gebhart/patrepeval huggingface dataset:
Multiconformational Minimal Steric Difference. Structure‐Acetylcholinesterase Hydrolysis Rates Relations for Acetic Acid Esters (1993)

Abstract This note presents the multiconformational MTD method and its application in a QSAR for acetylcholinesterase catalysed hydrolysis rates of a series of 25 acetic acid esters. Multiconformational MTD allows consideration of molecules with several low energy conformations, as the mostly aliphatic alcohol esters of this series, for QSAR. Conformations were selected for the QSAR study according to their energies calculated by the COSMIC modelling program. Information from an X‐ray crystallography study, together with results of conformational energy calculations was used in constructing the hypermolecule for the 25 acetic acid ester molecules. A classical Hansch QSAR, with σ*‐Taft constants, π‐hydrophobicities and E s ‐steric constants yields r 2 = 0.779 and r 2 cv = 0.577 in a crossvalidation procedure. The multiconformational MTD, with σ* and MTD as structural parameters yields, for the corelational equation r 2 = 0.868 and r 2 cv = 0.661 in a cross validation procedure. Both correlational equations indicate an appreciable positive effect of electron withdrawing ester groups. The optimised receptor map indicates a receptor cavity with certain similarities to acetylcholine, but somewhat larger. QSAR studies are able, thus, to yield supplementary details to those given by X‐ray studies.
WKB analytic modeling for nonuniform thin films, holograms, and gratings (1997)

The WKB (Wentzel-Kramers-Brillouin) method, well-known in quantum mechanics, is applied in the second-order approximation into non-uniform Bragg structure, such as rugged dielectric thin films, sinusoidal gratings, and holograms. In this paper, the analytic WKB problem solution will be presented including numerical results.
Performance Comparison of CGM Systems (2015)

MARD is a reasonable parameter to characterize the performance of CGM systems when keeping its limitations in mind. To support clinicians and patients in selecting which CGM system to use in a clinical setting, care should be taken to make MARD more comparable by employing a standardized evaluation procedure.
Biological accumulation of engineered nanomaterials: a review of current knowledge (2012)

Due to the widespread use of engineered nanomaterials (ENMs) in consumer and industrial products, concerns have been raised over their impacts once released into the ecosystems. While there has been a wealth of studies on the short-term acute toxic effects of ENMs over the past decade, work on the chronic endpoints, such as biological accumulation, has just begun to increase in last 2–3 years. Here, we comprehensively review over 65 papers on the biological accumulation of ENMs under a range of ecologically relevant exposure conditions in water, soil or sediment with the focus on quantitative comparison among these existing studies. We found that daphnid, fish, and earthworm are the most commonly studied ecological receptors. Current evidence suggests that ENM accumulation level is generally low in fish and earthworms with logarithmic bioconcentration concentration factor and biota-sediment accumulation factor ranging from 0.85–3.43 (L kg−1) and −2.21–0.4 (kg kg−1), respectively. ENMs accumulated in organisms at the lower trophic level can transfer to higher trophic level animals with the occurrence of biomagnification varying depending on the specific food chain studied. We conclude the review by identifying the challenges and knowledge gaps and propose paths forward.
<title>Molecular orientation control for thermal and UV-driven polymer MEMS actuators</title> (2005)

We present polymeric MEMS materials which reversibly respond to either thermal or UV stimuli by moving between nearly flat (r ~ infinity) and tightly curled states (r ~ 5mm) with variations in the radiation environment or temperature. The molecular orientation gradient of a liquid crystal network controls the primary bending axes, while controlled order parameter variations are responsible for the degree of deformation. In the case of thermal activation, these order changes are dominated by thermal motion, while UV-switchable defects bring about reduced network order in the case of UV actuation. We report fabrication and operation of the actuators and supplementary data regarding alignment configurations for controllable deformations, the phase behaviour of the liquid crystal constituents, thermal expansions, and absorption of the UV dyes are included. We find that splayed molecular configurations are preferred over twisted modes due to their single deformation axis, and that the optimum concentration of active molecules for UV-driven actuation is on the order of 7-8wt.%.
Improved nonlinear model for electrode voltage-current relationship for more consistent online battery system identification (2011)

An improved nonlinear model for the electrode voltage-current relationship for online battery system identification is proposed. In contrast with the traditional linear-circuit model, the new approach employs a more accurate model of the battery electrode nonlinear steady-state voltage drop based on the Butler-Volmer equation. The new form uses an inverse hyperbolic sine approximation for the Butler-Volmer equation. Kalman filter-based system identification is proposed for determining the model parameters based on the measured voltage and current. Both models have been implemented for lead-acid batteries and exercised using test data from a Corbin Sparrow electric vehicle. A comparison of predictions for the two models demonstrates the improvements that can be achieved using the new nonlinear model. The results include improved battery voltage predictions that provide the basis for more accurate state-of-function (SOF) readings.
PlyC: A multimeric bacteriophage lysin (2006)

Lysins are murein hydrolases produced by bacteriophage that act on the bacterial host cell wall to release progeny phage. When added extrinsically in their purified form, these enzymes produce total lysis of susceptible Gram-positive bacteria within seconds, suggesting a unique antimicrobial strategy. All known Gram-positive lysins are produced as a single polypeptide containing a catalytic activity domain, which cleaves one of the four major peptidoglycan bonds, and a cell-wall-binding domain, which may bind a species-specific carbohydrate epitope in the cell wall. Here, we have cloned and expressed a unique lysin from the streptococcal bacteriophage C(1), termed PlyC. Molecular characterization of the plyC operon reveals that PlyC is, surprisingly, composed of two separate gene products, PlyCA and PlyCB. Based on biochemical and biophysical studies, the catalytically active PlyC holoenzyme is composed of eight PlyCB subunits for each PlyCA. Inhibitor studies predicted the presence of an active-site cysteine, and bioinformatic analysis revealed a cysteine, histidine-dependent amidohydrolase/peptidase domain within PlyCA. Point mutagenesis confirmed that PlyCA is responsible for the observed catalytic activity, and Cys-333 and His-420 are the active-site residues. PlyCB was found to self-assemble into an octamer, and this complex alone was able to direct streptococcal cell-wall-specific binding. Similar to no other proteins in sequence databases, PlyC defines a previously uncharacterized structural family of cell-wall hydrolases.
Tracking a moving target with model independent visual servoing: a predictive estimation approach (2002)

Target tracking by model independent visual servo control is achieved by augmenting quasi-Newton trust region control with target prediction. Model independent visual servo control is defined using visual feedback to control the robot without precise kinematic and camera models. While a majority of the research assumes a known robot and camera model, there is a paucity of literature addressing model independent control. In addition, most researches have focused primarily on static targets. The work presented here demonstrates the use of predictive filters to improve the performance of the control algorithm for linear and circular target motions. The results show a performance of the same order of magnitude as compared to some model based visual servo control research. Certain limitations to the algorithm are also discussed.
Phaseless Object Reconstruction (1984)

The behaviour of phaseless object reconstruction algorithms is investigated by examining the results obtained from one of them (Fienup's algorithm) when it is used to analyse data deliberately designed such that no unique reconstruction is possible. The results are surprising but may, from one point of view, be regarded as encouraging.
Group B Streptococcus vaccine: state of the art (2015)

Group B Streptococcus (GBS) is cause of neonatal invasive diseases as well as of severe infections in the elderly and immune-compromised patients. Despite significant advances in the prevention and treatment of neonatal disease, sepsis and meningitis caused by GBS still represent a significant public health care concern globally and additional prevention and therapeutic strategies against infection are highly desirable. The introduction of national recommended guidelines in several countries to screen pregnant women for GBS carriage and the use of antibiotics during delivery significantly reduced disease occurring within the first hours of life (early-onset disease), but it has had no effect on the late-onset diseases occurring after the first week and is not feasible in most countries. Availability of an effective vaccine against GBS would provide an effective means of controlling GBS disease. This review provides an overview of the burden of invasive disease caused by GBS in infants and adults, and highlights the strategies for the development of an effective vaccine against GBS infections.
Production of tissue plasminogen activator (t‐PA) in Aspergillus niger (2001)

A protease-deficient strain of Aspergillus niger has been used as a host for the production of human tissue plasminogen activator (t-PA). In defined medium, up to 0.07 mg t-PA (g biomass)(-1) was produced in batch and fed-batch cultures and production was increased two- to threefold in two-phase batch cultures in which additional glucose was provided as a single pulse at the end of the first batch growth phase. Production was increased [up to 1.9 mg t-PA (g biomass)(-1)] by the addition of soy peptone to the defined medium. The rate of t-PA production in batch cultures supplemented with soy peptone (0.2 to 0.6 mg t-PA L(-1) h(-1)) was comparable to rates observed previously in high-producing mammalian or insect cell cultures. In glucose-limited chemostat culture supplemented with soy peptone, t-PA was produced at a rate of 0.7 mg t-PA L(-1) h(-1). Expression of t-PA in A. niger resulted in increased expression of genes (bipA, pdiA, and cypB) involved in the unfolded protein response (UPR). However, when cypB was overexpressed in a t-PA-producing strain, t-PA production was not increased. The t-PA produced in A. niger was cleaved into two chains of similar molecular weight to two-chain human melanoma t-PA. The two chains appeared to be stable for at least 16 h in culture supernatant of the host strain. However, in general, <1% of the t-PA produced in A. niger was active, and active t-PA disappeared from the culture supernatant during the stationary phase of batch cultures, suggesting that the two-chain t-PA may have been incorrectly processed or that initial proteolytic cleavage occurred within the proteolytic domain of the protein. Total t-PA (detected by enzyme-linked immunoassay) also eventually disappeared from culture supernatants, confirming significant extracellular proteolytic activity, even though the host strain was protease-deficient.
Prevention of Allograft Tolerance by Bacterial Infection with Listeria monocytogenes (2008)

Exposure to certain viruses and parasites has been shown to prevent the induction of transplantation tolerance in mice via the generation of cross-reactive memory T cell responses or the induction of bystander activation. Bacterial infections are common in the perioperative period of solid organ allograft recipients in the clinic, and correlations between bacterial infections and acute allograft rejection have been reported. However, whether bacterial infections at the time of transplantation have any effect on the generation of transplantation tolerance remains to be established. We used the Gram-positive intracellular bacterium Listeria monocytogenes (LM) as a model pathogen because its effects on immune responses are well described. Perioperative LM infection prevented cardiac and skin allograft acceptance induced by anti-CD154 and donor-specific transfusion in mice. LM-mediated rejection was not due to the generation of cross-reactive T cells and was largely independent of signaling via MyD88, an adaptor for most TLRs, IL-1, and IL-18. Instead, transplant rejection following LM infection was dependent on the expression of the phagosome-lysing pore former listeriolysin O and on type I IFN receptor signaling. Our results indicate that bacterial exposure at the time of transplantation can antagonize tolerogenic regimens by enhancing alloantigen-specific immune responses independently of the generation of cross-reactive memory T cells.
Nanostructurally Controlled Hydrogel Based on Small‐Diameter Native Chitin Nanofibers: Preparation, Structure, and Properties (2016)

Chitin nanofibers of unique structure and properties can be obtained from crustacean and fishery waste. These chitin nanofibers have roughly 4 nm diameters, aspect ratios between 25-250, a high degree of acetylation and preserved crystallinity, and can be potentially applied in hydrogels. Hydrogels with a chitin nanofiber content of 0.4, 0.6, 0.8, 1.0, 2.0, and 3.0 wt % were successfully prepared. The methodology for preparation is new, environmentally friendly, and simple as gelation is induced by neutralization of the charged colloidal mixture, inducing precipitation and secondary bond interaction between nanofibers. Pore structure and pore size distributions of corresponding aerogels are characterized using auto-porosimetry, revealing a substantial fraction of nanoscale pores. To the best of our knowledge, the values for storage (13 kPa at 3 wt %) and compression modulus (309 kPa at 2 wt %) are the highest reported for chitin nanofibers hydrogels.
ETC2: texture compression using invalid combinations (2007)

We present a novel texture compression system for improved image quality. Building on the iPACKMAN/ETC method, bit combinations that are invalid in that system are used to allow for three additional decompression modes without increasing the bit rate. These modes increase quality, especially for color edges and blocks with smoothly varying content. Due to the use of invalid bit combinations, the system, called ETC2, is backwards compatible with iPACKMAN/ETC. It outperforms S3TC/DXTC and iPACKMAN/ETC in terms of PSNR with 0.8 dB and 1.0 dB respectively, which is clearly visible to the human eye.
Serotypes With Low Invasive Potential Are Associated With an Impaired Antibody Response in Invasive Pneumococcal Disease (2018)

Pneumococcal polysaccharide vaccines may elicit a hyporesponse under certain conditions. There is limited knowledge, however, on the type of specific antibody response in individuals with invasive pneumococcal disease (IPD). The aim of this study was to investigate the functional antibody response in patients with IPD caused by different serotypes. Pre-immune and convalescent sera from 40 patients (age 14-91 years) with IPD caused by serotypes with low (serotype 3, 19F, and 23F) and high (1, 4, 7F, and 14) invasive potential were investigated. For each patient, the homologous serotype-specific antibody concentration was determined. The functionality of induced antibodies post-IPD was evaluated in an opsonophagocytic assay (OPA). Undetectable or decreased pneumococcal killing in OPA following IPD, i.e., a nonfunctional antibody response, was observed in 24 of 40 patients (60%). Patients with nonfunctional antibody responses had lower serotype specific IgG antibody ratios post-IPD than patients with increased OPA titres. A nonfunctional antibody response was associated with low invasive serotypes (3, 19F, and 23F, <i>p</i> = 0.015). In conclusion, a nonfunctional antibody response may follow IPD, and was in our cohort associated to serotypes with low invasive potential. These findings need to be confirmed in a larger material.
Parallel, real-time visual SLAM (2010)

In this paper we present a novel system for real-time, six degree of freedom visual simultaneous localization and mapping using a stereo camera as the only sensor. The system makes extensive use of parallelism both on the graphics processor and through multiple CPU threads. Working together these threads achieve real-time feature tracking, visual odometry, loop detection and global map correction using bundle adjustment. The resulting corrections are fed back into to the visual odometry system to limit its drift over long sequences. We demonstrate our system on a series videos from challenging indoor environments with moving occluders, visually homogenous regions with few features, scene parts with large changes in lighting and fast camera motion. The total system performs its task of global map building in real time including loop detection and bundle adjustment on typical office building scale scenes.
Trace levels of the CHO host cell protease cathepsin D caused particle formation in a monoclonal antibody product (2015)

Chinese hamster ovary (CHO) cells are often used to produce therapeutic monoclonal antibodies (mAbs). CHO cells express many host cell proteins (HCPs) required for their growth. Interactions of HCPs with mAbs can sometimes result in co-purification of trace levels of 'hitchhiker' HCPs during the manufacturing process. Purified mAb-1 product produced in early stages of process optimization had high HCP levels. In addition, these lots formed delayed-onset particles containing mAb-1 and its heavy chain C-terminal fragments. Studies were performed to determine the cause of the observed particle formation and to optimize the purification for improved HCP clearance. Protease activity and inhibitor stability studies confirmed that an aspartyl protease was responsible for fragmentation of mAb-1 resulting in particle formation. An affinity resin was used to selectively capture aspartyl proteases from the mAb-1 product. Mass spectrometry identified the captured aspartyl protease as CHO cathepsin D. A wash step at high pH with salt and caprylate was implemented during the protein A affinity step to disrupt the HCP-mAb interactions and improve HCP clearance. The product at the end of purification using the optimized process had very low HCP levels, did not contain detectable protease activity, and did not form particles. Spiking of CHO cathepsin D back into mAb-1 product from the optimized process confirmed that it was the cause of the particle formation. This work demonstrated that process optimization focused on removal of HCPs was successful in eliminating particle formation in the final mAb-1 product.
Sill Pan Flashing for Block-Frame Windows in Recessed Concrete Openings—Case Studies (2009)

Integrating sill pan window flashing can be challenging using block-frame windows or installing flashings within a recessed opening in a concrete wall. Two case studies summarize the details of design and retrofit installation for sill pan flashing of replacement block-frame window into the perimeters of existing recessed concrete wall openings. Provisions for sill pan drainage were included with technical solutions for two case studies. The design and detailing were also conceived to account for blending with the context of the existing architecture and minimizing the aesthetic concerns for the appearance of any exposed perimeter opening flashings. These case studies demonstrate detailing methodologies for wood and metal block-frame window frames and concrete wall openings applicable for new and existing exterior wall systems.
Comparison of the Simplify D-dimer assay performed at the bedside with a laboratory-based quantitative D-dimer assay for the diagnosis of pulmonary embolism in a low prevalence emergency department population (2008)

In this very low-risk ED population, a qualitative D-dimer assay performed at the point of care had similar diagnostic accuracy to the quantitative D-dimer test. Interobserver agreement for the qualitative test was good.
Dealing with Memory-Intensive Web Requests (2001)

Web servers must be protected from overload since server overload can lead to low throughput and high, unpredictable response times. In this paper we present a new admission control architecture that prevents server overload caused by high paging rates. The main idea of our admission control scheme is to delay the processing of requests when there is high memory pressure. We present experiments that show that our admission control architecture sustains high throughput even during a ash crowd of memory-intensive requests.
Laser thermal patterning of OLED materials (2004)

Laser Induced Thermal Imaging (LITI) is a high resolution, digital patterning technique developed at 3M for use in a number of applications including the patterning of LCD color filters and OLED emitters. The LITI process is suited for the manufacture of flat panel displays, where both high resolution and absolute placement accuracy are required. In this paper, we present the capabilities of LITI, the basic design of a LITI laser imager, the construction of a LITI donor sheet, and the process by which OLED emitters may be patterned. An OLED device fabricated with the LITI process is described.
1229: Improved Detrusor Contractility and Neurorecovery Through the use of Muscle Derived Stem Cells in a Rat Model of Radical Pelvic Sugery (2005)

You have accessJournal of UrologyDiscussed Poster, Tuesday, May 24, 2005, 1:00 - 5:00 pm1 Apr 20051229: Improved Detrusor Contractility and Neurorecovery Through the use of Muscle Derived Stem Cells in a Rat Model of Radical Pelvic Sugery Dong Deuk Kwon, Soo Bang Ryu, Yong Tae Kim, Pruchnic Ryan, Huard Johnny, Yoshimura Naoki, William C. de Groat, and Michael B. Chancellor Dong Deuk KwonDong Deuk Kwon More articles by this author , Soo Bang RyuSoo Bang Ryu More articles by this author , Yong Tae KimYong Tae Kim More articles by this author , Pruchnic RyanPruchnic Ryan More articles by this author , Huard JohnnyHuard Johnny More articles by this author , Yoshimura NaokiYoshimura Naoki More articles by this author , William C. de GroatWilliam C. de Groat More articles by this author , and Michael B. ChancellorMichael B. Chancellor More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(18)35374-6AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "1229: Improved Detrusor Contractility and Neurorecovery Through the use of Muscle Derived Stem Cells in a Rat Model of Radical Pelvic Sugery." The Journal of Urology, 173(4S), pp. 333–334 © 2016 by American Urological AssociationFiguresReferencesRelatedDetails Volume 173Issue 4SApril 2005Page: 333-334 Advertisement Copyright & Permissions© 2016 by American Urological AssociationMetricsAuthor Information Dong Deuk Kwon More articles by this author Soo Bang Ryu More articles by this author Yong Tae Kim More articles by this author Pruchnic Ryan More articles by this author Huard Johnny More articles by this author Yoshimura Naoki More articles by this author William C. de Groat More articles by this author Michael B. Chancellor More articles by this author Expand All Advertisement PDF downloadLoading ...