gebhart/patrepeval huggingface dataset:
Modeling of the Ebola Virus Delta Peptide Reveals a Potential Lytic Sequence Motif (2015)

Filoviruses, such as Ebola and Marburg viruses, cause severe outbreaks of human infection, including the extensive epidemic of Ebola virus disease (EVD) in West Africa in 2014. In the course of examining mutations in the glycoprotein gene associated with 2014 Ebola virus (EBOV) sequences, a differential level of conservation was noted between the soluble form of glycoprotein (sGP) and the full length glycoprotein (GP), which are both encoded by the GP gene via RNA editing. In the region of the proteins encoded after the RNA editing site sGP was more conserved than the overlapping region of GP when compared to a distant outlier species, Tai Forest ebolavirus. Half of the amino acids comprising the "delta peptide", a 40 amino acid carboxy-terminal fragment of sGP, were identical between otherwise widely divergent species. A lysine-rich amphipathic peptide motif was noted at the carboxyl terminus of delta peptide with high structural relatedness to the cytolytic peptide of the non-structural protein 4 (NSP4) of rotavirus. EBOV delta peptide is a candidate viroporin, a cationic pore-forming peptide, and may contribute to EBOV pathogenesis.
Radar Distance Measurements in Over-sized Circular Waveguides (2006)

One of the main tasks of industrial radar systems is the determination of distances to a reflecting object. An important application is the measurement in metal tubes e.g. by means of the FMCW method. A comparison of measurements in metal tubes and in free-space shows that several problems arise due to the non-perfect coupling between the feeding antenna and the metal tube. This contribution describes the problems caused by dispersions and multi-mode propagations, and presents approaches for their solution
Data Linkage for Optimizing Rectal Cancer Care in Alberta (2018)

IntroductionDespite good overall care in Alberta Health Services the local recurrence rates are higher than what is accepted as standard of care for rectal cancer treatment. There are variations in pre-operative staging, application of best surgical techniques and pathological grading, use of neoadjuvant and adjuvant therapies, and in clinical reporting.&#x0D; Objectives and ApproachWe aimed at reducing the variations through the design and implementation of a provincial clinical pathway for rectal cancer by 2018. Our approaches included: 1) multidisciplinary tumor board consultation together with physician education sessions in reviewing standards of care and quality metrics; 2) data linkage and analysis based on chart reviews and extraction of data from Alberta Cancer Registry; and 3) production of provincial reports and individual feedbacks to physicians. CancerControl Alberta and Cancer Strategic Clinical Network collaborated in the linkage and analysis of data as well as mobilization oncology physicians to the initiative.&#x0D; ResultsA review of a set of metrics for producing individual and provincial feedback reports to rectal cancer physicians. The set has 24 key quality metrics includes five, four, eight, and six metrics for radiologists, pathologists, oncologists, and surgeons respectively. Thirty-two surgeons have received individual physician feedback reports. Feedback reports for radiologist, pathologist and oncologist are being finalized with input from key opinion leaders in each physician group. Key impacts to the quality of rectal cancer diagnosis, treatment, and care between 2013 and 2015 include increases in use of rectal cancer pre-operative MRIs for curative resections (+23%), completeness of synoptic MRI reports for pre-operative MRIs (+21%), grade 3 TME of curative resections (+4%), and pathologic reporting of TME assessments (+2%).&#x0D; Conclusion/ImplicationsPhysician feedback report system will enable the Alberta rectal cancer community to sustain the results and address strategies to continuously enhance the quality of rectal cancer care and survival. We recommend ongoing annual dissemination of feedback reports to support continuous improvement of rectal cancer care.
Tyramine Derivatives as Potent Therapeutics for Type 2 Diabetes: Synthesis and In Vitro Inhibition of α-Glucosidase Enzyme (2020)

The current study gives the facile synthesis and identification of potent inhibitors of α- glucosidase. The new inhibitors reported here may be investigated further for the designing and development of novel anti-diabetic agents.
C/EBPα regulates macrophage activation and systemic metabolism (2014)

Macrophage infiltration plays an important role in obesity-induced insulin resistance. CCAAT enhancer-binding protein-α (C/EBPα) is a transcription factor that is highly expressed in macrophages. To examine the roles of C/EBPα in regulating macrophage functions and energy homeostasis, macrophage-specific C/EBPα knockout (MαKO) mice were created. Chow-fed MαKO mice exhibited higher body fat mass and decreased energy expenditure despite no change in food intake. However, the obese phenotype disappeared after high-fat (HF) diet feeding. Although there was a transient decrease in insulin sensitivity of chow-fed young MαKO mice, systemic insulin sensitivity was protected during HF-feeding due to preserved insulin sensitivity in skeletal muscle. We also found that C/EBPα-deficient macrophages exhibited a blunted response of cytokine-induced expression of M1 and M2 macrophage markers, suggesting that C/EBPα controls both M1 and M2 polarization. Consistent with decreased exercise capacity, mitochondrial respiration rates and signal pathways for fatty acid oxidation were remarkably reduced in the skeletal muscle of chow-fed MαKO mice. Furthermore, expression levels of inflammatory cytokines were reduced in skeletal muscle of HF-fed MαKO mice. Together, these results imply that C/EBPα is required for macrophage activation, which plays an important role in maintaining skeletal muscle energy metabolism.
Squalenoylation a new concept in drug targeting: evidence of a potent anti-cancer activity of squalenoyl-gemcitabine (2008)

5621 Nucleoside analogues display significant anticancer or antiviral activity by incorporating into DNA, leading to inhibition of its synthesis and apoptosis. However, their rapid metabolism and the resistance to treatment limit their use.  Gemcitabine (dFdC), a widely used nucleoside analogue for the treatment of solid tumours, belongs to this pharmacological class. Rapid plasmatic metabolism of dFdC into its inactive uracil derivative (dFdU) is one of its drawbacks. Different approaches have been attempted to decrease deamination of dFdC to dFdU. Recently, we have succeeded in coupling dFdC to an isoprenoid chain of squalene to obtain gemcitabine-squalene (SQ dFdC) (Couvreur et al. Nano Letters 2006, 6(11), 2544-2548). This new analogue has an amphiphilic character and is capable of spontaneously forming nanoassemblies of 150 nm in water.  Herein, pharmacokinetic profiles and biodistribution of SQdFdC nanoassemblies were compared to those of dFdC using a newly developed tandem mass spectrometry (LC-MS/MS) method (Khoury et al. J. Chrom. B. 2007, 858(1-2): 71-8). Squalenoylation improved pharmacokinetic profiles and protected dFdC from deamination. Interestingly, the cell influx mechanism of SQdFdC differs from that of dFdC. Indeed, unlike dFdC, SQdFdC follows a nucleoside transporters independent mechanism.  In addition, the therapeutic activity of SQdFdC nanoassemblies was studied in vitro and in vivo on tumour bearing mice after i.v. and oral administration. Squalenoyl gemcitabine (SQdFdC) was more potent than gemcitabine (dFdC) itself in vitro and in vivo against different types of murine and human cancers, including resistant cancers.  This new formulation of this prodrug might be a promising potential for oral administration of dFdC.
A New Approach toward the Realization of Specific and Label‐Free Biological Sensing Based on Field‐Effect Devices (2022)

Abstract Specific and label‐free detection of biological interactions is paramount to a plethora of technological applications ranging from home‐care diagnostics to smart agriculture and home security. The biologically‐modified field‐effect transistor (BioFET) is a promising sensing platform due to its inherent signal amplification, low power, and miniaturization. In the following a low‐cost meta‐nano‐channel BioFET (MNC BioFET) is reported that provides means to electrostatically control the size, shape, and location of the conducting channel such as to enhance the coupling between the locally‐occurring electrostatics of the biological interactions and the electrodynamics of the underlying conducting channel. Moreover, it provides means to electrostatically control the Debye screening length at the sensing area to increase the readout signal. The MNC BioFET is fabricated in a large‐scale silicon chip foundry that ensures robustness and stability, optimal noise levels and signal amplification, repeatability, and ultimate miniaturization with the potential for high‐end multiplexing in ultra‐small samples. In the current study, a specific and label‐free sensing of prostate specific antigen with the MNC BioFET is demonstrated, and show the dependency of the sensor signal on the channel configuration. Finally, an order of magnitude enhancement in readout signal is demonstrated by the electrostatic control of the screening length at the sensing area.
Investigation on Transmit Diversity for Synchronization Channel in OFDM Based Evolved UTRA Downlink (2008)

Tins paper presents the most appropriate transmit diversity scheme for the synchronization channel (SCH) employing the latest radio interface for the SCH structure and sequences based on system-level simulations in the evolved UTRA downlink. The transmit diversity candidates assumed in the paper are preceding vector switching (PVS), time switched transmit diversity (TSTD), cyclic delay diversity (CDD), and frequency switched transmit diversity (FSTD) based on the features of the SCH. Simulation results show that transmit diversity is effective in increasing detection probabilities of SCH timing detection in the first step and the cell ID group-specific SCH sequence in the second step of the cell search process. Moreover, we clarify that PVS is the best transmit diversity scheme for the SCH based on the reduction in the cell search time. We show that PVS achieves fast cell search in less than approximately 20 msec at the location probability of 90% regardless of the inter-site distance up to 10 km.
Evaluation of neural activity by magnetospinography with 3D sensors (2020)

MSG enables noninvasive assessment of neural activity in the spinal canal using currents at depolarization sites reconstructed from LCEFs.
Synthesis of Highly Functionalized Polycyclic Quinoxaline Derivatives Using Visible‐Light Photoredox Catalysis (2014)

Abstract A mild and facile method for preparing highly functionalized pyrrolo[1,2‐a]quinoxalines and other nitrogen‐rich heterocycles, each containing a quinoxaline core or an analogue thereof, has been developed. The novel method features a visible‐light‐induced decarboxylative radical coupling of ortho‐substituted arylisocyanides and radicals generated from phenyliodine(III) dicarboxylate reagents and exhibits excellent functional group compatibility. A wide range of quinoxaline heterocycles have been prepared. Finally, a telescoped preparation of these polycyclic compounds by integration of the in‐line isocyanide formation and photochemical cyclization has been established in a three‐step continuous‐flow system.
Ductile and brittle transition behavior of titanium alloys in ultra-precision machining (2018)

Titanium alloys are extensively applied in biomedical industries due to their excellent material properties. However, they are recognized as difficult to cut materials due to their low thermal conductivity, which induces a complexity to their deformation mechanisms and restricts precise productions. This paper presents a new observation about the removal regime of titanium alloys. The experimental results, including the chip formation, thrust force signal and surface profile, showed that there was a critical cutting distance to achieve better surface integrity of machined surface. The machined areas with better surface roughness were located before the clear transition point, defining as the ductile to brittle transition. The machined area at the brittle region displayed the fracture deformation which showed cracks on the surface edge. The relationship between depth of cut and the ductile to brittle transaction behavior of titanium alloys in ultra-precision machining(UPM) was also revealed in this study, it showed that the ductile to brittle transaction behavior of titanium alloys occurred mainly at relatively small depth of cut. The study firstly defines the ductile to brittle transition behavior of titanium alloys in UPM, contributing the information of ductile machining as an optimal machining condition for precise productions of titanium alloys.
General route to anionic (.eta.4-diene)manganese tricarbonyl complexes. Reactions with electrophiles (1987)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTGeneral route to anionic (.eta.4-diene)manganese tricarbonyl complexes. Reactions with electrophilesMaurice. Brookhart, Seok K. Noh, and Francis J. TimmersCite this: Organometallics 1987, 6, 8, 1829–1831Publication Date (Print):August 1, 1987Publication History Published online1 May 2002Published inissue 1 August 1987https://doi.org/10.1021/om00151a043RIGHTS & PERMISSIONSArticle Views94Altmetric-Citations12LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (402 KB) Get e-AlertsSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Acoustic impedance-based manipulation of elastic microspheres using travelling surface acoustic waves (2017)

Size-independent separation of particles is performed using difference in acoustic impedances <italic>via</italic> travelling surface acoustic waves.
Optimizing and validating an electromagnetic tracker in a human performance laboratory (2011)

Measurement errors have previously been observed using electromagnetic motion trackers in applied laboratories. The aims of this study were to optimize the layout of a human performance laboratory for assessing ergometer rowing technique, and to assess the precision and repeatability of measured rotations and trajectories using the Flock of Birds electromagnetic tracker. Four experiments investigated system performance over a large experimental volume: optimization of laboratory space, repeatability of laboratory layout, precision of measured rotations, and repeatability of measured displacements. Measurement accuracy was influenced by varying the global position of the system transmitter; results suggested a correlation with increasing distance between the electromagnetic source and equivalent sensors. Bringing the transmitter or sensors into closer proximity of metallic items may be another source of measurement error. An optimal location for the transmitter was identified, into which the transmitter was repositioned with good repeatability. Measurements were not negativelyaffected by the presence of a rowing ergometer in the experimental volume. Induced sensor rotations were reconstructed with high precision, and the system calculated small changes in sensor displacement with good repeatability. The system is a suitable technology for measuring the trajectory and rotation of moving body segments in applied human movement laboratories.
Quadtree and R-tree indexes in oracle spatial (2002)

Spatial indexing has been one of the active focus areas in recent database research. Several variants of Quadtree and R-tree indexes have been proposed in database literature. In this paper, we first describe briefly our implementation of Quadtree and R-tree index structures and related optimizations in Oracle Spatial. We then examine the relative merits of two structures as implemented in Oracle Spatial and compare their performance for different types of queries and other operations. Finally, we summarize experiences with these different structures in indexing large GIS datasets in Oracle Spatial.
Halogen-Bond Mediated [2+2] Photodimerizations: À la Carte Access to Unsymmetrical Cyclobutanes in the Solid State (2022)

The ditopic halogen-bond (X-bond) donors 1,2-, 1,3-, and 1,4-diiodotetrafluorobenzene (<b>1,2-</b>, <b>1,3-</b>, and <b>1,4-di-I-tFb</b>, respectively) form binary cocrystals with the unsymmetrical ditopic X-bond acceptor <i>trans</i>-1-(2-pyridyl)-2-(4-pyridyl)ethylene (<b>2,4-bpe</b>). The components of each cocrystal (<b>1,2-di-I-tFb</b>)·(<b>2,4-bpe</b>), (<b>1,3-di-I-tFb</b>)·(<b>2,4-bpe</b>), and (<b>1,4-di-I-tFb</b>)·(<b>2,4-bpe</b>) assemble via N···I X-bonds. For (<b>1,2-di-I-tFb</b>)·(<b>2,4-bpe</b>) and (<b>1,3-di-I-tFb</b>)·(<b>2,4-bpe</b>), the X-bond donor supports the C=C bonds of <b>2,4-bpe</b> to undergo a topochemical [2+2] photodimerization in the solid state: UV-irradiation of each solid resulted in stereospecific, regiospecific, and quantitative photodimerization of <b>2,4-bpe</b> to the corresponding head-to-tail (<i>ht</i>) or head-to-head (<i>hh</i>) cyclobutane photoproduct, respectively.
Genomic Heterogeneity and Exceptional Response to Dual Pathway Inhibition in Anaplastic Thyroid Cancer (2016)

<b>Purpose:</b> Cancers may resist single-agent targeted therapies when the flux of cellular growth signals is shifted from one pathway to another. Blockade of multiple pathways may be necessary for effective inhibition of tumor growth. We document a case in which a patient with anaplastic thyroid carcinoma (ATC) failed to respond to either mTOR/PI3K or combined RAF/MEK inhibition but experienced a dramatic response when both drug regimens were combined.<b>Experimental Design:</b> Multi-region whole-exome sequencing of five diagnostic and four autopsy tumor biopsies was performed. Meta-analysis of DNA and RNA sequencing studies of ATC was performed.<b>Results:</b> Sequencing revealed truncal BRAF and PIK3CA mutations, which are known to activate the MAPK and PI3K/AKT pathways, respectively. Meta-analysis demonstrated 10.3% cooccurrence of MAPK and PI3K pathway alterations in ATC. These tumors display a separate transcriptional profile from other ATCs, consistent with a novel subgroup of ATC.<b>Conclusions:</b> BRAF and PIK3CA mutations define a distinct subset of ATC. Blockade of the MAPK and PI3K pathways appears necessary for tumor response in this subset of ATC. This identification of synergistic activity between targeted agents may inform clinical trial design in ATC. <i>Clin Cancer Res; 23(9); 2367-73. ©2016 AACR</i>.
Upregulation of Angiotensin-Converting Enzyme During the Healing Process After Injury at the Site of Percutaneous Transluminal Coronary Angioplasty in Humans (1997)

These results show that PTCA injury in humans results in upregulation of ACE at sites of active repair and, therefore, ACE could play an important role as one of the mediators of the healing process after PTCA.
Supplementary Figure 1 from Skin-Test Infiltrating Lymphocytes Early Predict Clinical Outcome of Dendritic Cell–Based Vaccination in Metastatic Melanoma (2023)

&lt;p&gt;PDF file - 34K, Schedule of treatment and monitoring:Patients received 3 vaccinations a biweekly interval, followed a delayed type hypersensitivity (DTH) skin test. After completing one cycle and if no progression of disease was confirmed on CT-scan, patients were eligible to receive a maximum of two more cycles and were followed up to 5 years. Abbreviations: Vx = visit x; M = month, D = day, W = week, Y = year, vacx = vaccination x; FU = follow-up; * follow-up visits were planned every 3 months; # CT-scans were planned every 6 months&lt;/p&gt;
Multi-Functional Textile Coatings Based on Polymeric Mate (2015)

Waterborne-polyurethane dispersions, consisting of polyol and polyisocyanates building blocks are conventional finish materials for various applications in textile industry, particularly in denim industry. This study aims to prepare a multifunctional polyol block, which is compatible with commercially available polyisocyanates, for polyurethane formation. Therefore, well-defined polymers having both hydroxyl and tertiary amine functions prepared via controlled radical polymerization technique namely atom transfer radical polymerization (ATRP). Hydroxyl functions are considered as cross-linking domains with polyisocyanate to form polyurethane and tertiary amine moieties are considered as quaternarization domains with different length of alkyl-bromides. 1H-NMR and Dynamic light scattering (DLS) techniques are used for structural characterization and thermal stability evaluation of synthesized polymers respectively. Those synthesized materials are primarily used for surface modification of cellulosic fabrics to achieve wash-fast antimicrobial coatings. Dyeing studies with indigo dyestuff is conducted with both polymer treated and non-treated fabrics. Dyeing studies showed dye-uptake capabilities of polymer coated samples are found to be higher than non-treated fabrics. Datacolor spectrophotometer SF 600 Plus is used to evaluate color measurements.
Assessing Fuel Economy From Automated Driving: Influence of Preview and Velocity Constraints (2016)

Constrained optimization control techniques with preview are designed in this paper to derive optimal velocity trajectories in longitudinal vehicle following mode, while ensuring that the gap from the lead vehicle is both safe and short enough to prevent cut-ins from other lanes. The lead vehicle associated with the Federal Test Procedures (FTP) [1] is used as an example of the achieved benefits with such controlled velocity trajectories of the following vehicle. Fuel Consumption (FC) is indirectly minimized by minimizing the accelerations and decelerations as the autonomous vehicle follows the hypothetical lead. Implementing the cost function in offline Dynamic Programming (DP) with full drive cycle preview showed up to a 17% increase in Fuel Economy (FE). Real time implementation with Model Predictive Control (MPC) showed improvements in FE, proportional to the prediction horizon. Specifically, 20s preview MPC was able to match the DP results. A minimum of 1.5s preview of the lead vehicle velocity with velocity tracking of the lead was required to obtain an increase in FE. The optimal velocity trajectory found from these algorithms exceeded the presently allowable error from standard drive cycles for FC testing. However, the trajectory was still safe and acceptable from the perspective of traffic flow. Based on our results, regulators need to consider relaxing the constant velocity error margins around the standard velocity trajectories dictated by the FTP to encourage FE increase in autonomous driving.