gebhart/patrepeval huggingface dataset:
Detection of Novel Proline 3-Hydroxylase Activities in Streptomyces and Bacillus spp. by Regio- and Stereospecific Hydroxylation of l-Proline (1996)

During the screening of microbial proline hydroxylases, novel proline 3-hydroxylase activities, which hydroxylate free l-proline to free cis-3-hydroxy-l-proline, were detected in whole cells of Streptomyces sp. strain TH1 and Bacillus sp. strains TH2 and TH3 from 3,000 strains isolated from soil. The reaction product was purified from a reaction mixture of Streptomyces sp. strain TH1, and its chemical structure was identified as cis-3-hydroxy-l-proline by instrumental analyses. Proline 3-hydroxylase activity was also detected in Streptomyces canus ATCC 12647 which produces the 3-hydroxyproline-containing peptide antibiotic telomycin. Bacillus sp. strains TH2 and TH3 were found to accumulate cis-3-hydroxy-l-proline in culture media at 426 and 352 (mu)M, respectively. It was suggested that hydroxylation occurred in a highly regio- and stereospecific manner at position 3 of l-proline because no hydroxylation product other than cis-3-hydroxy-l-proline was observed. Proline 3-hydroxylases of these strains were first characterized on crude enzyme preparations. Since 2-oxoglutarate and ferrous ion were required for hydroxylation of l-proline, these 3-hydroxylases were thought to belong to a family of 2-oxoglutarate-related dioxygenases. The reaction was inhibited by Co(sup2+), Zn(sup2+), and Cu(sup2+). l-Ascorbic acid accelerated the reaction. The optimum pH and temperature were 7.5 and 35(deg)C, respectively.
Multicore Fibers (2015)

Recent advances in fiber technology enable the fabrication of multi-core fibers tailored for various applications. Examples of multi-core fibers for ultra-high-density spatial division multiplexing in communications and for high temperature sensor applications will be presented.
Recent Development of a Jet-Diffuser Ejector (1981)

The paper considers thrust augmenting ejectors in which the processes of mixing and diffusion are partly carried out downstream of the ejector solid surfaces. A jet sheet surrounding the periphery of a widely diverging diffuser prevents separation and forms a gaseous, curved surface to provide effective diffuser ratio and additional length for mixing of primary and induced flows. Three-dimensional potential flow methods achieved a large reduction in the length of the associated solid surface; primary nozzle design further reduced the volume required by the jet-diffuser ejectors, resulting in thrust augmentation in excess of two, and an overall length of about 2 1/2 times the throat width.
Coupled Serial and Parallel Non-uniform SQUIDs (2011)

In this work we numerical model series and parallel non‐uniform superconducting quantum interference device (SQUID) array. Previous work has shown that series SQUID array constructed with a random distribution of loop sizes, (i.e. different areas for each SQUID loop) there exists a unique ‘anti‐peak’ at the zero magnetic field for the voltage versus applied magnetic field (V‐B). Similar results extend to a parallel SQUID array where the difference lies in the arrangement of the Josephson junctions. Other system parameter such as bias current, the number of loops, and mutual inductances are varied to demonstrate the change in dynamic range and linearity of the V‐B response. Application of the SQUID array as a low noise amplifier (LNA) would increase link margins and affect the entire communication system. For unmanned aerial vehicles (UAVs), size, weight and power are limited, the SQUID array would allow use of practical ‘electrically small’ antennas that provide acceptable gain.
Linear Current-Mode Active Pixel Sensor (2007)

A current mode CMOS active pixel sensor (APS) providing linear light-to-current conversion with inherently low fixed pattern noise (FPN) is presented. The pixel features adjustable-gain current output using a pMOS readout transistor in the linear region of operation. This paper discusses the pixel's design and operation, and presents an analysis of the pixel's temporal noise and FPN. Results for zero and first-order pixel mismatch are presented. The pixel was implemented in a both a 3.3 V 0.35 and a 1.8V 0.18 CMOS process. The 0.35 process pixel had an uncorrected FPN of 1.4%/0.7% with/without column readout mismatch. The 0.18 process pixel had 0.4% FPN after delta-reset sampling (DRS). The pixel size in both processes was 10times10 mum <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> , with fill factors of 26% and 66%, respectively.
DECOMPOSITION AND PERFORMANCEOFNEW HIGH NITROGEN PROPELLANTS AND EXPLOSIVES (2007)

As of late, molecules with high nitrogen content have received increased attention, due in large part to their novel energetic materials properties. At the Los Alamos National Laboratory, we continue to pursue the development and characterization of new high-nitrogen materials for applications in a wide variety of fields. In this work, three molecules, triaminoguanidinium azotetrazolate (TAGzT), 3,6-bis-nitroguanyl-1,2,4,5-tetrazine, and its corresponding bis-triaminoguanidinium salt, are studied. All three molecules are high-nitrogen compounds with little or no oxygen; however, they retain energetic material properties as a result of their high heats of formation. Due to these features, the decomposition of this class of compounds has limited or no secondary oxidation reactions of carbon and hydrogen. Other materials discussed for comparison include 3,3'-azobis(6-amino-1,2,4,5-tetrazine)-mixed N-oxides (DAATO3.5) and 3,6-bis(1H-1,2,3,4-tetrazol-5-ylamino)-s-tetrazine (BTATz), and the nitramine octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine (HMX). The fact that many of these molecules approach 80% nitrogen content makes them potentially useful as gas generants or energetic materials with low flame temperatures, while simultaneously increasing the impulse of gun or rocket propellants. The burning rate, flash pyrolysis (T-jump/FTIR spectroscopy), explosive sensitivity, and performance properties were determined. Some examples of interesting behaviors include TAGzT exhibiting one of the fastest low pressure burning rates yet measured for an organic compound, and 3,6-bis-nitroguanyl-1,2,4,5-tetrazine having one of the lowest pressure exponents yet measured for a pure organic compound.
Modified amino acid copolymers suppress myelin basic protein 85–99-induced encephalomyelitis in humanized mice through different effects on T cells (2004)

A humanized mouse bearing the HLA-DR2 (DRA/DRB1*1501) protein associated with multiple sclerosis (MS) and the myelin basic protein (MBP) 85-99-specific HLA-DR2-restricted T cell receptor from an MS patient has been used to examine the effectiveness of modified amino acid copolymers poly(F,Y,A,K)n and poly-(V,W,A,K)n in therapy of MBP 85-99-induced experimental autoimmune encephalomyelitis (EAE) in comparison to Copolymer 1 [Copaxone, poly(Y,E,A,K)n]. The copolymers were designed to optimize binding to HLA-DR2. Vaccination, prevention, and treatment of MBP-induced EAE in the humanized mice with copolymers FYAK and VWAK ameliorated EAE more effectively than Copolymer 1, reduced the number of pathological lesions, and prevented the up-regulation of human HLA-DR on CNS microglia. Moreover, VWAK inhibited MBP 85-99-specific T cell proliferation more efficiently than either FYAK or Copolymer 1 and induced anergy of HLA-DR2-restricted transgenic T cells as its principle mechanism. In contrast, FYAK induced proliferation and a pronounced production of the antiinflammatory T helper 2 cytokines IL-4 and IL-10 from nontransgenic T cells as its principle mechanism of immunosuppression. Thus, copolymers generated by using different amino acids inhibited disease using different mechanisms to regulate T cell responses.
Thermal conductivity of isotopically modified single crystal diamond (1993)

We present new experimental results on the thermal conductivity of isotopically enriched $^{12}\mathrm{C}$ diamond crystals at low temperatures. To our knowledge, the measured value for a 99.9% $^{12}\mathrm{C}$ crystal at 104 K, 410 W/cm K, is the highest measured thermal conducitivity for a solid above liquid nitrogen temperature. Our measured temperature dependent conductivities for the isotopically enriched diamond and natural abundance diamond specimens are well described by Callaway's theoretical model. We predict that the thermal conductivity of a 99.999% $^{12}\mathrm{C}$ diamond crystal should exceed 2000 W/cm K at \ensuremath{\sim}80 K.
The bias flow nitrogen washout technique for measuring the functional residual capacity in infants (2001)

The functional residual capacity (FRC) is the most commonly measured static lung volume in infants. It is important for interpreting volume-dependent pulmonary mechanics, e.g. airway resistance, and defining normal lung growth. The bias flow nitrogen washout technique is widely used for measuring FRC because the dead space and circuit resistance are low, making it suitable for small or sick infants. Moreover, data acquisition and calculation are easily programmed for a personal computer. The aim of this paper is to provide recommendations pertaining to equipment requirements, study procedures and reporting of data for functional residual capacity measurements. While measuring the functional residual capacity is regarded as physiologically and clinically important, the accuracy of the measurement is undoubtedly equally important. Hence, the paper also emphasizes factors influencing the accuracy of functional residual capacity measurements independent of equipment requirements. These recommendations represent the "State of the Art" in 2000.
An Optimization Framework for Opportunistic Multipath Routing in Wireless Mesh Networks (2008)

We consider wireless mesh networks, and exploit the inherent broadcast nature of wireless by making use of multipath routing. We present an optimization framework that enables us to derive optimal flow control, routing, scheduling, and rate adaptation schemes, where we use network coding to ease the routing problem. We prove optimality and derive a primal-dual algorithm that lays the basis for a practical protocol. We use simulation to show on realistic topologies that we can achieve 20-200% throughput improvement compared to single path routing, and several times compared to a recent related opportunistic protocol (MORE).
Collection mode near-field scanning optical microscopy (1987)

Super-resolution imaging at optical wavelengths has been achieved with collection mode near-field scanning optical microscopy. Reproducible images of 0.25-μm aluminum lines separated by 0.25 μm have been generated with a peak edge sharpness of 0.07 μm. Images taken with differing probe sizes and at various heights demonstrate that the smallest resolvable features are roughly determined by the greater of the aperture size and the aperture to sample separation.
CONCURRENT FLCW RICE DRYING (1983)

ABSTRACT Long- and medium-grain rice were dried in a commercial multi-stage concurrent-flow dryer. Drying air temperatures varied fran 82°C to 177°C. Over six points of moisture were removed in one dryer pass without affecting the rice head-yield. Energy consumption of the dryers was half that of conventional rice dryers. Simulation played a major role in the design of the mUlti-stage concurrent-flow rice dryers.
Non-Uniform Doppler Compensation for Zero-Padded OFDM over Fast-Varying Underwater Acoustic Channels (2007)

Underwater acoustic channels are wideband in nature due to the fact that the signal bandwidth is not negligible with respect to the center frequency. OFDM transmissions over UWA channels encounter frequency-dependent Doppler drifts that destroy the orthogonality among OFDM subcarriers. In this paper, we propose a two-step approach to mitigating the frequency-dependent Doppler drifts in zero-padded OFDM transmissions over fast-varying channels: (1) non-uniform Doppler compensation via resampling that converts a "wideband" problem into a "narrowband" problem; and (2) high-resolution uniform compensation on the residual Doppler. Based on block-by-block processing, our receiver does not rely on channel dependence across OFDM blocks, and is thus desirable for fast-varying UWA channels. We test our receiver with data from a shallow water experiment at Buzzards Bay, Massachusetts. Our receiver achieves excellent performance even when the transmitter and the receivers have a relative speed up to 10 knots, where the Doppler drifts are several times larger than the OFDM subcarrier spacing.
A novel anti‐inflammatory role for secretory phospholipase A <sub>2</sub> in immune complex‐mediated arthritis (2010)

Phospholipase A2 (PLA2) catalyses the release of arachidonic acid for generation of lipid mediators of inflammation and is crucial in diverse inflammatory processes. The functions of the secretory PLA2 enzymes (sPLA2), numbering nine members in humans, are poorly understood, though they have been shown to participate in lipid mediator generation and the associated inflammation. To further understand the roles of sPLA2 in disease, we quantified the expression of these enzymes in the synovial fluid in rheumatoid arthritis and used gene-deleted mice to examine their contribution in a mouse model of autoimmune erosive inflammatory arthritis. Contrary to expectation, we find that the group V sPLA2 isoform plays a novel anti-inflammatory role that opposes the pro-inflammatory activity of group IIA sPLA2. Mechanistically, group V sPLA2 counter-regulation includes promotion of immune complex clearance by regulating cysteinyl leukotriene synthesis. These observations identify a novel anti-inflammatory function for a PLA2 and identify group V sPLA2 as a potential biotherapeutic for treatment of immune-complex-mediated inflammation.
Relaxation, recovery, crystallization, and recrystallization transformations in an iron-based amorphous precursor (2003)

The focus of this research was on gaining a fundamental understanding of the structure/property relationships that exist in an Fe-based multicomponent glass-forming alloy. While composition is one key parameter in determining the final microstructure, the specific transformation conditions (temperature and time) related to how a glass devitrifies were found to have significant effects on the development of the devitrified microstructure. Microstructural studies have revealed that recovery, relaxation, crystallization, and recrystallization phenomena are important effects which lead to large differences in the ensuing microstructure resulting in significant differences in properties such as devitrified hardness. The information gained in this study, combined with further investigations into the mechanistic processes governing these transformations, may allow for the further development of nanostructured materials with specific and targeted sets of properties.
Interactions of gene 2.5 protein and DNA polymerase of bacteriophage T7. (1992)

Bacteriophage T7 gene 2.5 protein has been shown to interact with T7 DNA polymerase (the complex of T7 gene 5 protein and Escherichia coli thioredoxin) by affinity chromatography and fluorescence emission anisotropy. T7 DNA polymerase binds specifically to a resin coupled to gene 2.5 protein and elutes from the resin when the ionic strength of the buffer is raised to 250 mM NaCl. In contrast, T7 gene 5 protein alone binds more weakly to gene 2.5 protein, eluting when the ionic strength of the buffer is 50 mM NaCl. Thioredoxin does not bind to gene 2.5 protein. Steady-state fluorescence emission anisotropy gives a dissociation constant of 1.1 +/- 0.2 microM for the complex of gene 2.5 protein and T7 DNA polymerase, with a ratio of gene 2.5 protein to T7 DNA polymerase in the complex of 1:1. Nanosecond emission anisotropic analysis suggests that the complex contains one monomer each of gene 2.5 protein, gene 5 protein, and thioredoxin. The ability of T7 gene 2.5 protein to stimulate the activity and processivity of T7 DNA polymerase is compared with the ability of three other single-stranded DNA-binding proteins: E. coli single-stranded DNA-binding protein, T4 gene 32 protein, and E. coli recA protein. All except E. coli recA protein stimulate the activity and processivity of T7 DNA polymerase; E. coli recA protein inhibits these activities.
<scp>LP</scp>‐925219 maximizes urinary glucose excretion in mice by inhibiting both renal <scp>SGLT</scp>1 and <scp>SGLT</scp>2 (2015)

Sodium-glucose cotransporter 2 (SGLT2) inhibitors are a new class of oral anti-diabetic agents that improve glycemic control by inhibiting SGLT2-mediated renal glucose reabsorption. Currently available agents increase urinary glucose excretion (UGE) to <50% of maximal values because they do not inhibit SGLT1, which reabsorbs >50% of filtered glucose when SGLT2 is completely inhibited. This led us to test whether LP-925219, a small molecule dual SGLT1/SGLT2 inhibitor, increases UGE to maximal values in wild-type (WT) mice. We first tested LP-925219 inhibition of glucose transport by HEK293 cells expressing SGLT1 or SGLT2, and then characterized LP-925219 pharmacokinetics. We found that LP-925219 was a potent inhibitor of mouse SGLT1 (IC50 = 22.6 nmol/L) and SGLT2 (IC50 = 0.5 nmol/L), and that a 10 mg/kg oral dose was bioavailable (87%) with a long half-life (7 h). We next delivered LP-925219 by oral gavage to WT, SGLT1 knockout (KO), SGLT2 KO, and SGLT1/SGLT2 double KO (DKO) mice and measured their 24-h UGE. We found that, in vehicle-treated mice, DKO UGE was maximal and SGLT2 KO, SGLT1 KO, and WT UGEs were 30%, 2%, and 0.2% of maximal, respectively; we also found that LP-925219 dosed at 60 mg/kg twice daily increased UGE of SGLT1 KO, SGLT2 KO, and WT mice to DKO UGE levels. These findings show that orally available dual SGLT1/SGLT2 inhibitors can maximize 24-h UGE in mammals, and suggest that such agents merit further evaluation for their potential, in diabetic patients, to achieve better glycemic control than is achieved using selective SGLT2 inhibitors.
Shallow Flat Soffit Precast Concrete Floor System (2012)

It is a key economic criterion for multistory residential and office buildings to have a shallow floor that minimizes floor height and saves in the cost of architectural, mechanical, and electrical systems. This paper presents the development of a new precast concrete floor system that eliminates the need for column corbels and beam ledges while being shallow. The proposed system can achieve a span-to-depth ratio of 30 and flat soffit while being consistent with prevailing erection techniques. The proposed system consists of continuous precast columns, prestressed rectangular beams, hollow-core (HC) planks, and cast-in-place composite topping. The paper presents the construction sequence of the new system and focuses on testing HC-beam connections without ledges in a full-scale specimen. Testing results indicate that a 30-cm-deep flat soffit precast floor system has adequate capacity to carry gravity loads (including 488 kg/m2 live load) in a 9.14-×9.14-m bay size. Also, testing shows that shear capacity of the proposed HC-beam connections without ledges can be accurately predicted using the shear friction theory.
A biochemical approach to periodontal regeneration: Tetracycline treatment of dentin promotes fibroblast adhesion and growth (1986)

One objective of periodontal therapy after resolution of the infectious process is to facilitate a new connective tissue attachment to the root dentin surface. Here we report that a selective advantage for attachment and growth can be conferred on human gingival fibroblasts by biochemical manipulation of the dentin surface. Tetracycline HCL treatment of the dentin surface increases binding of fibronectin. The adsorbed fibronectin stimulates fibroblast attachment and growth, while suppressing epithelial cell attachment and growth. This biochemical manipulation may provide a useful approach for the treatment of periodontally involved teeth.
Oral Treatment with the <scp>d</scp>-Enantiomeric Peptide D3 Improves the Pathology and Behavior of Alzheimer’s Disease Transgenic Mice (2010)

Several lines of evidence suggest that the amyloid-β-peptide (Aβ) plays a central role in the pathogenesis of Alzheimer's disease (AD). Not only Aβ fibrils but also small soluble Aβ oligomers in particular are suspected to be the major toxic species responsible for disease development and progression. The present study reports on in vitro and in vivo properties of the Aβ targeting d-enantiomeric amino acid peptide D3. We show that next to plaque load and inflammation reduction, oral application of the peptide improved the cognitive performance of AD transgenic mice. In addition, we provide in vitro data elucidating the potential mechanism underlying the observed in vivo activity of D3. These data suggest that D3 precipitates toxic Aβ species and converts them into nonamyloidogenic, nonfibrillar, and nontoxic aggregates without increasing the concentration of monomeric Aβ. Thus, D3 exerts an interesting and novel mechanism of action that abolishes toxic Aβ oligomers and thereby supports their decisive role in AD development and progression.
Bioheat transfer analysis of cryogen spray cooling during laser treatment of port wine stains (2000)

For the PWS morphology and treatment parameters studied, optimal damage distributions were obtained for a 2-ms laser pulse with a 60-ms precooling spurt. Epidermal and vascular morphology as well as laser pulse duration should be taken into account when planning CSC/laser treatment of PWS. Our novel, realistic-morphology modeling technique has significant potential as a tool for optimizing PWS treatment parameters.
Iodine-131 anti-B1 antibody for B-cell lymphoma: an update on the Michigan Phase I experience. (1998)

This update of the Phase I results after 1311 anti-B1 antibody treatment for NHL indicates that CRs can be durable and that survival can be of long duration. This form of therapy for NHL should have increasing application in clinical practice after confirmation of these results in larger multicenter studies.
MER5101, a Novel Aβ1-15:DT Conjugate Vaccine, Generates a Robust Anti-Aβ Antibody Response and Attenuates Aβ Pathology and Cognitive Deficits in APPswe/PS1ΔE9 Transgenic Mice (2013)

Active amyloid-β (Aβ) immunotherapy is under investigation to prevent or treat early Alzheimer's disease (AD). In 2002, a Phase II clinical trial (AN1792) was halted due to meningoencephalitis in ∼6% of the AD patients, possibly caused by a T-cell-mediated immunological response. Thus, generating a vaccine that safely generates high anti-Aβ antibody levels in the elderly is required. In this study, MER5101, a novel conjugate of Aβ1-15 peptide (a B-cell epitope fragment) conjugated to an immunogenic carrier protein, diphtheria toxoid (DT), and formulated in a nanoparticular emulsion-based adjuvant, was administered to 10-month-old APPswe/PS1ΔE9 transgenic (Tg) and wild-type (Wt) mice. High anti-Aβ antibody levels were observed in both vaccinated APPswe/PS1ΔE9 Tg and Wt mice. Antibody isotypes were mainly IgG1 and IgG2b, suggesting a Th2-biased response. Restimulation of splenocytes with the Aβ1-15:DT conjugate resulted in a strong proliferative response, whereas proliferation was absent after restimulation with Aβ1-15 or Aβ1-40/42 peptides, indicating a cellular immune response against DT while avoiding an Aβ-specific T-cell response. Moreover, significant reductions in cerebral Aβ plaque burden, accompanied by attenuated microglial activation and increased synaptic density, were observed in MER5101-vaccinated APPswe/PS1ΔE9 Tg mice compared with Tg adjuvant controls. Last, MER5101-immunized APPswe/PS1ΔE9 Tg mice showed improvement of cognitive deficits in both contextual fear conditioning and the Morris water maze. Our novel, highly immunogenic Aβ conjugate vaccine, MER5101, shows promise for improving Aβ vaccine safety and efficacy and therefore, may be useful for preventing and/or treating early AD.