiv
Year: 2021
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We combine the Santa-Cruz Semi-Analytic Model (SAM) for galaxy formation and evolution with the circumgalactic medium (CGM) model presented in Faerman et al. (2020) to explore the CGM properties of $L^{*}$ galaxies. We use the SAM to generate a sample of galaxies with halo masses similar to the Milky Way (MW) halo, $M_{\rm vir} \approx 10^{12}~{\rm M_{sun}}$, and find that the CGM mass and mean metallicity in the sample are correlated. We use the CGM masses and metallicities of the SAM galaxies as inputs for the FSM20 model, and vary the amount of non-thermal support. The density profiles in our models can be approximated by power-law functions with slopes in the range of $0.75 < a_n < 1.25$, with higher non-thermal pressure resulting in flatter distributions. We explore how the gas pressure, dispersion measure, OVI-OVIII column densities, and cooling rates behave with the gas distribution and total mass. We show that for CGM masses below $\sim 3 \times 10^{10}~{\rm M_{sun}}$, photoionization has a significant effect on the column densities of OVI and OVIII. The combination of different MW CGM observations favors models with similar fractions in thermal pressure, magnetic fields/cosmic rays, and turbulent support, and with $M_{\rm gas} \sim 3-10 \times 10^{10}~{\rm M_{sun}}$. The MW OVI column requires $t_{\rm cool}/t_{\rm dyn} \sim 4$, independent of the gas distribution. The AGN jet-driven heating rates in the SAM are enough to offset the CGM cooling, although exact balance is not required in star-forming galaxies. We provide predictions for the columns densities of additional metal ions - NV, NeVIII, and MgX.
description: Submitted to ApJ. 19 pages, 15 figures (+ appendix)
Additional file 7 of Metagenomic analysis reveals the microbiome and resistome in migratory birds
Creators: name: Cao, Jian
name: Hu, Yongfei
name: Liu, Fei
name: Wang, Yanan
name: Bi, Yuhai
name: Lv, Na
name: Li, Jing
name: Zhu, Baoli
name: Gao, George F.
Publisher: name: figshare
Year: 2020
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 7: Figure S7. bird fecal and environmental microbiota and resistomes in Gengga Lake. (a) Relative abundances of microbial phyla, (b) Relative abundances of microbial family, (c) Absolute abundances of antibiotic resistance categories, (d) Absolute abundances of antibiotic resistance mechnism. Boxes denote the interquartile (IQR) between the first and third quartiles (25th and 75th percentiles, respectively) and the line inside denotes the median. Whiskers denote the lowest and highest values within 1.5 times and the IQR from the first and third quartiles, respectively.
Evaluation of the influence of dominance rules for the assembly line design problem under consideration of product design alternatives
Creators: name: Oesterle, Jonathan
name: Amodeo Lionel
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Pharmacology
subject: Biotechnology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Science Policy

description: The current competitive situation increases the importance of realistically estimating product costs during the early phases of product and assembly line planning projects. In this article, several multi-objective algorithms using difference dominance rules are proposed to solve the problem associated with the selection of the most effective combination of product and assembly lines. The list of developed algorithms includes variants of ant colony algorithms, evolutionary algorithms and imperialist competitive algorithms. The performance of each algorithm and dominance rule is analysed by five multi-objective quality indicators and fifty problem instances. The algorithms and dominance rules are ranked using a non-parametric statistical test.
UNDO: the United Nations System Document Ontology
Creators: name: Peroni, Silvio
Publisher: name: figshare
Year: 2017
Subjects: subject: Library and Information Studies
subject: FOS: Media and communications

description: Akoma Ntoso is an OASIS Committee Specification Draft standard for the electronic representations of parliamentary, normative and judicial documents in XML. Recently, it has been officially adopted by the United Nations (UN) as the main electronic format for making UN documents machine-processable. However, Akoma Ntoso does not force nor define any formal ontology for allowing the description of real-world objects, concepts and relations mentioned in documents. In order to address this gap, in this paper we introduce the United Nations System Document Ontology (UNDO), i.e. an OWL 2 DL ontology developed and adopted by the United Nations that aims at providing a framework for the formal description of all these entities.
Direct fluorescent labeling for efficient biological assessment of inhalable particles
Creators: name: Bijay Kumar Poudel
name: Park, Jae Hong
name: Jiseok Lim
name: Byeon, Jeong Hoon
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology

description: Labeling of aerosol particles with a radioactive, magnetic, or optical tracer has been employed to confirm particle localization in cell compartments, which has provided useful evidence for correlating toxic effects of inhaled particles. However, labeling requires several physicochemical steps to identify functionalities of the inner or outer surfaces of particles, and moreover, these steps can cause changes in size, surface charge, and bioactivity of the particles, resulting in misinterpretations regarding their toxic effects. This study addresses this challenging issue with a goal of introducing an efficient strategy for constantly supplying labeled aerosol particles in a single-pass configuration without any pre- or post-physicochemical batch treatments of aerosol particles. Carbon black (CB, simulating combustion-generated soot) or calcium carbonate (CC, simulating brake-wear fragments) particles were constantly produced via spark ablation or bubble bursting, respectively. These minute particles were incorporated with fluorescein isothiocyanate-poly(ethylene glycol) 2-aminoethyl ether acetic acid solution at the orifice of a collison atomizer to fabricate hybrid droplets. The droplets successively entered a diffusion dryer containing 254-nm UV irradiation; therefore, the droplets were dynamically stiffened by UV to form fluorescent probes on particles during solvent extraction in the dryer. Particle size distributions, morphologies, and surface charges before and after labeling were measured to confirm fluorescence labeling without significant changes in the properties. In vitro assays, including confocal imaging, were conducted to confirm the feasibility of the labeling approach without inducing significant differences in bioactivity compared with untreated CB or CC particles.
Deriving Dependently-Typed OOP from First Principles -- Extended Version with Additional Appendices
Creators: name: Binder, David
name: Skupin, Ingo
name: Süberkrüb, Tim
name: Ostermann, Klaus
Publisher: name: arXiv
Year: 2024
Subjects: subject: Programming Languages (cs.PL)
subject: FOS: Computer and information sciences

description: The expression problem describes how most types can easily be extended with new ways to produce the type or new ways to consume the type, but not both. When abstract syntax trees are defined as an algebraic data type, for example, they can easily be extended with new consumers, such as print or eval, but adding a new constructor requires the modification of all existing pattern matches. The expression problem is one way to elucidate the difference between functional or data-oriented programs (easily extendable by new consumers) and object-oriented programs (easily extendable by new producers). This difference between programs which are extensible by new producers or new consumers also exists for dependently typed programming, but with one core difference: Dependently-typed programming almost exclusively follows the functional programming model and not the object-oriented model, which leaves an interesting space in the programming language landscape unexplored. In this paper, we explore the field of dependently-typed object-oriented programming by deriving it from first principles using the principle of duality. That is, we do not extend an existing object-oriented formalism with dependent types in an ad-hoc fashion, but instead start from a familiar data-oriented language and derive its dual fragment by the systematic use of defunctionalization and refunctionalization. Our central contribution is a dependently typed calculus which contains two dual language fragments. We provide type- and semantics-preserving transformations between these two language fragments: defunctionalization and refunctionalization. We have implemented this language and these transformations and use this implementation to explain the various ways in which constructions in dependently typed programming can be explained as special instances of the phenomenon of duality.
description: This extended version contains additional appendices not contained in the published version. The published version will be available in the ACM DL as part of the PACMPL issue for OOPSLA 2024
Identification and determination of naturally occurring folates in grains of rice (Oryza sativa L.) by UPLC-MS/MS analysis
Creators: name: Kaliyaperumal Ashokkumar
name: Sivakumar, Paramasivam
name: Muthukrishnan Saradhadevi
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Biotechnology
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: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Plant Biology

description: The genetic potential and biofortification of India-grown rice with bioavailable folate has not been studied yet. The objectives of this study were to determine the folates concentration in four cultivars of rice through UPLC–MS/MS. Total folate concentration in rice cultivars ranged from 11.0 to 51 μg/100 g with a mean of 26.0 μg/100 g. Among the four rice cultivars, the pigmented grain cultivar Nootripathu possesses two-fold rich sources of total folates than the other three non-pigmented grain cultivars. The average value of 100 g serving of rice grains could provide the amount of recommended daily allowance (% RDA) of dietary folates (6.5%) for adults, which ranged from 2.7–12.7%. Among the 5 individual forms of folates, 5-methyltetrahydrofolate was most abundant in rice cultivars followed by 10-Formylfolic acid and folic acid. The result of this study has been useful for biofortification of folates in rice.
Repeated mergers, mass-gap black holes, and formation of intermediate-mass black holes in nuclear star clusters
Creators: name: Fragione, Giacomo
name: Kocsis, Bence
name: Rasio, Frederic A.
name: Silk, Joseph
Publisher: name: arXiv
Year: 2021
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: Current theoretical models predict a mass gap with a dearth of stellar black holes (BHs) between roughly $50\,M_\odot$ and $100\,M_\odot$, while, above the range accessible through massive star evolution, intermediate-mass BHs (IMBHs) still remain elusive. Repeated mergers of binary BHs, detectable via gravitational wave emission with the current LIGO/Virgo/Kagra interferometers and future detectors such as LISA or the Einstein Telescope, can form both mass-gap BHs and IMBHs. Here we explore the possibility that mass-gap BHs and IMBHs are born as a result of successive BH mergers in dense star clusters. In particular, nuclear star clusters at the centers of galaxies have deep enough potential wells to retain most of the BH merger products after they receive significant recoil kicks due to anisotropic emission of gravitational radiation. We show that a massive stellar BH seed can easily grow to $\sim 10^3 - 10^4\,M_\odot$ as a result of repeated mergers with other smaller BHs. We find that lowering the cluster metallicity leads to larger final BH masses. We also show that the growing BH spin tends to decrease in magnitude with the number of mergers, so that a negative correlation exists between final mass and spin of the resulting IMBHs. Assumptions about the birth spins of stellar BHs affect our results significantly, with low birth spins leading to the production of a larger population of massive BHs.
description: 13 pages, 8 figures, 2 tables, accepted by ApJ
Development of a rapid and sensitive HPLC method for the identification and quantification of cavoxin and cavoxone in Phoma cava culture filtrates
Creators: name: Masi, Marco
name: Moeini, Seyed Arash
name: Boari, Angela
name: Cimmino, Alessio
name: Vurro, Maurizio
name: Evidente, Antonio
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Plant Biology

description: Cavoxin is a tetrasubstituted phytotoxic chalcone and cavoxone is the corresponding chroman-4-one, both produced in vitro by Phoma cava, a fungus isolated from chestnut. Cavoxin showed biofungicide potential against fungal species responsible for food moulding. Therefore, cavoxin has potential to be incorporated into biopolymer to generate ‘intelligent food packaging’. To reach this objective, large-scale production of cavoxin by P. cava fermentation needs to be optimized. A rapid and efficient method for cavoxin analysis, as well as of cavoxone, in the fungal culture filtrates and the corresponding organic extracts is the first experimental step. Thus, a HPLC method was developed and applied to quantify cavoxin and cavoxone production in two different fungal culture conditions. The analysis proved that cavoxin production in stirred culture filtrates is significantly higher than in static ones.
Extraction of Clove Essential Oil by Microcapsule Aqueous Two-phase System
Creators: name: Xiong, Guoxi
name: Wang, Ping
name: Yang, Junpeng
name: Tang, Xiangying
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biochemistry
subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified

description: Traditional method to prepare clove oil is by steam distillation of crude clove oil. However, the major drawback of this method is that the densities of clove and water are very close to each other and further extraction by organic solvents is inevitable. To solve this problem and follow the requirement of environmental benign operation, a microcapsule β-cyclodextrin in aqueous two-phase system is developed to extraction of crude clove essential oil with higher selectivity and purity than steam distillation. Moreover, this stable clove capsules with β-cyclodextrin may have broad applications in food, medication, cosmetic and tobacco industries.
Screening and identification of major phytochemical compounds in seeds, sprouts and leaves of Tuscan black kale Brassica oleracea (L.) ssp acephala (DC) var. sabellica L.
Creators: name: Giorgetti, Lucia
name: Giorgi, Gianluca
name: Cherubini, Edoardo
name: Gervasi, Pier Giovanni
name: Croce, Clara Maria Della
name: Longo, Vincenzo
name: Bellani, Lorenza
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biochemistry
subject: Medicine
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: We report the spectrophotometric determination of total polyphenols, flavonoids, glucosinolates and antioxidant activity in seeds, seedlings and leaves of Tuscan black kale. The highest content of phytochemicals was observed in 10 days sprouts and antioxidant activity was maximum in 2, 4 days seedlings. Identification and characterisation of phytochemicals were performed by mass spectrometry (MS), high resolution and tandem MS with electrospray ionisation mode. Low-molecular-weight metabolites were evidenced in seeds while metabolites at high m/z range were detected in cotyledons and leaves. MS spectra evidenced different phenolic compounds (flavonoid caffeoyl glucose, hydroxycinnamic acid sinapine) and glucosinolates (glucoerucin, glucobrassicin and glucoraphanin) in function of developmental stage; galactolipids ω3 and ω6 were observed in leaves. Identification of stages with the highest phytochemicals content encourages the consumption of black kale sprouts and young leaves. Our research can support food and pharmaceutical industries for production of health promoting products from black kale.
Following the trail of new physics via VBF Higgs signal at the Large Hadron Collider
Creators: name: Biswas, Tisa
name: Datta, Anindya
name: Mukhopadhyaya, Biswarup
Publisher: name: arXiv
Year: 2021
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We investigate the modification of the Higgs signals from vector boson fusion at the LHC arising from higher-dimensional effective operators involving quarks, electroweak gauge bosons and the 125-GeV scalar discovered in 2012. Taking a few of the admissible dimension-6 operators as illustration, we work within the framework of the Standard Model Effective Field Theory (SMEFT) and identify kinematic variables that can reflect the presence of such effective operators. The useful variables turn out to be the geometric mean of the transverse momenta of the two forward jets produced in VBF and the rapidity difference between the two forward jets. We identify the shift in event population caused by the effective operators in the same, spanned by the above kinematic variables. Minimum values of the Wilson coefficients of the chosen dimension-6 operators are identified, for which they can be probed at the $3σ$ level in the high luminosity run of the LHC at 14 TeV. Projected exclusion limits on some of the couplings, obtained from our analysis, can significantly improve the limits on such couplings derived from electroweak precision data.
description: 20 pages, 10 figures and 4 tables; figure 10 is supplementary; comments added and references updated; conclusions unchanged. Accepted for publication in PRD
title: Community Onboarding Document
title: The Catalyst Project:  Open Collaborative Cloud Project for Latin America and Africa
titleType: Subtitle
Creators: name: Gwadabe, Tajuddeen
name: Ación, Laura
name: Black, Melissa
name: Hernandez Ortiz, Tania L
name: Hodges, Toby
name: López, Sabrina
name: Palopoli, Nicolas
name: Sanghvi, Maya
name: Santistevan, Camille
name: Skinner, Katherine
name: Thaney, Kaitlin
name: Trusler, Angelique
name: Tsang, Emmy
name: Wolovick, Nicolás
name: Wong, Jenny
name: Woodley, Louise
name: Yehudi, Yo
Publisher: name: Zenodo
Year: 2024

description: The Catalyst Project is a collaborative project among 6 non-profit organisations funded by the Chan Zuckerberg Initiative. The project aims to provide interactive cloud infrastructure to biomedical communities in Latin America and Africa.

This document is aimed at introducing the Catalyst Project to community partners. It is a living document that will be constantly updated with feedback from stakeholders including the project team and community partners.

The structure of this evolving document

The document is arranged in sections. The first section provides an overview of the Catalyst Project. The second section then introduces the services that will be provided to community partners through the Catalyst Project. Section three lists some of the expectations from community partners participating in the Catalyst Project. In section four, we introduce some possible frequently asked questions that community partners might be interested in. Finally, we provide an appendix at the end of the document to further provide additional information about the project goals and the project team.

Who this document is for

This document is intended for representatives of communities in Latin America and Africa including hub champions, community champions and the leadership of communities that will participate in this project to have a common background of the project goals and activities.
On the globalization of geometric partial (co)modules in the categories of topological spaces and algebras
Creators: name: Saracco, Paolo
name: Vercruysse, Joost
Publisher: name: arXiv
Year: 2021
Subjects: subject: Rings and Algebras (math.RA)
subject: FOS: Mathematics
subject: 16T15, 16W22, 18A40

description: We study the globalization of partial actions on sets and topological spaces and of partial coactions on algebras by applying the general theory of globalization for geometric partial comodules, as previously developed by the authors. We show that this approach does not only allow to recover all known results in these settings, but it allows to treat new cases of interest, too.
description: 16 pages, comments are welcome!
A Poisson Algebra on the Hida Test Functions and a Quantization using the Cuntz Algebra
Creators: name: Bock, Wolfgang
name: Futorny, Vyacheslav
name: Neklyudov, Mikhail
Publisher: name: arXiv
Year: 2021
Subjects: subject: Mathematical Physics (math-ph)
subject: Operator Algebras (math.OA)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: In this note we define one more way of quantization of classical systems. The quantization we consider is an analogue of classical Jordan-Schwinger (J.-S.) map which has been known and used for a long time by physicists. The difference, comparing to J.-S. map, is that we use generators of Cuntz algebra $\mathcal{O}_{\infty}$ (i.e. countable family of mutually orthogonal partial isometries of separable Hilbert space) as a "building blocks" instead of creation-annihilation operators. The resulting scheme satisfies properties similar to Van Hove prequantization i.e. exact conservation of Lie bracket and linearity.