gebhart/patrepeval huggingface dataset:
Can <i>in vitro</i> systems capture the characteristic differences between the flexion–extension kinematics of the healthy and TKA knee? (2009)

In vitro systems provide a powerful means to evaluate the efficacy of total knee arthroplasty (TKA) in restoring normal knee kinematics. The Oxford knee rig (OKR) and the robotic knee testing system (RKTS) represent two systems that have been extensively used to study TKA biomechanics. Nonetheless, a frequently asked question is whether in vitro simulations can capture the in vivo behavior of the knee. Here, we compared the flexion-extension kinematics of intact knees and knees after TKA tested on the OKR and RKTS, to results of representative in vivo studies. The goal was to determine if the in vitro systems could capture the key kinematic features of knees in healthy subjects and TKA patients. Results showed that the RKTS and the OKR can replicate the femoral rollback and 'screw home' tibial rotation between 0 degrees and 30 degrees flexion seen in healthy subjects, and the reduced femoral rollback and absence of 'screw home' motion in TKA patients. The RKTS also replicated the overall internally rotated position of the tibia beyond 30 degrees flexion. However, ability of the OKR to replicate the internally rotated position of the knee beyond 30 degrees flexion was inconsistent. These data could aid in validation of new in vitro systems and physiologic interpretations of in vitro results.
Improving cache performance using read-write partitioning (2014)

Cache read misses stall the processor if there are no independent instructions to execute. In contrast, most cache write misses are off the critical path of execution, since writes can be buffered in the cache or the store buffer. With few exceptions, cache lines that serve loads are more critical for performance than cache lines that serve only stores. Unfortunately, traditional cache management mechanisms do not take into account this disparity between read-write criticality. This paper proposes a Read-Write Partitioning (RWP) policy that minimizes read misses by dynamically partitioning the cache into clean and dirty partitions, where partitions grow in size if they are more likely to receive future read requests. We show that exploiting the differences in read-write criticality provides better performance over prior cache management mechanisms. For a single-core system, RWP provides 5% average speedup across the entire SPEC CPU2006 suite, and 14% average speedup for cache-sensitive benchmarks, over the baseline LRU replacement policy. We also show that RWP can perform within 3% of a new yet complex instruction-address-based technique, Read Reference Predictor (RRP), that bypasses cache lines which are unlikely to receive any read requests, while requiring only 5.4% of RRP's state overhead. On a 4-core system, our RWP mechanism improves system throughput by 6% over the baseline and outperforms three other state-of-the-art mechanisms we evaluate.
A facile route to old and new cyclophanes via self-assembly and capture (2016)

Cyclophanes are a venerable class of macrocyclic and/or cage compounds that often feature high strain, unusual conformations and quite surprising properties, many of which are legendary in physical organic chemistry. However, the discovery of new, diverse cyclophanes and derivatives has been hindered by syntheses that are traditionally low-yielding, requiring long reaction times, laborious purification steps and often extreme conditions. Herein, we demonstrate a new self-assembly route to a variety of discrete cyclic and caged disulfide structures, which can then be kinetically captured upon sulfur extrusion at room temperature to give a diversity of new thioether (hetera)cyclophanes in high yield. In addition to the synthesis of novel macrocycles (dimers through hexamers), this process provides an improved route to a known macrobicyclic trithiacyclophane. This technique also enables the facile isolation of a tetrahedral macrotricyclic tetrathiacyclophane in two steps at an ambient temperature.
Selective thromboxane synthetase inhibitors. 2. 3-(1H-Imidazol-1-ylmethyl)-2-methyl-1H-indole-1-propanoic acid and analogs. (1986)

The preparation of a series of 3-(1H-imidazol-1-ylmethyl)-1H-indole-1-alkanoic acids is described. Several compounds were found to be more potent thromboxane synthetase inhibitors than the corresponding analogues lacking an acidic substituent. In the cases examined, compounds had no significant activity against PGI2 synthetase or cyclooxygenase, and introduction of the carboxylic acid substituent led to a reduction in activity against adrenal steroid 11 beta-hydroxylase. Compound 21 strongly inhibited thromboxane formation after iv administration to anesthetized rabbits and oral administration to conscious dogs. The compound had a long duration of action, and marked inhibition of thromboxane production was observed 15 h after oral administration of 1 mg/kg to conscious dogs.
Targeting interferon regulatory factor 5 (IRF5) activation with a peptide inhibitor ameliorates clinical lupus in MRL/lpr mice (2020)

Abstract Systemic lupus erythematosus (SLE) is associated with high levels of inflammatory cytokines as well as increased autoantibodies. Accumulating evidence show that loss and/or inhibition of the transcription factor interferon regulatory factor 5 (Irf5) ameliorates disease severity. Previously, we characterized a peptide inhibitor targeting Irf5 activation in the NZB/W F1 murine model of lupus and showed therapeutic protection when treated before disease onset. Here, we expanded our study to include a clinical treatment arm in the MRL/lpr lupus model after disease onset. 8 week-old MRL/lpr female mice were IP-injected with PBS or inhibitor at a dose of 100ug/mouse/injection on D0, D1, D4, D7 and D14. Proteinuria was monitored weekly; serum auto-antibodies were measured by ANA-HEp-2; anti-dsDNA IgG by ELISA, and kidney pathology was assessed. Blood was collected weekly to examine Irf5 expression and activation in immune cell subsets by imaging flow cytometry. At 8 weeks-old and before treatment, MRL/lpr mice were positive for anti-nuclear antibodies (ANA). At week 17, IgG and IgM staining on HEp-2 cells showed stronger fluorescence intensity in the control group (p=0.0053 for IgG; p&lt;0.0001 for IgM). Serum anti-dsDNA IgG levels were also higher in the control group (782179 ± 337490 U/mL, n=7) as compared to treated (385947 ± 156487 U/mL, n=9). By week 17, 2 out of 9 mice in the control group had died, while all mice in the treated group survived. Proteinuria and body weights remained similar between groups. Data indicate that direct inhibition of murine Irf5 in multiple lupus models (NZB/W F1 and MRL/lpr) ameliorates disease severity. The inhibitor was also well-tolerated supporting the therapeutic utility of IRF5 inhibitors in the clinic.
Device Locks: mutual exclusion for storage area networks (2003)

Device Locks are mechanisms used in distributed environments to facilitate mutual exclusion of shared resources. They can further be used to maintain coherence of data that is cached in several locations. The locks are implemented on the storage devices and accessed with the SCSI device lock command, Dlock. The paper presents the Dlock command and discusses how it can be used as a mutual exclusion device for storage area networks and shared disk file systems. Methods for the recovery of a Dlock held by a failed initiator are also presented. The Dlock command is in the process of being standardized as part of the SCSI 3 specification.
Tissue-Type Plasminogen Activator and Neuroserpin: A Well-Balanced Act in the Nervous System? (2004)

Tissue-type plasmingen activator (tPA) is a highly specific serine proteinase that activates the zymogen plasminogen to the broad-specificity proteinase plasmin. tPA is found in the blood, where its primary function is as a thrombolytic enzyme, as well as in the central nervous system (CNS), where it promotes events associated with synaptic plasticity and cell death in a number of settings, such as cerebral ischemia and seizures. Neuroserpin is a fully inhibitory serine proteinase inhibitor (serpin) that reacts preferentially with tPA, and is located in regions of the brain where either tPA message or tPA protein are also found, suggesting that neuroserpin is the selective inhibitor of tPA in the CNS. There is a growing body of evidence demonstrating the participation of tPA in a number of physiologic and pathologic events in the CNS, and the role of neuroserpin as the natural regulator of tPA's activity in these processes.
Simple (Imidazol-2-ylidene)-Pd-Acetate Complexes as Effective Precatalysts for Sterically Hindered Suzuki−Miyaura Couplings (2005)

[reaction: see text] A simplified synthesis of N-heterocyclic carbene (NHC)Pd-carboxylate complexes and their activity in Suzuki-Miyaura cross-coupling reactions are described. Coupling of sterically hindered aryl and activated alkyl chlorides bearing beta-hydrogens has been successfully achieved.
A New Concept for Camouflage, Concealment, and Deception Using Laminated Paper Glass (LPG) Appliques (1992)

Abstract: This report describes the preliminary development of laminated paper glass (LPG) appliqués as a new hybrid camouflage, concealment, and deception (CCD) technology by the US Anny Engineer Waterways Experiment Station. Since LPG is a composite, the CCD designer can control the fundamental physical (tensile and shear stress) and spectral (emissivity, radar scattering, thermal conductivity) characteristics to his/her advantage. This report includes a brief summary of the evolution of the LPG concept and the description of the potential employment of LPG appliques as a signature manipulation material and as a construction material.
GFRα-2 and GFRα-3 Are Two New Receptors for Ligands of the GDNF Family (1997)

The receptor for glial cell line-derived neurotrophic factor (GDNF) consists of GFRalpha-1 and Ret. Neurturin is a GDNF-related neurotrophin whose receptor is presently unknown. Here we report that neurturin can bind to either GFRalpha-1 or GFRalpha-2, a novel receptor related to GFRalpha-1. Both GFRalpha-1 and GFRalpha-2 mediate neurturin-induced Ret phosphorylation. GDNF can also bind to either GFRalpha-1 or GFRalpha-2, and activate Ret in the presence of either binding receptor. Although both ligands interact with both receptors, cells expressing GFRalpha-1 bind GDNF more efficiently than neurturin, while cells expressing GFRalpha-2 bind neurturin preferentially. Cross-linking and Ret activation data also suggest that while there is cross-talk, GFRalpha-1 is the primary receptor for GDNF and GFRalpha-2 exhibits a preference for neurturin. We have also cloned a cDNA that apparently codes for a third member of the GFRalpha receptor family. This putative receptor, designated GFRalpha-3, is closely related in amino acid sequence and is nearly identical in the spacing of its cysteine residues to both GFRalpha-1 and GFRalpha-2. Analysis of the tissue distribution of GFRalpha-1, GFRalpha-2, GFRalpha-3, and Ret by Northern blot reveals overlapping but distinct patterns of expression. Consistent with a role in GDNF function, the GFRalphas and Ret are expressed in many of the same tissues, suggesting that GFRalphas mediate the action of GDNF family ligands in vivo.
New Silicate Phosphors for a White LED (2006)

We focus on the development of new silicate phosphors for a white LED. In the europium doped silicate system, four LED phosphor candidates-Li 2 SrSiO 4 :Eu 2+ , Ba 9 Sc 2 Si 6 O 24 :Eu 2+ , Ca 3 Si 2 O 7 :Eu 2+ and Ba 2 MgSi 2 O 7 :Eu 2+ were found. Luminescent properties under near UV and visible excitation were investigated for the new Eu 2+ doped LED silicate phosphors. These new phosphors have a relatively strong absorption band in a long wavelength region.
Failure resilience in balanced overlay networks (2003)

The growth of peer-to-peer applications on the Internet has motivated interest in general purpose overlay networks. A basic requirement of an overlay is that it be connected, so that any two peers can communicate, and that it retain connectivity in the presence of node and link failures. In this paper, we use random graphs to model of a class of overlay networks and study their connectivity in the presence of link failures. 1
Human immunodeficiency virus type 1 (HIV-1) strains selected for resistance against the HIV-1-specific [2',5'-bis-O-(tert-butyldimethylsilyl)-3'-spiro- 5''-(4''-amino-1'',2''-oxathiole-2'',2''-dioxide)]-beta-D-pentofurano syl (TSAO) nucleoside analogues retain sensitivity to HIV-1-specific nonnucleoside inhibitors. (1993)

We recently reported that a newly discovered class of nucleoside analogues--[2',5'-bis-O-(tert-butyldimethylsilyl)- 3'-spiro-5''-(4''-amino-1'',2''-oxathiole-2'',2''-dioxide)]-beta-D - pentofuranosyl derivatives of pyrimidines and purines (designated TSAO)--are highly specific inhibitors of human immunodeficiency virus type 1 (HIV-1) and targeted at the nonsubstrate binding site of HIV-1 reverse transcriptase (RT). We now find that HIV-1 strains selected for resistance against three different TSAO nucleoside derivatives retain sensitivity to the other HIV-1-specific nonnucleoside derivatives (tetrahydroimidazo[4,5,1-jk][1,4]benzodiazepin-2(1H)-one and -thione (TIBO), 1-[(2-hydroxyethoxy)methyl]-6-phenylthiothymine, nevirapine, and pyridinone L697,661, as well as to the nucleoside analogues 3'-azido-3'-deoxythymidine, ddI, ddC, and 9-(2-phosphonylmethoxyethyl)adenine. Pol gene nucleotide sequence analysis of the TSAO-resistant and -sensitive HIV-1 strains revealed a single amino acid substitution at position 138 (Glu-->Lys) in the RT of all TSAO-resistant HIV-1 strains. HIV-1 RT in which the Glu-138-->Lys substitution was introduced by site-directed mutagenesis and expressed in Escherichia coli could not be purified because of rapid degradation. However, HIV-1 RT containing the Glu-138-->Arg substitution was stable. It lost its sensitivity to the TSAO nucleosides but not to the other HIV-1-specific RT inhibitors (i.e., TIBO and pyridinone). Our findings point to a specific interaction of the 4''-amino group on the 3'-spiro-substituted ribose moiety of the TSAO nucleosides with the carboxylic acid group of glutamic acid at position 138 of HIV-1 RT.
Dynamic real-time calibration for antenna matching in the transmitting and receiving modes (2011)

In this article, we introduce an effective approach for dynamic impedance tuning of antenna matching circuits in both the transmitting and receiving modes. The tuning problem is described mathematically by a system of two nonlinear equations. These nonlinear equations are constructed by perturbing the tunable components of the matching circuit. We introduce a closed form solution to the proposed system of equations in addition to a numerical one. The outcome of our algorithm is the exact calculation of the instantaneous antenna input impedance. This impedance is then used to determine the optimal matching circuit values. The proposed algorithm takes place on the handset in real-time. Additionally, it does not limit the number of tunable components of the tunable matching circuit as the computational overhead is independent of their cardinality. The proposed approach can also be expanded to the case of real-time broadband tuning of antennas in a dynamic environment. © 2011 Wiley Periodicals, Inc. Int J RF and Microwave CAE, 2012.
Few-Mode Fibers for Mode-Division-Multiplexed Systems (2014)

We describe the design trade-offs that are at stake when optimizing few-mode fibers (FMFs) that support a high number (≥ 6) of LP modes. We particularly detail the design of 6-LPmode fibers that allow to multiply the capacity by a tenfold factor (two modes being spatially non-degenerate and four modes being two times spatially degenerate). For low-differential-mode-groupdelay (low-DMGD) FMFs adapted to strongly-coupled modedivision-multiplexed systems, trench-assisted graded-index-core profiles can be optimized to have Max|DMGD| <;10 ps/km and undesired leaky LP modes appropriately cut off, while all guided LP modes show good robustness (Bend Losses <;10 dB/turn at 10 mm bend radius). Such low-DMGD FMFs being sensitive to process variability, we show how fiber concatenations can efficiently compensate for this issue and that values <;25 ps/km can realistically be reached. For weakly-coupled FMFs adapted to weakly-coupled mode-division-multiplexed systems, step-index-core profiles can be optimized to have large effective index differences, Δn <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">eff</sub> , between the LP modes (Min|Δn <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">eff</sub> | >1.0 × 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-3</sup> ) to limit mode coupling and A <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">eff</sub> >~100 μm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> to limit intra-mode non-linearity with good mode robustness. For such weakly-coupled FMFs, sensitivity to process variability is small and main characteristics do not significantly change when variations are within the manufacturing tolerances. We also briefly discuss experimental validations.
Lunar resources: Oxygen from rocks and soil (1992)

The first set of hydrogen reduction experiments to use actual lunar material was recently completed. The sample, 70035, is a coarse-grained vesicular basalt containing 18.46 wt. percent FeO and 12.97 wt. percent TiO2. The mineralogy includes pyroxene, ilmenite, plagioclase, and minor olivine. The sample was crushed to a grain size of less than 500 microns. The crushed basalt was reduced with hydrogen in seven tests at temperatures of 900-1050 C and pressures of 1-10 atm for 30-60 minutes. A capacitance probe, measuring the dew point of the gas stream, was used to follow reaction progress. Experiments were also conducted using a terrestrial basalt similar to some lunar mare samples. Minnesota Lunar Simulant (MLS-1) contains 13.29 wt. percent FeO, 2.96 wt. percent Fe2O3, and 6.56 wt. percent TiO2. The major minerals include plagioclase, pyroxene, olivine, ilmenite, and magnetite. The rock was ground and seived, and experiments were run on the less than 74- and 500-1168-micron fractions. Experiments were also conducted on less than 74-micron powders of olivine, pyroxene, synthetic ilmenite, and TiO2. The terrestrial rock and mineral samples were reduced with flowing hydrogen at 1100 C in a microbalance furnace, with reaction progress monitored by weight loss. Experiments were run at atmospheric pressure for durations of 3-4 hr. Solid samples from both sets of experiments were analyzed by Mossbauer spectroscopy, petrographic microscopy, scanning electron microscopy, tunneling electron microscopy, and x-ray diffraction. Apollo 17 soil 78221 was examined for evidence of natural reduction in the lunar environment. This sample was chosen based on its high maturity level (I sub s/FeO = 93.0). The FeO content is 11.68 wt. percent and the TiO2 content is 3.84 wt. percent. A polished thin section of the 90-150 micron size fraction was analyzed by petrographic microscopy and scanning electron microscopy.
Bioorthogonal Cleavage and Exchange of Major Histocompatibility Complex Ligands by Employing Azobenzene‐Containing Peptides (2014)

Bioorthogonal cleavable linkers are attractive building blocks for compounds that can be manipulated to study biological and cellular processes. Sodium dithionite sensitive azobenzene-containing (Abc) peptides were applied for the temporary stabilization of recombinant MHC complexes, which can then be employed to generate libraries of MHC tetramers after exchange with a novel epitope. This technology represents an important tool for high-throughput studies of disease-specific T cell responses.
Advances in Development of Titanium Alloys for Spinal Fixation Applications-Titanium Alloys with High Fatigue Strength and Low Springback for Spinal Fixation Applications- (2013)

The fatigue strength of the newly developed β-type titanium alloy Ti-29Nb-13Ta-4.6Zr (referred to as TNTZ) is important for its applications in spinal fixation rods. Enhancements in the fatigue strength of TNTZ upon solution treatmnet and thermo-mechanical processing (aging after severe cold-caliber rolling or sever cold-swaging) have been investigated. Aging the rods at 723 K for 259.2 ks after cold-swaging is shown to be the optimal thermo-mechanical processing method for the TNTZ rod , yeilding a high 0.2% proof stress of about 1200 MPa, high elongation of 18%, and high fatigue strength of 950 MPa. High springback is undesirable for application of TNTZ spinal-fixation rods. To reduce springback, a High Youngs modulus is required; on the other hand, a low Youngs modulus is beneficial to reduce bone absorption and obtain good bone remodeling. To achieve a balance between these two factors, TNTZ has been modified by adding Cr to obtain an alloy with a high Youngs modulus at the deformed region and a low Youngs modulus throughout the undeformed region. TNTZ-8Ti-2Cr and TNTZ-16Ti-4Cr are novel alloys whose β phase is more stable than that of TNTZ. Only the β phase is present in these alloys, which exhibit relatively low Youngs moduli of <65 GPa after solution treatment, and higher Youngs moduli after cold rolling, owing to a deformation-induced ω-phase transformation. These modified TNTZ alloys show significantly less springback than the original TNTZ, based on tensile and loadingunloading bending tests.
Downhole Fluid Analysis and Asphaltene Nanoscience Coupled with VIT for Risk Reduction in Black Oil Production (2012)

Abstract It has long been recognized that condensates can exhibit large compositional gradients. It is increasingly recognized that black oil columns can also exhibit substantial gradients. Moreover, significant advances in asphaltene science have provided the framework for modeling these gradients. For effective field development planning, it is important to understand possible variations in the oil column. These developments in petroleum science are being coupled with the new technology of downhole fluid analysis (DFA) to mitigate risk in oil production. In this case study, DFA measurements revealed a large (10×) gradient of asphaltenes in a 100-m black oil column, with a corresponding large viscosity gradient. This asphaltene gradient was traced to the colloidal description of the asphaltenes, which yielded two conclusions: the asphaltenes are vertically equilibrated, consequently vertical connectivity is indicated, and the asphaltenes are partially destabilized. Vertical interference testing (VIT) was performed at several depths and confirmed the vertical connectivity of the oil column, with four of the five tests showing unambiguous vertical connectivity consistent with the overall connectivity implied by DFA. Geochemical analysis indicates that the instability was due to some late gas and condensate entry into the reservoir. For mitigation of production risk, flow assurance studies were performed and showed that while the asphaltenes are indeed partially destabilized, there is no significant associated problem. Moreover, thin sections of core were analyzed to detect possible bitumen. A very small quantity of bitumen was found, again confirming the asphaltene analysis; however, geochemical studies and flow assurance studies confirmed that this small amount of bitumen is not expected to create any reservoir issues. Using new science and new technology to identify and minimize risk in oil production in combination with pressure transients addressed reservoir connectivity and provided a robust, positive assessment.