gebhart/patrepeval huggingface dataset:
Molecular characterization of CHAD domains as inorganic polyphosphate binding modules (2019)

Abstract Inorganic polyphosphates (polyPs) are long polymers of orthophosphate units (P i ), linked by energy-rich phosphoanhydride bonds. Conserved histidine α-helical (CHAD) domains of unknown biochemical function are often located at the C-terminus of polyP-metabolizing triphosphate tunnel metalloenzymes (TTMs), or can be found as stand-alone proteins in bacterial operons harboring polyP kinases or phosphatases. Here we report that bacterial, archaeal and eukaryotic CHAD domains are specific polyP binding modules. Crystal structures reveal that CHAD domains are formed by two four-helix bundles, giving rise to a central cavity surrounded by two conserved basic surface patches. Different CHAD domains bind polyPs with dissociation constants ranging from the nano-to mid-micromolar range, but not DNA or other P i -containing ligands. A 2.1 Å CHAD - polyP complex structure reveals the phosphate polymer binding across a central pore and along the two basic patches. Mutational analysis of CHAD – polyP interface residues validates the complex structure and reveals that CHAD domains evolved to bind long-chain polyPs. The presence of a CHAD domain in the polyPase ygiF enhances its enzymatic activity. In plants, CHAD domains bind polyP in vivo and localize to the nucleus and nucleolus, suggesting that plants harbor polyP stores in these compartments. We propose that CHAD domains may be used to engineer the properties of polyP-metabolizing enzymes and to specifically localize polyP stores in eukaryotic cells and tissues. Significance A domain of unknown function termed CHAD, present in all kingdoms of life, is characterized as a specific inorganic polyphosphate binding domain. The small size of the domain and its high specificity for inorganic polyphosphates suggest that it could be used as a tool to locate inorganic polyphosphate stores in pro- and eukaryotic cells and tissues.
Photocatalytic Properties and Photoinduced Hydrophilicity of Surface‐Fluorinated TiO2. (2007)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract, please click on HTML or PDF.
Transesterification/Acylation of Secondary Alcohols Mediated by N-Heterocyclic Carbene Catalysts (2003)

N-Heterocyclic carbenes (NHC) are efficient catalysts for transesterification/acylation reactions involving secondary alcohols. The catalytic transformations are carried out employing low catalyst loadings in convenient reaction times at room temperature.
Atividade física na infância e adolescência: impacto na saúde pública (2003)

Objetivo: Esta revisão visa informar aos pediatras e demais profissionais de saúde os&#13;\nestudos mais recentes abordando a importância da atividade física entre crianças e adolescentes e seu impacto sobre a saúde individual e coletiva.Metodologia A pesquisa bibliográfica foi realizada nas bases de dados Medline, de 1966 a 2001, e Lilacs, de 1979 a 2001, em português, espanhol e inglês, utilizando-se as palavras-chave: atividade física, exercício, crianças e adolescentes.&#13;\nResultados: A promoção de estilo de vida ativo durante a infância e adolescência tem forte influência no padrão de crescimento e desenvolvimento. Além dos benefícios&#13;\npara a saúde, oferece oportunidade de lazer, socialização e desenvolvimento de aptidões, propiciando melhor auto-estima e confiança.&#13;\nConclusão: A obesidade e o sedentarismo representam um real problema de saúde pública. Existe uma demanda urgente por programas eficazes, com o objetivo de promover estilos de vida mais ativos. Para a criança e o adolescente, a escola é o lugar mais promissor onde podem ser aplicadas práticas de promoção de atividade física. ___________________________________________________________________________________________________________________ ABSTRACT
Supplementary Figure 1 from <i>Seizure 6-Like</i> (<i>SEZ6L</i>) Gene and Risk for Lung Cancer (2023)

Supplementary Figure 1 from &lt;i&gt;Seizure 6-Like&lt;/i&gt; (&lt;i&gt;SEZ6L&lt;/i&gt;) Gene and Risk for Lung Cancer
Na+‐channel antagonists act as electron donors while agonists act as electron acceptors in reactions with dye free radicals (1985)

The reactions of Na + ‐channel antagonists and agonists with dye free radicals were studied by the methods of pulse and continuous absorption spectroscopy. All Na + antagonists tested except tetrodotoxin act as electron donors while agonists act as electron acceptors in the reactions with photogenerated dye free radicals. Qualitative correlation between electron donor activity of the Na + ‐channel blockers and their electrophysiological potency was observed. The relation of discovered regularity to the Na + channel operating was discussed.
Supplementary Table 1 from Allelic Transcripts Dosage Effect in Morphologically Normal Ovarian Cells from Heterozygous Carriers of a <i>BRCA1</i>/<i>2</i> French Canadian Founder Mutation (2023)

&lt;p&gt;PDF file - 65K, Summary of significant Limma Analysis Result for each of the candidate genes and contrast tested&lt;/p&gt;
Exposure to Lymphocytic Choriomeningitis Virus, New York, USA (2011)

In conclusion, this study suggests that natural disasters, such as typhoons, that engender large amounts of rainfall could result in epidemics of leptospirosis and melioidosis. More in-depth studies need to be conducted. Efforts need to be taken in advance to prevent possible transmission of these infectious diseases after typhoons.
Haemopoietic reconstitution by donor-derived myelodysplastic progenitor cells after haemopoietic stem cell transplantation (1999)

A 50-year-old woman who was retrospectively diagnosed with an early asymptomatic myelodysplastic syndrome (MDS) served as a haemopoietic stem cell donor for her HLA-identical sister who had chemotherapy-refractory non-Hodgkin's lymphoma. The MDS of the donor was classified as refractory anaemia (RA) and cytogenetically characterized by deletion of the long arm of chromosome 20 [del(20q)]. Donor cell engraftment in marrow and peripheral blood was analysed over a period of 5 months after transplant using conventional cytogenetics, fluorescence in situ hybridization, and variable number of tandem repeats. Neutrophil counts >0.5 × 109/l and platelet counts >20 × 109/l were reached promptly on days 12 and 24, respectively. Throughout the period of observation the percentage of cells with the del(20q) abnormality in the recipient's marrow and peripheral blood was comparable to the proportion of these cells in the donor. These data indicate that the abnormal clone was capable of homing to the marrow, proliferating, differentiating, and therefore contributing to haemopoiesis in a relatively efficient manner. This implies that MDS progenitor cells may not have homing and growth deficiencies, a finding that has particular relevance for autologous transplantation in MDS patients where tumour cells potentially contaminate the graft.
Single mode lasing in a gain-guided index anti-guided diode end pumped fiber (2008)

Single mode oscillation in a 200 mum core diameter gain guided index anti-guided fiber laser is demonstrated. Single mode oscillation is maintained for pumping of up to four times laser threshold, limited by available pump power.
The Critical Roles of Geomechanical Modeling During Exploration Phase (2022)

Abstract Geomechanics has become an essential part of the petroleum industry's daily routine due to the increase in operational challenges when dealing with deep, tight, unconventional, and subsalt reservoirs, in addition to depleted zones and multilateral drilling in the direction of minimum stress. This research aims to provide innovative integrated geomechanical solutions during the exploration phase and investigate the relationship between in-situ stress, fractures, faults distributions, and fluid flow to correlate fracture variations to lithology changes. This integrated approach will incorporate all available field data, including seismic velocities, petrophysical well logs, geological, and structural models that will be used to construct 3D geomechanical static models to assess and characterize the reservoir properties, such as reservoir quality index (RQI), sweet spot, reservoir compartmentalizations, pore pressure, in-situ stress regime, and presence of faults and fractures. The fracture properties and dynamic simulation will be conducted by studying the fracture properties from the core sample, image log interpretation, and fluid flow using Finite Element models The results from this study will be used as a guideline during the field exploration phase to set the field development strategies and answer the question such as: How stress field variations will impact petroleum systems, fault seal integrity assessment, reservoir mapping, and heterogeneity, in-situ stress vertical and lateral variations and their impact on well placement and well spacing, and what types of geomechanical modeling that can be used to accurately drill a save and cost-effective wellbore to meet completion and stimulation requirements that maximize hydrocarbon production. The studies showed that implementing this workflow has a huge business impact on reservoir developments by saving millions of dollars and minimized nonproductive time during planning and field development. This workflow is special in a way that it will be calibrated and updated when acquiring new data at the exploration stage and througout the well life to yield better results.
Interferometry Deconvolution by Virtual Reflector (VR) - A Comparison of Approaches (2012)

In this work we present the virtual-signal deconvolution by virtual reflector (VR). We extend the concept of multidimensional deconvolution (MDD) of seismic interferometry by crosscorrelation (SI) to the case of virtual reflector representation, which is expressed using interferometry by crossconvolution. The interferometry virtual-reflector MDD approach, similar to that of seismic interferometry by crosscorrelation, is used to obtain deconvolved outcoming wavefields. We show examples where we compare different interferometry deconvolution approaches with borehole signals, including seismic interferometry by crosscorrelation and by crossconvolution. A difference for the virtual reflector application with respect to the equivalent crosscorrelation one is in the phase stability with different spatial operators. The method can be considered as an alternative or additional solution, and used for joint inversion purposes in the presence of noise.
Effect of Water Structure on Gelation of Agar in Glycerol Solutions and Phase Diagram of Agar Organogels (2012)

A comprehensive study of hydration of polyanionic agar molecules in its solution and gel phase in glycerol-water binary solvent is reported. Raman spectroscopy results predict differential water structure arrangement for glycerol-water binary solvent, 0.02% (w/v) agar in glycerol solution and 0.3% (w/v) agar organogel. The 3200 cm(-1) Raman band pertaining to ice-like structure of water was found to increase in gel phase alike in glycerol-water solvent while it decreased in agar solutions with increase in glycerol concentration. In contrast, the partially structured water corresponding to the component 3310 cm(-1) of Raman spectra increased in agar solution, and decreased in gel phase similar to glycerol-water solvent case. We have explained these observations based on a simple model where the available oxygen to hydrogen atom ratio in a given solvent-polymer system uniquely defines hydration in solution and gel phases. The gelation concentration was found to increase from 0.18 (for water) to 0.22% (w/v) (50% v/v glycerol solution) as the glycerol concentration was raised. Correspondingly, the gelation temperature, T(g), showed a decline from 40 to 20 °C, and the gel melting temperature, T(m), revealed a reduction from 81 to 65 °C in the same glycerol concentration regime. Two distinctive features are evident here: (i) presence of glycerol as a cosolvent does not favor the gelation of agar as compared to water and (ii) agar organogels are softer than their hydrogels. A unique 3D phase diagram for the agar organogel is proposed. Circular dichroism data confirmed that the agar molecules retained their biological activity in these solvents. Thus, it is shown that thermo-mechanical properties of these organogels could be systematically tuned and adapted as per application requirement.
Modeling retinal degenerative diseases with human iPS-derived cells: current status and future implications (2013)

Over the past two decades, advancing techniques for genetic analysis and concerted efforts by scientists and clinicians have led to the identification of a remarkable number of genes involved in re...
Cytidine Deaminase Genetic Variants Influence RNA Expression and Cytarabine Cytotoxicity in Acute Myeloid Leukemia (2012)

CDA genetic variants explain the variation in RNA expression and may be candidates for individualizing Ara-C therapy.
Pure Silica Zeolite Films Prepared by a Vapor Phase Transport Method (2008)

Pure silica zeolite films were prepared by a vapor-phase transport method using ethylenediamine (EDA), triethylamine (Et3N), and water as vapor sources. The optimum mixture ratio of EDA:Et3N:H2O was 1:2:1 for forming randomly oriented ZSM-48 zeolite crystals. Compared with samples formed by the sol–gel technique and spin-coating method, the vapor-phase transport method can suppress isolated Si–OH bonds and film shrinkage. Dielectric constant decreased with increasing vapor-phase transport time, and leakage current decreased to an order of 10-8 A/cm2.
Disruption of Ergosterol Biosynthesis Confers Resistance to Amphotericin B inCandida lusitaniae (2003)

Candida lusitaniae is an emerging human pathogen that, unlike other fungal pathogens, frequently develops resistance to the commonly used antifungal agent amphotericin B. Amphotericin B is a member of the polyene class of antifungal drugs, which impair fungal cell membrane integrity. Here we analyzed mechanisms contributing to amphotericin B resistance in C. lusitaniae. Sensitivity to polyenes in the related fungi Saccharomyces cerevisiae and Candida albicans requires the ergosterol biosynthetic gene ERG6. In an effort to understand the mechanisms contributing to amphotericin B resistance in C. lusitaniae, we isolated the ERG6 gene and created a C. lusitaniae erg6 delta strain. This mutant strain exhibited a growth defect, was resistant to amphotericin B, and was hypersensitive to other sterol inhibitors. Based on the similarities between the phenotypes of the erg6 delta mutant and clinical isolates of C. lusitaniae resistant to amphotericin B, we analyzed ERG6 expression levels and ergosterol content in multiple clinical isolates. C. lusitaniae amphotericin B-resistant isolates were found to have increased levels of ERG6 transcript as well as reduced ergosterol content. These changes suggest that another gene in the ergosterol biosynthetic pathway could be mutated or misregulated. Further transcript analysis showed that expression of the ERG3 gene, which encodes C-5 sterol desaturase, was reduced in two amphotericin B-resistant isolates. Our findings reveal that mutation or altered expression of ergosterol biosynthetic genes can result in resistance to amphotericin B in C. lusitaniae.
HoneyIM: Fast Detection and Suppression of Instant Messaging Malware in Enterprise-Like Networks (2007)

Instant messaging (IM) has been one of most frequently used malware attack vectors due to its popularity. Distinct from other malware, it is straightforward for IM malware to find and hit the next victim by exploiting the current victim's contact list and playing social engineering tricks. Thus, the spread of IM malware is much harder to detect and suppress through conventional approaches. The previous solutions are ineffective to defend against IM malware in an enterprise-like network environment, mainly because of high false positive rate and the requirement of the IM server being inside the protected network. In this paper, we propose a novel IM malware detection and suppression mechanism, HoneyIM, which guarantees almost zero false positive on detecting and blocking IM malware in an enterprise-like network. The detection of HoneyIM is based on the concept of honeypot. HoneyIM uses decoy accounts to trap IM malware by leveraging malware spreading characteristics. Fed with accurate detection results, the suppression of HoneyIM can conduct a network-wide blocking. In addition, HoneyIM delivers attack information to network administrators in real-time so that system quarantine and recovery can be quickly performed. The core design of HoneyIM is generic, and can be applied to the scenarios that either enterprise IM services or public IM services are used in the protected network. Based on open-source IM client Pidgin and client honeypot Capture, we build a prototype of HoneyIM and validate its efficacy through both simulations and real experiments. Our results show that HoneyIM provides effective protection against IM malware in enterprise-like networks.
A 6-DOFs Hardware-in-the-Loop System for Wind Tunnel Tests of Floating Offshore Wind Turbines (2019)

Abstract This article presents a hardware-in-the-loop (HIL) methodology developed at Politecnico di Milano (PoliMi) to perform wind tunnel tests on floating offshore wind turbines (FOWTs). The 6-DOFs HIL setup is presented, focusing on the main differences with respect to a previous 2-DOFs system. Aerodynamic, rotor and control related loads, physically reproduced by the wind turbine scale model, must be measured in real-time and integrated with the platform numerical model. These forces contribute to couple wind turbine and floating platform dynamics and their correct reproduction is of fundamental importance for the correct simulation of the floating system behavior. The procedure developed to extract rotor loads from the available measurements is presented, discussing its limitations and the possible uncertainties introduced in the results. Results from verification tests in no-wind conditions are presented and analyzed to identify the main uncertainty sources and quantify their effect on the reproduction of the floating wind turbine response to combined wind and waves.
Hydrophobic, Photoactive Titania–Alumina Nanocrystallites and Coatings by an Aqueous Sol–Gel Process (2011)

Abstract Hydrophobic coatings of titania–alumina nanocrystallites showing enhanced photocatalytic activity under sunlight were synthesized by an aqueous sol–gel route from titanyl sulfate. The influence of the addition of alumina in the range 5–30 mol‐% on the phase transition and grain growth of nanocrystalline titania was investigated. A titania–alumina composition containing 5 mol‐% Al 2 O 3 (TA‐5), annealed at 700 °C, showed the highest photocatalytic activity among all investigated compositions. While pure titania in the present study started to transform to rutile at 700 °C, all the titania–alumina compositions retained 100 % anatase phase up to 800 °C. The specific surface area was measured as 73 m 2 g –1 for the titania containing 5 mol‐% alumina annealed at 700 °C, whereas pure titania had 38 m 2 g –1 under identical conditions. By photon correlation spectroscopy, the particle size of pure titania sol was measured as 29 nm, while that of titania sol containing 5 mol‐% alumina was 43 nm. Nanocoatings applied over glazed ceramic surfaces indicated its hydrophobic character though the composition did not contain any hydrophobic material, which produces a high water contact angle. The uniformly roughened surface, preferably with nanostructured morphology that lowers the surfaceenergy, is proposed to be the reason for the observed hydrophobicity.
SUMO2014 - Modeling Mobility with Open Data (2014)

Dear reader,
You are holding in your hands a volume of the series „Reports of the DLR-Institute of Transportation Systems“. We are publishing in this series fascinating, scientific topics from the Institute of Transportation Systems of the German Aerospace Center (Deutsches Zentrum fur Luft- und Raumfahrt e.V. - DLR) and from his environment. We are providing libraries with a part of the circulation. Outstanding scientific contributions and dissertations are here published as well as projects reports and proceedings of conferences in our house with different contributors from science, economy and politics.
With this series we are pursuing the objective to enable a broad access to scientific works and results. We are using the series as well as to promote practically young researchers by the publication of the dissertation of our staff and external doctoral candidates, too. Publications are important milestones on the academic career path. With the series „Reports of the DLR-Institute of Transportation Systems / Berichte aus dem DLR-Institut fur Verkehrssystem¬technik“ we are widening the spectrum of possible publications with a bulding block. Beyond that we understand the communication of our scientific fields of research as a contribution to the national and international research landscape in the fiels of automotive, railway systems and traffic management. 
This volume contains the proceedings of the SUMO2014 – Modeling Mobility with Open Data, which was held from 15th to 16th May 2014 in Berlin-Adlershof, Germany. SUMO is a well established microscopic traffic simulation suite which has been available since 2002 and provides a wide range of traffic planning and simulation tools. The conference proceedings give a good overview of the applicability and usefulness of simulation tools like SUMO ranging from new methods in traffic control and vehicular communication to the simulation of complete cities. Another aspect of the tool suite, its universal extensibility due to the availability of the source code, is reflected in contributions covering parallelization and interfacing improvements to govern microscopic traffic simulation results.
The major topic of this second edition of the SUMO conference is open data. Several articles cover the acquisition and refinement of traffic networks as one of the fundamental data sources. Subsequent specialized issues such as data models for emissions and Bluetooth simulation are targeted as well. The conference’s aim was bringing together the large international user community and exchanging experience in using SUMO, while presenting results or solutions obtained using the software or modeling mobility with open data. Let you inspire to try your next project with the SUMO suite. There are many new applications in your environment.


Prof. Dr.-Ing. Karsten Lemmer
A model for the prediction of R-tree performance (1996)

In this paper we present an analytical model that predicts the performance of R-trees (and its variants) when a range query needs to be answered. The cost model uses knowledge of the dataset only, i.e., the proposed formula that estimates the number of disk accesses is a hmction of data properties, namely, the amount of data and their density in the work space. In other words, the proposed model is applicable even before the construction of the R-tree index, a fact that makes it a useful tool for dynamic spatial databases. Several experiments on synthetic and real datasets show that the proposed analytical model is very accurate, the relative error being usually around 10%-15%, for uniform and non-uniform distributions.