cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Comparing machine learning models to choose the variable ordering for cylindrical algebraic decomposition
Creators: name: England, Matthew
name: Florescu, Dorian
Publisher: name: arXiv
Year: 2019
Subjects: subject: Symbolic Computation (cs.SC)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences
subject: I.2.6; I.1.0
subject: 68W30, 68T05, 03C10

description: There has been recent interest in the use of machine learning (ML) approaches within mathematical software to make choices that impact on the computing performance without affecting the mathematical correctness of the result. We address the problem of selecting the variable ordering for cylindrical algebraic decomposition (CAD), an important algorithm in Symbolic Computation. Prior work to apply ML on this problem implemented a Support Vector Machine (SVM) to select between three existing human-made heuristics, which did better than anyone heuristic alone. The present work extends to have ML select the variable ordering directly, and to try a wider variety of ML techniques. We experimented with the NLSAT dataset and the Regular Chains Library CAD function for Maple 2018. For each problem, the variable ordering leading to the shortest computing time was selected as the target class for ML. Features were generated from the polynomial input and used to train the following ML models: k-nearest neighbours (KNN) classifier, multi-layer perceptron (MLP), decision tree (DT) and SVM, as implemented in the Python scikit-learn package. We also compared these with the two leading human constructed heuristics for the problem: Brown's heuristic and sotd. On this dataset all of the ML approaches outperformed the human made heuristics, some by a large margin.
description: Accepted into CICM 2019
Versatile Hall magnetometer with variable sensitivity assembly for characterization of the magnetic properties of nanoparticles
Creators: name: Araujo, Jefferson F. D. F.
name: Vieira, Daniel R. P.
name: Osorio, Fredy
name: Pöttker, Walmir E.
name: La Porta, Felipe A.
name: de la Presa, Patricia
name: Perez, Geronimo
name: Bruno, Antonio C.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Instrumentation and Detectors (physics.ins-det)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Applied Physics (physics.app-ph)
subject: FOS: Physical sciences

description: A Hall magnetometer with variable sensitivity is constructed to measure the magnetic properties of magnetic nanoparticles manufactured by different methods. This novel magnetometer can also be used to measure bulk materials and samples in liquids. The magnetometer is constructed with two commercial Hall-effect sensors in an acrylic structure, which serves as the support for a micrometer and the circuit board with the sensors. For operation, the magnetometer it acquires a complete magnetization curve in a few minutes. If has a magnetic moment sensitivity of 1.3*10-9 Am2 to sensitivity of 493 mV/mT, the sensitivity can be adjustable in the range of 10 to 493 mV/mT. Its performance is tested with magnetic nanoparticles. As an application example, we estimate the mean diameter of the nanoparticles using the magnetic curves. The results are compared with those obtained by other techniques, such as transmission electron microscopy (TEM), X-ray diffraction (XRD) and dynamic light scattering (DLS). The magnetization results are also compared with those obtained by independent commercial magnetometers, which reveals errors of approximately 0.31 Am2/kg (i.e., 0.6%) in the saturation region.
description: 20 pages, 8 figures and 2 tables. Accepted at Journal of Magnetism and Magnetic Materials
On the existence of Ulrich bundles on blown-up varieties at a point
Creators: name: Secci, Saverio Andrea
Publisher: name: arXiv
Year: 2019
Subjects: subject: Algebraic Geometry (math.AG)
subject: FOS: Mathematics
subject: 14J60 (Primary) 14J26, 14J28 (Secondary)

description: The objective is to show the construction of an Ulrich vector bundle on the blowing-up $\widetilde X$ of a nonsingular projective variety $X$ at a closed point, where the original variety is embedded by a very ample divisor $H$ and carries an Ulrich vector bundle. In order to achieve this result, we aim to find a suitable very ample divisor on $\widetilde X$, which is dependent on $H$. At the end, we take into consideration some applications to surfaces with regards to minimal models and their Kodaira dimension.
description: v2: modified description of Thm.2, beginning of Section 3, Cor.3 and Cor.8. I thank G. Casnati and Y. Kim for their helpful comments
Light Unstable Sterile Neutrino
Creators: name: Ma, Ernest
name: Rajasekaran, G.
Publisher: name: arXiv
Year: 2001
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The three massless active (doublet) neutrinos may mix with two heavy and one \underline {light} sterile (singlet) neutrinos so that the induced masses and mixings among the former are able to explain the present data on atmospheric and solar neutrino oscillations. If the LSND result is also to be explained, one active neutrino mass eigenstate must mix with the light sterile neutrino. A specific model is proposed with the spontaneous and soft explicit breaking of a new global $U(1)_S$ symmetry so that a sterile neutrino will decay into an active antineutrino and a nearly massless pseudo-Majoron.
description: Discussion and references added
Diffusion of charm quarks in jets in high-energy heavy-ion collisions
Creators: name: Wang, Sa
name: Dai, Wei
name: Zhang, Ben-Wei
name: Wang, Enke
Publisher: name: arXiv
Year: 2019
Subjects: subject: Nuclear Theory (nucl-th)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The radial distribution of $D^0$ mesons in jets probes the diffusion of charm quark relative to the jet axis and provides a new perspective to study the interaction mechanisms between heavy quarks and the medium in the nucleus-nucleus collisions. The in-medium parton propagations are described by a Monte Carlo transport model which uses the next-to-leading order (NLO) plus parton shower (PS) event generator SHERPA as input and includes elastic (collisional) and inelastic (radiative) interaction for heavy quarks as well as light partons. At low $D^0$ meson $p_T$, the radial distribution significantly shifts to larger radius indicating a strong diffusion effect which is consistent with the recent experimental data. We demonstrate that the angular deviation of charm quarks declines with $p_T$ and is very sensitive to the collisional more than radiative interaction at $p_T<5$~GeV. As predictions, we present the $D^0$ meson radial distribution in jets in p+p and $0-10\%$ Au+Au collisions at $\sqrt{s_{NN}}=200$~GeV at the RHIC, and also estimate the nuclear modification factor of charm jet in central Au+Au collisions at 200~GeV at the RHIC and central Pb+Pb collisions at $5.02$~TeV at the LHC.
description: 8 pages, 8 figures
Epermenia ochreomaculella subsp. asiatica Gaedike 1979
Creators: name: Gaedike, Reinhard
name: Šumpich, Jan
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Epermeniidae
Epermenia
Epermenia ochreomaculella
Epermenia ochreomaculella asiatica gaedike, 1979

description: Epermenia ochreomaculella asiatica Gaedike, 1979
(Fig. 8)
 Material examined. RUSSIA: ALTAI REPUBLIC: Kosh-Agach Distr., Tashanta env. (10 km SW), Ulandryk valley, rocks, 2200 m a.s.l., 49°40′33″N, 89°04′09″E, 30.vi.2015, 1 J (gen. prep. Gaedike 8750), J. Šumpich leg. (NMPC).
 Distribution. While the typical subspecies is known from the Mediterranean region to the Caucasus area, Ukraine and the European part of Russia, the subspecies E. o. asiatica is known from Lebanon through Turkey to Mongolia and the Russian Far East. In Russia hitherto known only from the Taymyr, Yakutiya and Khabarovsk Regions (BUDASHKIN & SINEV 2008). New species for the Altai Republic.
description: Published as part of Gaedike, Reinhard & Šumpich, Jan, 2017, Tinea altaica sp. nov. and new records of some small moths from the Russian Altai (Lepidoptera: Meessiidae, Tineidae, Douglasiidae, Epermeniidae, Glyphipterigidae: Acrolepiinae), pp. 259-273 in Acta Entomologica Musei Nationalis Pragae 57 (1) on page 272, DOI: 10.1515/aemnp-2017-0073, http://zenodo.org/record/5404220
Additional file 1: of Mapping evidence of the concomitant management of schistosomiasis by traditional health practitioners and health care professionals in communities with high prevalent infections: a systematic scoping review protocol
Creators: name: Gloire-AimĂŠ Mushebenge
name: Tivani Mashamba-Thompson
name: Manimbulu Nlooto
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Results of pilot database search. (DOCX 14 kb)
In silico drug repurposing by combining machine learning classification model and molecular dynamics to identify a potential OGT inhibitor
Creators: name: de Alencar Azevedo, Pedro Henrique Rodrigues
name: de Britto Peçanha, Bruna Rachel
name: Flores-Junior, Luiz Augusto Pinheiro
name: Alves, Tatiana Fialho
name: Dias, Luiza Rosaria Sousa
name: Muri, Estela Maris Freitas
name: da Silva Lima, Camilo Henrique
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Cancer

description: O-linked N-acetylglucosamine (O-GlcNAc) is a unique intracellular post-translational glycosylation at the hydroxyl group of serine or threonine residues in nuclear, cytoplasmic and mitochondrial proteins. The enzyme O-GlcNAc transferase (OGT) is responsible for adding GlcNAc, and anomalies in this process can lead to the development of diseases associated with metabolic imbalance, such as diabetes and cancer. Repurposing approved drugs can be an attractive tool to discover new targets reducing time and costs in the drug design. This work focuses on drug repurposing to OGT targets by virtual screening of FDA-approved drugs through consensus machine learning (ML) models from an imbalanced dataset. We developed a classification model using docking scores and ligand descriptors. The SMOTE approach to resampling the dataset showed excellent statistical values in five of the seven ML algorithms to create models from the training set, with sensitivity, specificity and accuracy over 90% and Matthew’s correlation coefficient greater than 0.8. The pose analysis obtained by molecular docking showed only H-bond interaction with the OGT C-Cat domain. The molecular dynamics simulation showed the lack of H-bond interactions with the C- and N-catalytic domains allowed the drug to exit the binding site. Our results showed that the non-steroidal anti-inflammatory celecoxib could be a potentially OGT inhibitor. Communicated by Ramaswamy H. Sarma
Additional file 1: of Development of a nursing-specific Mini-CEX and evaluation of the core competencies of new nurses in postgraduate year training programs in Taiwan
Creators: name: Yueh-Ping Liu
name: Jensen, Dana
name: Cho-Yu Chan
name: Chung-Jen Wei
name: Yuanmay Chang
name: Chih-Hsiung Wu
name: Chiung-Hsuan Chiu
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: Developmental Biology
subject: Marine Biology
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Mini-Clinical Evaluation Exercise (Mini-CEX) for Nurses. (DOCX 25 kb)
Microstructure and pinning properties of hexagonal-disc shaped single crystalline MgB2
Creators: name: Jung, C. U.
name: Kim, J. Y.
name: Chowdhury, P.
name: Kim, Kijoon H. P.
name: Lee, Sung-Ik
name: Koh, D. S.
name: Tamura, N.
name: Caldwell, W. A.
name: Patel, J. R.
Publisher: name: arXiv
Year: 2002
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We synthesized hexagonal-disc-shaped MgB2 single crystals under high-pressure conditions and analyzed the microstructure and pinning properties. The lattice constants and the Laue pattern of the crystals from X-ray micro-diffraction showed the crystal symmetry of MgB2. A thorough crystallographic mapping within a single crystal showed that the edge and c-axis of hexagonal-disc shape exactly matched the (10-10) and the (0001) directions of the MgB2 phase. Thus, these well-shaped single crystals may be the best candidates for studying the direction dependences of the physical properties. The magnetization curve and the magnetic hysteresis for these single crystals showed the existence of a wide reversible region and weak pinning properties, which supported our single crystals being very clean.
description: 5 pages, 3 figures. submitted to Phys. Rev. B
Structure-based molecular networking, molecular docking, dynamics simulation and pharmacokinetic studies of Olax subscorpioidea for identification of potential inhibitors against selected cancer targets
Creators: name: Oladipupo, Akolade R.
name: Alaribe, Stephenie C. A.
name: Ogunlaja, Adeniyi S.
name: Beniddir, Mehdi A.
name: Gordon, Allen T.
name: Ogah, Celina O.
name: Okpuzor, Joy
name: Coker, Herbert A. B.
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences

description: The rationale at the basis of targeted approach in oncology is radically shifting—from development of highly specific agents aiming at a single target towards molecules interfering with multiple targets. This study was performed to isolate and characterize bioactive molecules from Olax subscorpioidea stem and investigate their potentials as multi-targeted inhibitors against selected non-small cell lung cancer, breast cancer and chronic myelogenous leukemia oncogenic targets. Three compounds: β-sitosterol (1), α-amyrin (2) and stigmasterol (3) were isolated. The structures of 1 − 3 were elucidated by analysis of their spectroscopic data (NMR, MS and IR). To the best of our knowledge, this is the first time these compounds were isolated from O. subscorpioidea stems. Furthermore, integrated analysis of MS/MS data using the Global Natural Products Social Molecular Networking (GNPS) workflow enabled dereplication and identification of 26 compounds, including alkaloids (remerine, boldine), terpenoids (3-hydroxy-11-ursen-28,13-olide, oleanolic acid), flavonoids (kaempferitrin, olax chalcone A) and saponins in O. subscorpioidea stem. Molecular docking studies revealed that some of the compounds, including olax chalcone A (–9.2 to −10.9 kcal/mol), 3-Hydroxy-11-ursen-28,13-olide (–6.6 to −10.2 kcal/mol), α-amyrin (–6.6 to −10.2 kcal/mol), stigmasterol (–7.7 to −10.1 kcal/mol), β-Sitosterol (–7 to −9.9 kcal/mol) and kaempferitrin (–7.7 to −9 kcal/mol) possessed good inhibitory potentials against selected cancer targets, when compared with reference inhibitors (–8.4 to −13.7 kcal/mol). A few of these compounds were shown to have considerable to favorable pharmacokinetic and drug-likeness properties. This study provides some rationale for the use of O. subscorpioidea in ethnomedicinal management of cancer and identifies some potential anticancer agents. Communicated by Ramaswamy H. Sarma
FRD-2022-0009 – German – Plain language summary: How the Pompe Registry is helping to identify and explain gene changes in Pompe disease
Creators: name: Reuser, Arnold JJ
name: Kishnani, Priya S
Publisher: name: Taylor & Francis
Year: 2023

description: What is this summary about?
This is a summary of an article originally published in the journal Human Mutation. Pompe disease is a rare genetic disorder. In the USA, one person in every 10,000 to 28,000 people is born with Pompe disease. Pompe disease develops when both parents pass on a copy of a gene, called GAA, that has a disease-causing change to it. The GAA gene contains the instructions to make an enzyme called acid alpha glucosidase; abbreviated as ‘GAA’, which breaks down glycogen into glucose. When the GAA gene contains a disease-causing change, this can lead to a total absence of GAA or the enzyme failing to function properly. As a result, glycogen builds up in cells and causes damage to organs such as the heart and muscles. There is a wide range of severity and symptoms in Pompe disease, including muscle weakness, heart and breathing issues, and extreme tiredness (fatigue). There are many changes in the GAA gene (called variants) that can result in Pompe disease. The severity of symptoms and when symptoms start partly depend on the variants that the people with Pompe disease have inherited from their parents.

What was learned & how?
Researchers looked at GAA gene variants from people with Pompe disease using a database called the Pompe Registry. Since 2004, the Pompe Registry has collected worldwide clinical information on people with Pompe disease and their gene changes. The researchers investigated how many different GAA variants are currently listed in this registry, and how common each variant was overall and in different geographical regions. The researchers assigned the people to three groups based on the age of when their symptoms began and if they had an enlarged heart diagnosed in their first year of life. Out of 1753 people enrolled in the Pompe Registry, the researchers analyzed data from 1079 people from 26 countries. 2075 GAA gene variants were identified, 80 of which had not been reported before. A harmful variant called c.-32-13T>G was the most common overall and was present in North America, Latin America and Europe.

What are the practical implications?
This analysis supports healthcare professionals and people with Pompe disease to appreciate the geographic distribution and to assess the nature of GAA variants. The findings can help with the diagnosis of Pompe disease and the understanding of how different variants relate to the start and severity of symptoms. This information will also help genetic counsellors and doctors to have discussions with people with Pompe disease and their families and caregivers about genetic risk and family planning.
Quantum Quench and $f$-Sum Rules on Linear and Non-linear Conductivities
Creators: name: Oshikawa, Masaki
name: Watanabe, Haruki
Publisher: name: arXiv
Year: 2019
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: Considering a quench process in which an electric field pulse is applied to the system, "$f$-sum rule" for the conductivity for general quantum many-particle systems is derived. It is furthermore extended to an infinite series of sum rules, applicable to the nonlinear conductivity at every order.
description: 5 pages, 1 figure; v3: numerical factors corrected
A biophysical approach of tyrphostin AG879 binding information in: bovine serum albumin, human ErbB2, c-RAF1 kinase, SARS-CoV-2 main protease and angiotensin-converting enzyme 2
Creators: name: Karthikeyan, Subramani
name: Sundaramoorthy, Anandh
name: Kandasamy, Saravanan
name: Bharanidharan, Ganesan
name: Aruna, Prakasarao
name: Suganya, Ramakrishnamurthy
name: Mangaiyarkarasi, Rajendiran
name: Ganesan, Singaravelu
name: Pandian, Ganesh N.
name: Ramamoorthi, Anitha
name: Chinnathambi, Shanmugavel
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology

description: Viral infections cause significant health problems all over the world, and it is critical to develop treatments for these problems. Antivirals that target viral genome-encoded proteins frequently cause the virus to become more resistant to treatment. Because viruses rely on several cellular proteins and phosphorylation processes that are essential to their life cycle, drugs targeting host-based targets could be a viable treatment option. To reduce costs and improve efficiency, existing kinase inhibitors could be repurposed as antiviral medications; however, this method rarely works, and specific biophysical approaches are required in the field. Because of the widespread use of FDA-approved kinase inhibitors, it is now possible to better understand how host kinases contribute to viral infection. The purpose of this article is to investigate the tyrphostin AG879 (Tyrosine kinase inhibitor) binding information in Bovine Serum Albumin (BSA), human ErbB2 (HER2), C-RAF1 Kinase (c-RAF), SARS-CoV-2 main protease (COVID 19), and Angiotensin-converting enzyme 2 (ACE-2). Communicated by Ramaswamy H. Sarma
Additional file 1: of AluMine: alignment-free method for the discovery of polymorphic Alu element insertions
Creators: name: Puurand, Tarmo
name: KukuĹĄkina, Viktoria
name: Fanny-Dhelia Pajuste
name: Remm, Maido
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: Figure S1 and Figure S2 explaining the REF- and REF+ discovery algorithms. Figure S3 showing distribution of depth of coverage in tested individuals. Figure S4. A gel electrophoretic image showing the experimental validation of REFâ polymorphic Alu element insertions in 48 locations and three individuals. Upper bands show the presence of an Alu insertion (alternative allele B), and lower bands show its absence (reference allele A). Predicted genotypes and expected product lengths are shown in Additional file 2: Table S5. PCR primers used for this analysis are shown in Additional file 2: Table S6. (DOCX 501 kb)
Implications from recent measurements on sin 2βand muon g-2
Creators: name: Wu, Yue-Liang
name: Zhou, Yu-Feng
Publisher: name: arXiv
Year: 2001
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The recent data on CP asymmetry in $B->J/ΨK_S$ and muon g-2 are discussed in the framework of standard model and beyond. Possible new phase effects besides the CKM phase are discussed in the processes concerning CP violation in B decays and muon anomalous magnetic moment (muon g-2). It is found that the new phases will result in difference between angles $beta$ measured from $B->J/ΨK_S$ and the one from global fit. The ration between them serves as a probe of not only new physics but also new phase besides the CKM phase In the case of muon g-2, the new phase may change the interferences between various contributions. By including the new phases, some cancelations in the real coupling cases can be avoided and the large value of muon g-2 observed in the recent measurements can be understood.
description: 7 pages, no figure. Talk delivered by Y.F.Zhou at International Conference on Flavor Physics (ICFP2001), May 31-June.6, at Zhang-Jia-Jie, China
Standard and Non-Standard Physics in Neutrino Oscillations
Creators: name: Maltoni, M.
Publisher: name: arXiv
Year: 2002
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We analyze the impact of recent solar and atmospheric data in the determination of the neutrino oscillation parameters, taking into account that both the solar nu_e and the atmospheric nu_mu may convert to a mixture of active and sterile neutrinos. Furthermore, in the context of the atmospheric neutrino problem we discuss an extended mechanism of neutrino propagation which combines both oscillations and non-standard neutrino-matter interactions. We use the most recent neutrino data, including the 1496-day Super-K solar and atmospheric data samples, the latest SNO spectral and day/night solar data, and the final MACRO atmospheric results. We confirm the clear preference of all the data for pure-active oscillation solutions, bounding the fraction of sterile neutrino involved in oscillations to be less than 52% in the solar sector and less than 40% in the atmospheric sector, at 3 sigma. For the atmospheric case we also derive a bound on the total amount of non-standard neutrino-matter interactions, bounding the flavor-changing component to -0.03 <= epsilon <= 0.02 and the non-universal component to |epsilon'| <= 0.05.
description: 6 pages, LaTeX file using espcrc2.sty, 1 table and 3 figures included. Talk given at the XXX International Meeting on Fundamental Physics (Jaca, Spain, 28/01-1/02/2002)
Additional file 1: of Spatial UBE2N protein expression indicates genomic instability in colorectal cancers
Creators: name: Gemoll, Timo
name: Miroll, Elena
name: Klein, Oliver
name: Lischka, Annette
name: Eravci, Murat
name: Thorns, Christoph
name: Habermann, Jens
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: Figure S1. MALDI imaging intensity box plots of identified peptides for UBE2N (m/z 1043.635 & m/z 1203.593; top) and SPTBN1 (m/z 959.513 & m/z 1203.593 bottom). Intensity plots of the two identified peptides UBE2N and SPTBN1 detected differentially regulated by MALDI imaging. Figure S2. Tissue-microarray-based immunohistochemical evaluation of UBE2N by means of image scope comparing normal mucosa vs. CRC and euploid vs. aneuploid CRCs after combining data of the training and validation TMA set. Bar plots and ROC curve of immunhistochemical data of UBE2N after combining data of the training and validation TMA set. Figure S3. Exemplary immunohistochemical UBE2N stainings of the TMA validation set. Images are presented as an overview (A) as well as an image section (B). Overview of exemplary immuohistochemical images of UBE2N. The images present results from the TMA validation set. Figure S4. Tissue-microarray-based immunohistochemical evaluation of SPTBN1 by means of image scope comparing normal mucosa vs. CRC and euploid vs. aneuploid CRCs in the training andÂ validation set. Bar plots of immunhistochemical data of SPTBN1. The images present results from the TMA validation set. (DOCX 21654 kb)
Rhaestes albicoxis KISS 1924
Creators: name: Horstmann, K.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Ichneumonidae
Rhaestes
Rhaestes albicoxis

description: Rhaestes albicoxis KISS 1924
 Rhaestes albicoxis KISS 1924: 122 f. – Holotypus (): "Désakna Dr. Kiss" (= Ocna Dejului/ Rumänien) und Determinationsetikett, Budapest.
 Gültiger Name: Symplecis bicingulata (GRAVENHORST 1829) (syn.nov.).
description: Published as part of Horstmann, K., 2007, Typenrevisionen der von Kiss beschriebenen Taxa der Ctenopelmatinae (Hymenoptera, Ichneumonidae), pp. 313-322 in Linzer biologische Beiträge 39 (1) on page 318, DOI: 10.5281/zenodo.5408607
Additional file 1: of A Brazilian cohort of individuals with Phelan-McDermid syndrome: genotype-phenotype correlation and identification of an atypical case
Creators: name: Samogy-Costa, Claudia
name: Varella-Branco, Elisa
name: Monfardini, Frederico
name: Ferraz, Helen
name: Fock, Rodrigo
name: Barbosa, Ricardo
name: Pessoa, André
name: Perez, Ana
name: Lourenço, Naila
name: Vibranovski, Maria
name: Krepischi, Ana
name: Rosenberg, Carla
name: Passos-Bueno, Maria
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Evolutionary Biology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: Hematology
subject: 110309 Infectious Diseases
subject: Plant Biology
subject: 60506 Virology
subject: Computational Biology

description: Figure S1. Multiplex ligation-dependent probe amplification (MLPA) test of atypical individual (P32) and his parents, confirm that its a de novo deletion. Figure S2. 22q13 deletions in 22 patients with renal abnormalities. Table S1. Frequency of dysmorphic features seen in PMS individuals. Table S2. Clinical findings in Brazilian PMS individuals. N/A = not available; + = comorbidity is present in the individual; − = comorbidity absent in the individual; F = female, M = male. Table S3. Clustering analysis of PMS individuals according to the sex and comorbidities seen among them. Table S4. p-value of Mann Whitney test performed for each comorbidity’s frequency and deletion size in our cohort (N = 34). Table S5. Fourteen individuals with 22q13.3 deletion and renal abnormalities previously described in the literature for which data was available online. Table S6. One hundred and one patients from three previously published works (Tabet et al, 2017; Lei et al, 2016; Soorya et al, 2013) and from our cohort included in the analysis of the frequency of renal abnormalities. All chromosomal coordinates are based on the hg19 version of the human reference genome. Color blue = individuals from Tabet et al (2017), green = individuals from Soorya et al (2013), orange = individuals from our cohort, and black = individuals from Lei et al (2016). (DOCX 400 kb)
Neutrino Anomalies in Gauge Mediated Model with Trilinear R violation
Creators: name: Joshipura, Anjan S.
name: Vaidya, Rishikesh D.
name: Vempati, Sudhir K.
Publisher: name: arXiv
Year: 2001
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The structure of neutrino masses and mixing resulting from trilinear $R$ violating interactions is studied in the presence of the gauge mediated supersymmetry breaking. Neutrino masses arise in this model at tree level through the RG-induced vacuum expectation values of the sneutrinos and also through direct contribution at 1-loop. The relative importance of these contributions is determined by the values of the strong and weak coupling constants. In case of purely $λ'$ couplings, the tree contribution dominates over the 1-loop diagram. In this case, one simultaneously obtains atmospheric neutrino oscillations and quasi-vacuum oscillations of the solar neutrinos if all the $ł'$ couplings are assumed to be of similar magnitudes. If R parity violation arises from the trilinear $ł$ couplings, then the loop induced contribution dominates over the tree level. One cannot simultaneously explain the solar and atmospheric deficit in this case if all the $ł$ couplings are of similar magnitude. This however becomes possible with hierarchical $ł$ and we give a specific example of this.
description: 26 pages Latex, 2 figures, certain sections rewritten, improved discussion about derivations added. To appear in Physical Review D
An assessment of EGFR and HER2 inhibitors with structure activity relationship of fused pyrimidine derivatives for breast cancer: a brief review
Creators: name: Dhiwar, Prasad Sanjay
name: Matada, Gurubasavaraja Swamy Purawarga
name: Pal, Rohit
name: Singh, Ekta
name: Ghara, Abhishek
name: Maji, Lalmohan
name: Sengupta, Sindhuja
name: Andhale, Ganesh
Publisher: name: Taylor & Francis
Year: 2023
Subjects: Biophysics
Biochemistry
Cell Biology
Pharmacology
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified
Cancer

description: Epidermal growth factor receptor (EGFR) and its subtype human epidermal growth factor receptor 2 (HER2) gets activated when its endogenous ligand(s) bind to its ATP binding site of target receptors. In breast cancer (BC), EGFR and HER2 are two proteins are overexpressed which leads to overexpression of cells proliferation and decreases cell death/apoptosis. Pyrimidine is one of the most widely studied heterocyclic scaffolds for EGFR as well as HER2 inhibition. We gather some remarkable results for fused-pyrimidine derivatives on various cancerous cell lines (in-vitro) and animal (in-vivo) evaluation to highlight their potency. The heterocyclic (five, six-membered, etc.) moieties which are coupled with pyrimidine moiety are potent against EGFR and HER2 inhibitions. Hence structure-activity relationship (SAR) plays important role in study of heterocyclic moiety along pyrimidine and effects of substituents, groups for increase or decrease in the cancerous activity and toxicity. By thoughtful of fused pyrimidines SAR study, it facilitates in receiving excellent overview of the compounds by concerning of efficacy and potential summary for future EGFR inhibitors. Furthermore, we studied the in-silico interactions of synthesized compounds to evaluate binding affinity towards the key amino acids.. Communicated by Ramaswamy H. Sarma
Design and characterization of a binary CT complex of imidazole-oxyresveratrol: exploring its pharmacological and computational aspects
Creators: name: Alam, Nisat
name: Islam, Maidul
name: Najnin, Hasina
name: Shakya, Sonam
name: Khan, Ishaat M.
name: Hossain, Md. Wamique
name: Zaidi, Rana
Publisher: name: Taylor & Francis
Year: 2023
Subjects: Biophysics
Biochemistry
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified

description: A new binary charge transfer (CT) complex between imidazole (IMZ) and oxyresveratrol (OXA) was synthesized and characterized experimentally and theoretically. The experimental work was carried out in solution and solid state in selected solvents such as chloroform (CHL), methanol (Me-OH), ethanol (Et-OH), and acetonitrile (AN). The newly synthesized CT complex (D1) has been characterized by various techniques such as UV-visible spectroscopy, FTIR, 1H-NMR, and powder-XRD. The 1:1 composition of D1 is confirmed by Jobs’ method of continuous variation and spectrophotometric (at λmax 554 nm) methods at 298 K. The infrared spectra of D1 confirmed the existence of proton transfer hydrogen bond beside charge transfer interaction. These findings indicate that the cation and anion are joined together by the weak hydrogen bonding as N+–H–O–. Reactivity parameters strongly recommended that IMZ behaves as a good electron donor and OXA an efficient electron acceptor. Density functional theory (DFT) computations with basis set B3LYP/6-31G (d,p) was applied to support the experimental results. TD-DFT calculations gives HOMO (−5.12 eV) → LUMO (−1.14 eV) electronic energy gap (ΔE) to be 3.80 eV. The bioorganic chemistry of D1 was well established after antioxidant, antimicrobial, and toxicity screening in Wistar rat. The type of interactions between HSA and D1 at the molecular level was studied through fluorescence spectroscopy. Binding constant along with the type of quenching mechanism, was investigated through the Stern-Volmer equation. Molecular docking demonstrated that D1 binds perfectly with human serum albumin and EGFR (1M17) and exposes free energy of binding (FEB) values of −295.2 and −283.3 kcal/mol, respectively. The D1 fits successfully into the minor groove of HAS and 1M17, the results of molecular docking show that the D1 binds perfectly with the HAS and 1M17, the higher value of binding energy shows stronger interaction between HAS and 1M17 with D1. Our synthesized complex shows good binding results with HAS compared to 1M17. Communicated by Ramaswamy H. Sarma
Particle-vortex duality and theta terms in AdS/CMT applications
Creators: name: Alejo, Luis
name: Nastase, Horatiu
Publisher: name: arXiv
Year: 2019
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: In this paper we study particle-vortex duality and the effect of theta terms from the point of view of AdS/CMT constructions. We can construct the duality in 2+1 dimensional field theories with or without a Chern-Simons term, and derive an effect on conductivities, when the action is viewed as a response action. We can find its effect on 3+1 dimensional theories, with or without a theta term, coupled to gravity in asymptotically AdS space, and derive the resulting effect on conductivities defined in the spirit of AdS/CFT. AdS/CFT then relates the 2+1 dimensional and the 3+1 dimensional cases naturally. Quantum gravity corrections, as well as more general effective actions for the abelian vector, can be treated similarly. We can use the fluid/gravity correspondence, and the membrane paradigm, to define shear and bulk viscosities $η$ and $ζ$ for a gravity plus abelian vector plus scalar system near a black hole, and define the effect of the S-duality on it.
description: 39 pages, no figures; references added
Additional file 1: of Peak expiratory flow as an endpoint for clinical trials in asthma: a comparison with FEV1
Creators: name: Halpin, David
name: Meltzer, Eli
name: Pisternick-Ruf, Wendelgard
name: Moroni-Zentgraf, Petra
name: Engel, Michael
name: Zaremba-Pechmann, Liliana
name: Casale, Thomas
name: J. FitzGerald
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Medicine
subject: Immunology
subject: FOS: Clinical medicine
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Science Policy
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: FOS: Biological sciences

description: Table S1. Correlation analysis results (Pearson correlation coefficient) at different time points between pre-dose FEV1 and pre-dose PEF, both measured under supervision in the clinic. Phase III trials with tiotropium Respimat® in patients aged 12–75 years with persistent asthma – all patients evaluated for efficacy. Table S2. Correlation analysis results (intraclass correlation coefficient) at different time points between supervised measurement in the clinic and unsupervised measurement at home for pre-dose FEV1. Phase III trials with tiotropium Respimat® in patients aged 12–75 years with persistent asthma – all patients evaluated for efficacy. Table S3. Correlation analysis results (intraclass correlation coefficient) at different time points between supervised measurement in the clinic and unsupervised measurement at home for pre-dose PEF. Phase III trials with tiotropium Respimat® in patients aged 12–75 years with persistent asthma – all patients evaluated for efficacy. (DOCX 20 kb)
Additional file 2: of What is full capacity protocol, and how is it implemented successfully?
Creators: name: Tabriz, Amir Alishahi
name: Birken, Sarah
name: Shea, Christopher
name: Fried, Bruce
name: Viccellio, Peter
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: CFIR CODEBOOK1. (DOCX 32 kb)
Pairbreaking Without Magnetic Impurities in Disordered Superconductors
Creators: name: Chattopadhyay, Amit K.
name: Klemm, Richard A.
name: Sa, Debanand
Publisher: name: arXiv
Year: 2002
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: We study analytically the effects of inhomogeneous pairing interactions in short coherence length superconductors, using a spatially varying Bogoliubov-deGennes model. Within the Born approximation, it reproduces all of the standard Abrikosov-Gor'kov pairbreaking and gaplessness effects, even in the absence of actual magnetic impurities. For pairing disorder on a single site, the T-matrix gives rise to bound states within the BCS gap. Our results are compared with recent scanning tunneling microscopy measurements on Bi$_2$Sr$_2$CaCu$_2$O$_{8+δ}$ with Zn or Ni impurities.
description: 4 pages, 2 figures, submitted to PRL
The K2 Galactic Caps Project -- Going Beyond the \textit{Kepler} Field and Ageing the Galactic Disc
Creators: name: Rendle, B. M.
name: Miglio, A.
name: Chiappini, C.
name: Valentini, M.
name: Davies, G. R.
name: Mosser, B.
name: Elsworth, Y.
name: García, R. A.
name: Mathur, S.
name: Jofré, P.
name: Worley, C. C.
name: Casagrande, L.
name: Girardi, L.
name: Lund, M. N.
name: Feuillet, D. K.
name: Gavel, A.
name: Magrini, L.
name: Khan, S.
name: Rodrigues, T. S.
name: Johnson, J. A.
name: Cunha, K.
name: Lane, R. L.
name: Nitschelm, C.
name: Chaplin, W. J.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: Analyses of data from spectroscopic and astrometric surveys have led to conflicting results concerning the vertical characteristics of the Milky Way. Ages are often used to provide clarity, but typical uncertainties of $>$ 40\,\% restrict the validity of the inferences made. Using the \textit{Kepler} APOKASC sample for context, we explore the global population trends of two K2 campaign fields (3 and 6), which extend further vertically out of the Galactic plane than APOKASC. We analyse the properties of red giant stars utilising three asteroseismic data analysis methods to cross-check and validate detections. The Bayesian inference tool PARAM is used to determine the stellar masses, radii and ages. Evidence of a pronounced red giant branch bump and an [$α$/Fe] dependence on the position of the red clump is observed from the radii distribution of the K2 fields. Two peaks in the age distribution centred at $\sim$5 and and $\sim$12 Gyr are found using a sample with $σ_{\rm{age}}$ $$ 0.1) [$α$/Fe] stars. As a function of vertical distance from the Galactic mid-plane ($|Z|$), the age distribution shows a transition from a young to old stellar population with increasing $|Z|$ for the K2 fields. Further coverage of campaign targets with high resolution spectroscopy is required to increase the yield of precise ages achievable with asteroseismology.
description: 17 pages, 16 figures. Accepted to MNRAS 01/08/2019. Updated manuscript
Third kind elliptic integrals and 1-motives
Creators: name: Bertolin, Cristiana
Publisher: name: arXiv
Year: 2019
Subjects: subject: Number Theory (math.NT)
subject: Algebraic Geometry (math.AG)
subject: FOS: Mathematics

description: In our PH.D. thesis we have showed that the Generalized Grothendieck's Conjecture of Periods applied to 1-motives, whose underlying semi-abelian variety is a product of elliptic curves and of tori, is equivalent to a transcendental conjecture involving elliptic integrals of the first and second kind, and logarithms of complex numbers. In this paper we investigate the Generalized Grothendieck's Conjecture of Periods in the case of 1-motives whose underlying semi-abelian variety is a non trivial extension of a product of elliptic curves by a torus. This will imply the introduction of elliptic integrals of the third kind for the computation of the period matrix of M and therefore the Generalized Grothendieck's Conjecture of Periods applied to M will be equivalent to a transcendental conjecture involving elliptic integrals of the first, second and third kind.
description: paper with an appendix of Michel Waldschmidt and a letter of Yves Andr\'e
Supplemental Material_DECREASE study.docx
Creators: name: van Ruiten, Charlotte
name: Veltman, Dick J.
name: Schrantee, Anouk
name: Bloemendaal, Liselotte van
name: Barkhof, Frederik
name: Kramer, Mark H.H.
name: nieuwdorp, max
name: G. IJzerman, Richard
Publisher: name: figshare
Year: 2022
Subjects: classificationCode: 320903
subject: Central nervous system
classificationCode: 320208
subject: Endocrinology

description: Supplemental Data
Effects
of dapagliflozin and combination therapy with exenatide on food-cue induced
brain activation in patients with type 2 diabetes: a randomized controlled
trial
Neutrino Factories: Physics Potential
Creators: name: Geer, S.
Publisher: name: arXiv
Year: 2002
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The physics potential of low-performance and high-performance neutrino factories is briefly reviewed..
description: Talk presented at NUFACT02, London, 1-6 July, 2002. 8 pages, 5 figures
Scopesus rufonotatus var. masculinus KISS 1929
Creators: name: Horstmann, K.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Ichneumonidae
Scopesus
Scopesus rufonotatus
Scopesus rufonotatus (holmgren) var. masculinus kiss 1929

description: Scopesus rufonotatus (HOLMGREN) var. masculinus KISS 1929
 Scopesus rufonotatus (HOLMGREN) var. masculinus KISS 1929: 141 – Holotypus (): "Sz. Kézd Silbernagel" (= Szászkézd = Keisd = Saschiz/ Rumänien) und Determinationsetikett, Budapest.
 Gültiger Name: Synodites masculinus (KISS 1929) (comb.nov., stat.nov.). Die Art ist S. notatus (GRAVENHORST) ähnlich. Die unterscheiden sich durch folgende Merkmale:
 S. masculinus: Postpetiolus caudal und zweites Gastertergit gekörnelt, matt oder mit Seidenglanz, dazu sehr fein zerstreut punktiert; Gesichsorbiten ventral und eine strichförmige Fortsetzung zum Wangenraum gelb (mit Verbindung zum gelben Clypeus); kleiner Fleck auf den Wangen gelb; Scapus ventral-apical deutlich gelb.
 S. notatus: Postpetiolus caudal und zweites Gastertergit mit fast oder ganz glattem Grund, deutlich glänzend, dazu sehr fein zerstreut punktiert; am Kopf nur Clypeus apical zu 0,7 gelb; Scapus ventral schwarz oder bräunlich überlaufen.
description: Published as part of Horstmann, K., 2007, Typenrevisionen der von Kiss beschriebenen Taxa der Ctenopelmatinae (Hymenoptera, Ichneumonidae), pp. 313-322 in Linzer biologische Beiträge 39 (1) on page 319, DOI: 10.5281/zenodo.5408607
Finite temperature optoelectronic properties of BAs from first principles
Creators: name: Bravić, Ivona
name: Monserrat, Bartomeu
Publisher: name: arXiv
Year: 2019
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: The high thermal conductivity of boron arsenide (BAs) makes it a promising material for optoelectronic applications in which thermal management is central. In this work, we study the finite temperature optoelectronic properties of BAs by considering both electron-phonon coupling and thermal expansion. The inclusion of electron-phonon coupling proves imperative to capture the temperature dependence of the optoelectronic properties of the material, while thermal expansion makes a negligible contribution due to the highly covalent bonding character of BAs. We predict that with increasing temperature the optical absorption onset is subject to a red shift, the absorption peaks become smoother, and the phonon-assisted absorption at energies below those of the optical gap has a coefficient that lies in the range $10^{-3}$ to $10^{-4}$ cm$^{-1}$. We also show that good agreement with the measured indirect band gap of BAs is only obtained if exact exchange, electron-phonon coupling, and spin-orbit coupling effects are all included in the calculations.
description: 9 pages, 5 figures