gebhart/patrepeval huggingface dataset:
Design of LiNbO~3 Optical Modulator with an Asymmetric Resonant Structure (2002)

SUMMARY LiNbO3 optical modulators for bancl-operation with a resonant modulating electrode are investigated in this paper. We propose an asymmetric resonant structure consisting of' two arms of modulating electrodes, where one arm is open-ended and the other arm is short-enbed. The voltage standingwave was enhanced by the resonance of the electrodes, so that effective optical modulation was achieved, while the length of the modulating electrode was much shorter than the conventional travelingwavetype electrodes. Tlre optical response at, 6.2GHz of a resonant. modulator designed by maximizing the normalized inducecl phase was 4.94 of the response at dc with a non-resonant modulator.
Enantioselective Siloxybutylation of Aldehydes and Ketones by Lewis Acid Mediated Ring Opening of Tetrahydrofuran with Lithiated Hydrazones (1993)

α-Siloxybutylated aldehydes and ketones 4 are synthesized in good overall yields and high enantiomeric purities (ee ≥ 95% ; 81%) by trialkylsilyl trifluoromethanesulfonate mediated ring opening of tetrahydrofuran with lithiated SAMP-/RAMP- or SADP-hydrazones.
Statistics and Informatics in Molecular Cancer Research (2009)

PREFACE 1. Association Studies 2. Methods for DNA Copy Number Derivations 3. Methods for Derivation of LOH and Allelic Copy Numbers Using SNP Arrays 4. Bioinformatics of gene expression and copy number data integration 5. Analysis of DNA Methylation in Cancer 6. Pathway Analysis: Pathway Signatures and Classification 7. Two Methods for Comparing Genomic Data Across Independent Studies in Cancer Research: Meta-analysis and Oncomine Concepts Map 8. Bioinformatic Approaches to the Analysis of Alternative Splicing Variants in Cancer Biology INDEX
Application of radial basis functions to shape description in a dual-element off-axis magnifier (2008)

We previously demonstrated that radial basis functions may be preferred as a descriptor of free-form shape for a single mirror magnifier when compared to other conventional descriptions such as polynomials [Opt. Express 16, 1583 (2008)]. A key contribution is the application of radial basis functions to describe and optimize the shape of a free-form mirror in a dual-element magnifier with the specific goal of optimizing the pupil size given a 20 degrees field of view. We demonstrate a 12 mm exit pupil, 20 degrees diagonal full field of view, 15.5 mm eye clearance, 1.5 arc min resolution catadioptric dual-element magnifier design operating across the photopic visual regime. A second contribution is the explanation of why it is possible to approximate any optical mirror shape using radial basis functions.
Recognizing and Discovering Human Actions from On-Body Sensor Data (2005)

We describe our initial efforts to learn high-level human behaviors from low-level gestures observed using on-body sensors. Such an activity discovery system could be used to index captured journals of a person's life automatically. In a medical context, an annotated journal could assist therapists in helping to describe and treat symptoms characteristic to behavioral syndromes such as autism. We review our current work on user-independent activity recognition from continuous data where we identify "interesting" user gestures through a combination of acceleration and audio sensors placed on the user's wrists and elbows. We examine an algorithm that can take advantage of such a sensor framework to automatically discover and label recurring behaviors, and we suggest future work where correlations of these low-level gestures may indicate higher-level activities
The thrombin receptor in human platelets is coupled to a GTP binding protein of the Gαq family (1995)

The thrombin receptor is a G protein-coupled receptor, but the G proteins functionally coupled to this receptor in human platelets are not yet definitively identified. Thrombin stimulation of platelets leads to phospholipase C-mediated increases in intracellular calcium, and previous studies have suggested that the thrombin receptor is coupled to members of the Gq family. We now demonstrate direct GTPase activation by thrombin receptor activation peptide (TRAP) in human platelet membranes, and specific inhibition of TRAP-activated GTPase by antibodies to Gq. These data demonstrate functional coupling of the thrombin receptor to a member of the Gq family.
PI 3-kinase and disease (2012)

Phosphoinositide 3-Kinase (PI3K) is a central enzyme in a signaling pathway that mediates cellular responses to growth factors. This enzyme phosphorylates the 3 position of phosphatidylinositol-4,5-bisphosphate to produce phosphatidylinositol-3,4,5-trisphosphate (PIP 3 ) at the plasma membrane. A number of signaling proteins, including the Ser/Thr protein kinases, AKT and PDK1, contain pleckstrin homology domains that bind specifically to PIP 3 . Thus, the generation of PIP 3 at the plasma membrane in response to activation of PI3K by growth factors results in the initiation of downstream Ser/Thr phosphorylation cascades that control a variety of cellular responses. The signaling pathway downstream of PI3K is highly conserved from worms and flies to humans and genetic analysis of the pathway has revealed a conserved role in regulating glucose metabolism and cell growth. Based on deletion of genes encoding the catalytic or regulatory subunits of PI3K in the mouse, PI3K mediates insulin dependent regulation of glucose metabolism, and defects in activation of this pathway result in insulin resistance. In contrast, mutational events that lead to hyperactivation of the PI3K pathway result in cancers. Activating mutations in PIK3CA, encoding the p110alpha catalytic subunit of PI3K or inactivating mutations in PTEN, a phosphoinositide 3-phosphatases that reverses the effects of PI3K, are among the most common events in solid tumors. We have generated mouse models in which a mutated form of the PIK3CA gene is expressed in a tissue specific and reversibly inducible manner. These mice develop cancers that are dependent on continuous expression of the mutant PIK3CA gene. The PIK3CA driven tumors are FDG-PET positive and turning off PI 3-Kinase with PI3K inhibitors that are in human clinical trials results in an acute decline in FDG-PET signal that precedes tumor shrinkage. These results suggest that the ability of PI3K to stimulate high rates of glucose uptake and metabolism may be critical for the survival of PIK3CA mutant tumors. The role of PI3K inhibitors for treating cancers in mouse models and in human trials will be discussed.
Privacy-Enhanced AKMA for Multi-Access Edge Computing Mobility (2022)

Multi-access edge computing (MEC) is an emerging technology of 5G that brings cloud computing benefits closer to the user. The current specifications of MEC describe the connectivity of mobile users and the MEC host, but they have issues with application-level security and privacy. We consider how to provide secure and privacy-preserving communication channels between a mobile user and a MEC application in the non-roaming case. It includes protocols for registration of the user to the main server of the MEC application, renewal of the shared key, and usage of the MEC application in the MEC host when the user is stationary or mobile. For these protocols, we designed a privacy-enhanced version of the 5G authentication and key management for applications (AKMA) service. We formally verified the current specification of AKMA using ProVerif and found a new spoofing attack as well as other security and privacy vulnerabilities. Then we propose a fix against the spoofing attack. The privacy-enhanced AKMA is designed considering these shortcomings. We formally verified the privacy-enhanced AKMA and adapted it to our solution.
Cobalt‐Mediated [2+2+2] Cycloaddition versus CH and NH Activation of Pyridones and Pyrazinones with Alkynes: An Experimental Study (2007)

Abstract The reactivity of a range of pyridone and pyrazinone derivatives towards alkynes in the presence of cyclopentadienylcobaltbis(ethene) has been investigated. Depending on the nature of the substrates, [2+2+2]‐ or [2+2] cycloaddition, CH, or NH activation may occur. In the case of pyridones, the first three predominated with N‐protected derivatives, whereas substrates containing NH bonds followed an NH activation pathway. The [2+2+2] cycloaddition of an N ‐butynylisoquinolone was applied successfully to the total synthesis of anhydrolycorinone. Pyrazinone substrates showed similar patterns of reactivity.
Absolute Quantification of Specific Proteins in Complex Mixtures Using Visible Isotope-Coded Affinity Tags (2004)

The identification of proteins in complex mixtures is most useful when quantitative information is also obtained. We describe a new type of protein tagging reagent called the visible isotope-coded affinity tag (VICAT) which allows the absolute amount of a target protein or proteins to be quantified in a complex biological sample such as a eukaryotic cell lysate. VICAT reagents tag thiol groups of cysteines or thioacetylated amino groups and introduce into the tryptic peptide a biotin affinity handle, a visible moiety for tracking the chromatographic location of the target peptide by a method other than mass spectrometry, a photocleavable linker for removing a portion of the tag, and an isotope tag for distinguishing sample and internal standard peptides. We demonstrate the use of VICAT reagents together with isoelectric focusing of peptides on an immobilized gel strip followed by combined micro-liquid chromatography/electrospray ionization mass spectrometry operating in selected reaction monitoring mode to determine the absolute abundance of a specific protein, human group V phospholipase A(2), in eukaryotic cell lysates. It is found that human lung macrophages contain 66 fmol of this protein per 100 microg of cell protein. Western blot analysis of human group V phospholipase A(2) in macrophages gave inconclusive data. VICAT reagents should be useful for numerous applications including the analysis of candidate disease markers in complex mixtures such as serum.
Stereoselective synthesis of 2,5-disubstituted-1,4-oxathiane S-oxides (2004)

Beta-allyloxy and beta-propargyloxy tert-butyl sulfoxides undergo tandem sulfoxide eliminination-intramolecular sulfenic acid addition reactions to produce 1,4-oxathiane S-oxides.
Stochastic Neuromorphic Circuits for Solving MAXCUT (2022)

Finding the maximum cut of a graph (MAXCUT) is a classic optimization problem that has motivated parallel algorithm development. While approximate algorithms to MAXCUT offer attractive theoretical guarantees and demonstrate compelling empirical performance, such approximation approaches can shift the dominant computational cost to the stochastic sampling operations. Neuromorphic computing, which uses the organizing principles of the nervous system to inspire new parallel computing architectures, offers a possible solution. One ubiquitous feature of natural brains is stochasticity: the individual elements of biological neural networks possess an intrinsic randomness that serves as a resource enabling their unique computational capacities. By designing circuits and algorithms that make use of randomness similarly to natural brains, we hypothesize that the intrinsic randomness in microelectronics devices could be turned into a valuable component of a neuromorphic architecture enabling more efficient computations. Here, we present neuromorphic circuits that transform the stochastic behavior of a pool of random devices into useful correlations that drive stochastic solutions to MAXCUT. We show that these circuits perform favorably in comparison to software solvers and argue that this neuromorphic hardware implementation provides a path for scaling advantages. This work demonstrates the utility of combining neuromorphic principles with intrinsic randomness as a computational resource for new computational architectures.
Application of the squaring construction to PSK constellations (2002)

A systematic procedure for the decoding of codes obtained through the squaring construction is proposed. It was employed to evaluate the performance of codes based on PSK constellations.
Targeted Drug Delivery to Endothelial Adhesion Molecules (2013)

Endothelial cells represent important targets for therapeutic and diagnostic interventions in many cardiovascular, pulmonary, neurological, inflammatory, and metabolic diseases. Targeted delivery of drugs (especially potent and labile biotherapeutics that require specific subcellular addressing) and imaging probes to endothelium holds promise to improve management of these maladies. In order to achieve this goal, drug cargoes or their carriers including liposomes and polymeric nanoparticles are chemically conjugated or fused using recombinant techniques with affinity ligands of endothelial surface molecules. Cell adhesion molecules, constitutively expressed on the endothelial surface and exposed on the surface of pathologically altered endothelium—selectins, VCAM-1, PECAM-1, and ICAM-1—represent good determinants for such a delivery. In particular, PECAM-1 and ICAM-1 meet criteria of accessibility, safety, and relevance to the (patho)physiological context of treatment of inflammation, ischemia, and thrombosis and offer a unique combination of targeting options including surface anchoring as well as intra- and transcellular targeting, modulated by parameters of the design of drug delivery system and local biological factors including flow and endothelial phenotype. This review includes analysis of these factors and examples of targeting selected classes of therapeutics showing promising results in animal studies, supporting translational potential of these interventions.
Extracellular vesicles: Toward a clinical application in urological cancer treatment (2018)

Extracellular vesicles are nanometer-sized lipid membranous vesicles that are released from almost all types of cells into the extracellular space. Extracellular vesicles have gained considerable attention in the past decade, and emerging evidence suggests that they play novel roles in mediating cancer biology. Extracellular vesicles contain pathogenic components, such as proteins, DNA fragments, messenger ribonucleic acids, non-coding ribonucleic acids and lipids, all of which mediate paracrine signaling in the tumor microenvironment. Extracellular vesicles impact the multistep process of cancer progression through modulation of the immune system, angiogenesis and pre-metastatic niche formation through transfer of their contents. Therefore, a better understanding of their roles in urological cancers will provide opportunities for novel therapeutic strategies. In addition, the contents of extracellular vesicles hold promise for the discovery of liquid-based biomarkers for prostate, kidney and bladder cancers. Here, we summarize the current research regarding extracellular vesicles in urological cancer and discuss potential clinical applications for extracellular vesicles in urological cancer.
Kinetic pathway of 40S ribosomal subunit recruitment to hepatitis C virus internal ribosome entry site (2014)

Translation initiation can occur by multiple pathways. To delineate these pathways by single-molecule methods, fluorescently labeled ribosomal subunits are required. Here, we labeled human 40S ribosomal subunits with a fluorescent SNAP-tag at ribosomal protein eS25 (RPS25). The resulting ribosomal subunits could be specifically labeled in living cells and in vitro. Using single-molecule Förster resonance energy transfer (FRET) between RPS25 and domain II of the hepatitis C virus (HCV) internal ribosome entry site (IRES), we measured the rates of 40S subunit arrival to the HCV IRES. Our data support a single-step model of HCV IRES recruitment to 40S subunits, irreversible on the initiation time scale. We furthermore demonstrated that after binding, the 40S:HCV IRES complex is conformationally dynamic, undergoing slow large-scale rearrangements. Addition of translation extracts suppresses these fluctuations, funneling the complex into a single conformation on the 80S assembly pathway. These findings show that 40S:HCV IRES complex formation is accompanied by dynamic conformational rearrangements that may be modulated by initiation factors.
A new route to porous monolithic organic frameworks via cyclotrimerization (2010)

Cyclotrimerization of bifunctional acetyl compounds is used to obtain highly porous organic frameworks. Syntheses in solution induced by silicon tetrachloride result in highly disperse powders while syntheses in molten 4-toluene sulfonic acid result in polymeric monoliths with a hierarchical pore structure containing micro- and macropores allowing for direct impregnation of textiles with a porous polymer. The materials show specific BET surface areas up to 895 m2 g−1 and large pore volume (1.99 cm3 g−1) combined with a highly hydrophobic character. The amorphous materials are thermally stable below 300 °C in air and show no decomposition effects in aqueous environment. These outstanding properties in combination with the opportunity to generate shapes of any kind desired for an application render the materials as highly promising for application in air filtration systems and individual protection, as well as gas storage and separation.
Artificial Neural Network with Self-Organizing Mapping for Reactor Stability Monitoring (2008)

In boiling water reactor (BWR) stability monitoring, damping ratio has been used as a stability index. A method for estimating the damping ratio by applying Principal Component Analysis (PCA) to neutron detector signals measured with local power range monitors (LPRMs) had been developed; in this method, measured fluctuating signal is decomposed into some independent components and the signal components directly related to stability are extracted among them to determine the damping ratio. For online monitoring, it is necessary to select stability related signal components efficiently. The self-organizing map (SOM) is one of the artificial neural networks (ANNs) and has the characteristics such that online learning is possible without supervised learning within a relatively short time. In the present study, the SOM was applied to extract the relevant signal components more quickly and more accurately, and the availability was confirmed through the feasibility study. For realizing online stability monitoring only with ANNs, another type of ANN that performs online processing of PCA was combined with SOM. And stability monitoring performance was investigated.
Viral Infection Profile in Children Treated for Acute Lymphoblastic Leukemia—Results of Nationwide Study (2022)

Viral infections can be a serious complication of therapy in children with acute lymphoblastic leukemia (ALL). In this study, we focused on the incidence and the profile of viral infection in children with ALL treated in 17 pediatric oncology centers in Poland in the two-year periods of 2018-2019 and 2020-2021. We also compared the frequency of viral infections in 2018-2019 to that in 2020-2021. In 2020-2021, a total of 192 children with ALL had a viral infection during intensive chemotherapy. A total number of 312 episodes of viral infections were diagnosed. The most common infections detected in the samples were: COVID-19 (23%), rhinovirus (18%), and respiratory syncytial virus (14%). COVID-19 and BK virus infections were the reason for the death 1% of all patients. In 2018-2019, a total of 53 ALL patients who had a viral infection were reported and 72 viral events were observed, mainly adenovirus (48.6%), rotavirus (31.9%), and herpes zoster (8.3%). No deaths were reported during this period. The cumulative incidence of viral infections in 2018-2019 was 10.4%, while for 2020-2021, it was 36.7%. In conclusion, a high incidence of COVID-19 infection was observed among pediatric patients with ALL in Poland. The mortality rate in our material was low. The viral profile in ALL children undergoing chemotherapy can be useful for clinicians to improve prophylactic and therapeutic strategies.
Crystal Structure of Cobra-Venom Phospholipase A 2 in a Complex with a Transition-State Analogue (1990)

The crystal structure of a complex between a phosphonate transition-state analogue and the phospholipase A2 (PLA2) from Naja naja atra venom has been solved and refined to a resolution of 2.0 angstroms. The identical stereochemistry of the two complexes that comprise the crystal's asymmetric unit indicates both the manner in which the transition state is stabilized and how the hydrophobic fatty acyl chains of the substrate are accommodated by the enzyme during interfacial catalysis. The critical features that suggest the chemistry of binding and catalysis are the same as those seen in the crystal structure of a similar complex formed with the evolutionarily distant bee-venom PLA2.
Welcome to the New IEEE Nanotechnology Express (ENANO)! (2015)

The IEEE NANOTECHNOLOGY EXPRESS (ENANO) publishes novel and important results in engineering at the nanoscale. ENANO is dedicated to the rapid publication of Research Letters, published as a web-only, fully open-access (OA) topical journal on topics of great current interest. The scope of ENANO covers all areas of nano- technology, including nanoscale materials, devices, systems, and applications, and their underlying science. ENANO is an interdisciplinary archival journal that is refereed to the archival standards used by other IEEE transactions-level journals.
A study on the ability of quaternary ammonium groups attached to a polyurethane foam wound dressing to inhibit bacterial attachment and biofilm formation (2014)

Bacterial infection of acute and chronic wounds impedes wound healing significantly. Part of this impediment is the ability of bacterial pathogens to grow in wound dressings. In this study, we examined the effectiveness of a polyurethane (PU) foam wound dressings coated with poly diallyl-dimethylammonium chloride (pDADMAC-PU) to inhibit the growth and biofilm development by three main wound pathogens, Staphylococcus aureus, Pseudomonas aeruginosa, and Acinetobacter baumannii, within the wound dressing. pDADMAC-PU inhibited the growth of all three pathogens. Time-kill curves were conducted both with and without serum to determine the killing kinetic of pDADMAC-PU. pDADMAC-PU killed S. aureus, A. baumannii, and P. aeruginosa. The effect of pDADMAC-PU on biofilm development was analyzed quantitatively and qualitatively. Quantitative analysis, colony-forming unit assay, revealed that pDADMAC-PU dressing produced more than eight log reduction in biofilm formation by each pathogen. Visualization of the biofilms by either confocal laser scanning microscopy or scanning electron microscopy confirmed these findings. In addition, it was found that the pDADMAC-PU-treated foam totally inhibited migration of bacteria through the foam for all three bacterial strains. These results suggest that pDADMAC-PU is an effective wound dressing that inhibits the growth of wound pathogens both within the wound and in the wound dressing.
Designing Closed-Loop Models for Task Allocation (2023)

Automatically assigning tasks to people is challenging because human performance can vary across tasks for many reasons. This challenge is further compounded in real-life settings in which no oracle exists to assess the quality of human decisions and task assignments made. Instead, we find ourselves in a "closed" decision-making loop in which the same fallible human decisions we rely on in practice must also be used to guide task allocation. How can imperfect and potentially biased human decisions train an accurate allocation model? Our key insight is to exploit weak prior information on human-task similarity to bootstrap model training. We show that the use of such a weak prior can improve task allocation accuracy, even when human decision-makers are fallible and biased. We present both theoretical analysis and empirical evaluation over synthetic data and a social media toxicity detection task. Results demonstrate the efficacy of our approach.