gebhart/patrepeval huggingface dataset:
Optoelectronic Chip Assembly Process of Optical MCM (2017)

Assembly process reliability for Optical Multi-Chip Modules (MCM) is studied and improved. In the optoelectronic (OE) chip assembly for the Optical MCM, the OE chip with Au stud bump is joined with Sn-Ag-Cu (SAC) soldered in a through-waveguide via on an organic substrate to obtain high optical coupling efficiency. Since solid-liquid diffusion of Au to molten SAC is rapid, and formation of brittle intermetallic compounds such as AuSn4 is observed by an energy-dispersive X-ray analysis, and as a result the temperature and the dwell time for the chip assembly process should minimized. Furthermore, if OE chips are underfilled, resin could infiltrate into the total internal reflection mirror cavity, and it will not reflect anymore. On the other hand, Au - SAC joints are not mechanically stable without underfill because of a large thermal stress from the coefficient of thermal expansion mismatch between the OE chip and the optical waveguide-integrated organic substrate. The issue is solved by using sidefill encapsulation instead of underfill. Appropriate material selection of a high viscosity and high thixotropic index prevented infiltration under the chip. The effect of the sidefill process is verified by simulation and experimental results. The chip assembly with sidefill passes more than 1500 deep thermal cycles from -55 °C to 125 °C.
Structure-activity relationship of glycine betaine analogs on osmotolerance of enteric bacteria (1993)

Bacterial cells have the ability to accumulate compatible solutes within the cytoplasm to maintain their osmolarity above that of the extracellular milieu. Glycine betaine (GB) and its biosynthetic precursor choline (Chol) are the major compatible solutes that bacteria accumulate when osmotically challenged. Different osmotically triggered active transport mechanisms have been identified for GB and Chol. In the present study we examined the bioisosteric replacement of the carboxylic group of GB with sulfonic, phosphonic or benzenesulfonamido groups. The sulfonic acid analog (sulfobetaine, compound 3) showed osmoprotectant activity equivalent to that of GB. In addition, we tested the possibility of utilizing GB/Chol transport systems to deliver cytotoxic analogs of GB into three strains of E. coli that differed in their salt resistance. We found that N1-betainyl-N4-(haloacetyl)sulfanilamides (compounds 17c-e) that are GB analogs containing alkylating side chain within their structures inhibited the bacterial growth of the tested standard and salt sensitive strains of E. coli. We also showed that the (N-methyl-cyclic ammonio)methanesulfonates (compounds 21a-c) are able to block Chol transport system in both the standard and the salt-sensitive E. coli strains used. At the concentration used (0.1 mM), none of the tested compounds showed any significant effect on the salt-resistant strain used.
Biochemical and Mechanistic Basis for the Activity of Nucleoside Analogue Inhibitors of HIV Reverse Transcriptase (2004)

HIV encodes an RNA directed DNA polymerase (reverse transcriptase, RT) that is an essential enzyme in the viral replication cycle. This enzyme catalyzes the synthesis of double stranded proviral DNA from single stranded genomic RNA via a bireactant-biproduct mechanism. The functional enzyme purified from virus particles is a complex consisting of two polypeptides of molecular weight 66,000 and 51,000. Two of the four classes of currently approved anti-HIV drugs, the nucleoside reverse transcriptase inhibitors (NRTIs) and the non-nucleoside reverse transcriptase inhibitors (NNRTIs), act by inhibiting this enzyme. In this review each step of DNA synthesis catalyzed by the RT is described and the mechanism of inhibition of catalysis and termination of DNA synthesis by NRTIs is detailed. The individual steps in the catalytic cycle and the effects that the NRTIs have on them have been examined using transient kinetic analysis. The impact of stereoisomerism and resistance mutations on the rate of NRTI triphosphate incorporation (k(pol)), binding in the catalytic complex (K(d)) and the overall efficiency of incorporation (k(pol)/K(d)) are summarized for lamivudine, coviracil and zalcitabine. The results provide insight into the molecular forces and structural features that make these molecules effective inhibitors.
Metabolic and microstructural alterations in the SLE brain correlate with cognitive impairment (2019)

To address challenges in the diagnosis of cognitive dysfunction (CD) related to systemic lupus erythematosus-associated (SLE-associated) autoimmune mechanisms rather than confounding factors, we employed an integrated approach, using resting-state functional (FDG-PET) and structural (diffusion tensor imaging [DTI]) neuroimaging techniques and cognitive testing, in adult SLE patients with quiescent disease and no history of neuropsychiatric illness. We identified resting hypermetabolism in the sensorimotor cortex, occipital lobe, and temporal lobe of SLE subjects, in addition to validation of previously published resting hypermetabolism in the hippocampus, orbitofrontal cortex, and putamen/GP/thalamus. Regional hypermetabolism demonstrated abnormal interregional metabolic correlations, associated with impaired cognitive performance, and was stable over 15 months. DTI analyses demonstrated 4 clusters of decreased microstructural integrity in white matter tracts adjacent to hypermetabolic regions and significantly diminished connecting tracts in SLE subjects. Decreased microstructural integrity in the parahippocampal gyrus correlated with impaired spatial memory and increased serum titers of DNRAb, a neurotoxic autoantibody associated with neuropsychiatric lupus. These findings of regional hypermetabolism, associated with decreased microstructural integrity and poor cognitive performance and not associated with disease duration, disease activity, medications, or comorbid disease, suggest that this is a reproducible, stable marker for SLE-associated CD that may be may be used for early disease detection and to discriminate between groups, evaluate response to treatment strategies, or assess disease progression.
Modification of a Single Atom Affects the Physical Properties of Double Fluorinated Fmoc-Phe Derivatives (2021)

Supramolecular hydrogels formed by the self-assembly of amino-acid based gelators are receiving increasing attention from the fields of biomedicine and material science. Self-assembled systems exhibit well-ordered functional architectures and unique physicochemical properties. However, the control over the kinetics and mechanical properties of the end-products remains puzzling. A minimal alteration of the chemical environment could cause a significant impact. In this context, we report the effects of modifying the position of a single atom on the properties and kinetics of the self-assembly process. A combination of experimental and computational methods, used to investigate double-fluorinated Fmoc-Phe derivatives, Fmoc-3,4F-Phe and Fmoc-3,5F-Phe, reveals the unique effects of modifying the position of a single fluorine on the self-assembly process, and the physical properties of the product. The presence of significant physical and morphological differences between the two derivatives was verified by molecular-dynamics simulations. Analysis of the spontaneous phase-transition of both building blocks, as well as crystal X-ray diffraction to determine the molecular structure of Fmoc-3,4F-Phe, are in good agreement with known changes in the Phe fluorination pattern and highlight the effect of a single atom position on the self-assembly process. These findings prove that fluorination is an effective strategy to influence supramolecular organization on the nanoscale. Moreover, we believe that a deep understanding of the self-assembly process may provide fundamental insights that will facilitate the development of optimal amino-acid-based low-molecular-weight hydrogelators for a wide range of applications.
Signal-to-Noise Performance of Two Analog Photonic Links Using Different Noise Reduction Techniques (2007)

We demonstrate two analog photonic links that use different noise reduction techniques to achieve high gain and low noise figure without electronic amplification. Both links use a high-power, low-noise master oscillator power amplifier as the optical source, a balanced-bridge dual-output LiNbO <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> Mach-Zehnder modulator with a record low V <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">π</sub> = 1.33 V at 12 GHz, and either one or two high-power rear-illuminated photodetectors. In the first link, both outputs of the quadrature-biased modulator are used to illuminate two photodetectors configured for laser noise cancellation, yielding record high gain (> 17.0 dB) and low noise figure (< 6.9 dB) across the 6-12 GHz band. The second link uses low biasing to maximize the signal-to-noise ratio in one of the two modulator outputs, and thus requires only one photo-detector. This link has lower gain (> 12.7 dB) but also record low noise figure (< 5.7 dB) across this same frequency band.
Hybrid Camera Pose Estimation (2018)

In this paper, we aim to solve the pose estimation problem of calibrated pinhole and generalized cameras w.r.t. a Structure-from-Motion (SfM) model by leveraging both 2D-3D correspondences as well as 2D-2D correspondences. Traditional approaches either focus on the use of 2D-3D matches, known as structure-based pose estimation or solely on 2D-2D matches (structure-less pose estimation). Absolute pose approaches are limited in their performance by the quality of the 3D point triangulations as well as the completeness of the 3D model. Relative pose approaches, on the other hand, while being more accurate, also tend to be far more computationally costly and often return dozens of possible solutions. This work aims to bridge the gap between these two paradigms. We propose a new RANSAC-based approach that automatically chooses the best type of solver to use at each iteration in a data-driven way. The solvers chosen by our RANSAC can range from pure structure-based or structure-less solvers, to any possible combination of hybrid solvers (i.e. using both types of matches) in between. A number of these new hybrid minimal solvers are also presented in this paper. Both synthetic and real data experiments show our approach to be as accurate as structure-less approaches, while staying close to the efficiency of structure-based methods.
Understanding the Mechanism of Action of Poly(amidoamine)s as Endosomolytic Polymers:  Correlation of Physicochemical and Biological Properties (2004)

Bioresponsive poly(amidoamine)s (PAA)s are currently under development as endosomolytic polymers for intracellular delivery of proteins and genes. Here for the first time, small-angle neutron scattering (SANS) is used to systematically investigate the pH-dependent conformational change of an endosomolytic polymer, the PAA ISA 23. The radius of gyration of the ISA23 was determined as a function of pH and counterion, the aim being to correlate changes in polymer conformation with membrane activity assessed using a rat red blood cell haemolysis assay. With decreasing pH, the ISA23 radius of gyration increased to a maximum (R(g) approximately 80 A) around pH = 3, before subsequently decreasing once more. At high pH and therefore high ionic strengths, the polymer is negatively charged and adopts a rather compact structure (R(g) approximately 20 A), presumably with the dissociated carboxylic groups on the exterior of the polymer coil. At low pH, the coil again collapses (R(g) < 20 A), presumably due to the effects of the high ionic strength. It is concluded that the nature of the salt form has no direct bearing on the size of the polymer coil, but it does indirectly determine the prevailing pH and, hence, polymer conformation. Pulsed-gradient spin-echo NMR measurements were in good agreement with the SANS estimates of the radius of gyration, although ISA23 polydispersity does complicate the data interpretation/comparison. These results support the proposed mode of action of PAAs, namely a coil expansion on passing from a neutral pH (extracellular) to an acidic pH (endosomal and lysosomal) environments. The results do, however, suggest that the charge on the polymer shows a closer correlation with the haemolysis activity rather than the polymer conformation.
Polymer-based platform for microfluidic systems (2023)

A method of forming a polymer-based microfluidic system platform using network building blocks selected from a set of interconnectable network building blocks, such as wire, pins, blocks, and interconnects. The selected building blocks are interconnectably assembled and fixedly positioned in precise positions in a mold cavity of a mold frame to construct a three-dimensional model construction of a microfluidic flow path network preferably having meso-scale dimensions. A hardenable liquid, such as poly (dimethylsiloxane) is then introduced into the mold cavity and hardened to form a platform structure as well as to mold the microfluidic flow path network having channels, reservoirs and ports. Pre-fabricated elbows, T's and other joints are used to interconnect various building block elements together. After hardening the liquid the building blocks are removed from the platform structure to make available the channels, cavities and ports within the platform structure. Microdevices may be embedded within the cast polymer-based platform, or bonded to the platform structure subsequent to molding, to create an integrated microfluidic system. In this manner, the new microfluidic platform is versatile and capable of quickly generating prototype systems, and could easily be adapted to a manufacturing setting.
Search for physics beyond the standard model in events with two leptons, jets, and missing transverse momentum in pp collisions at s $$ \sqrt{s} $$ = 8 TeV (2015)

A search is presented for physics beyond the standard model in final states with two opposite-sign same-flavor leptons, jets, and missing transverse momentum. The data sample corresponds to an integrated luminosity of 19.4 fb -1 of proton-proton collisions at s = 8 TeV collected with the CMS detector at the CERN LHC in 2012. The analysis focuses on searches for a kinematic edge in the invariant mass distribution of the oppositesign same-flavor lepton pair and for final states with an on-shell Z boson. The observations are consistent with expectations from standard model processes and are interpreted in terms of upper limits on the production of supersymmetric particles.
GW24-e1813 The evaluation of the efficacy and safety of percutaneous balloon mitral valvuloplasty with left atrial thrombus in application of the thrombolysis and anticoagulation with low dose of urokinase and low molecular weigh theparin (2013)

Objectives To investigate efficacy and safety of thrombolysis and anticoagulation with low dose of urokinase (UK) and low molecular weight heparin (LWMH) in rheumatic mitral stenosis (MS) patients with left atrial thrombus and percutaneous balloon mitral valvuloplasty (PBMV). Methods Combination UK was given one time a day in the dose of 20 million U for 5–7 days as well as 4100 U low molecularweight heparin calcium two once a day in rheumatic heart disease patients with thrombosis of the left atrial appendage before surgery. Drugs were suspended 2–3 days before PBMV. haemorrhage, embolism and heart function were observed during and after operation. Results There were 106 cases with atrial fibrillation and 28 cases with left atrial appendage in 173 patients with PBMV. No serious complications were found during and after operation, such as haemorrhage and embolism. Heart function was significantly improved and 14 patients with atrial fibrillation returned to sinus rhythm after operation. Conclusions Our data suggest that it is effictive and safe of thrombolysis and anticoagulation treatment with low dose of UK and LWMH in rheumatic mitral stenosis patients with left atrial thrombus before PBMV.
Investigation of non-reciprocal magnon propagation using lock-in thermography (2017)

We have investigated the unidirectional spin wave heat conveyer effect in a 200 nm thin yttrium iron garnet (YIG) film using lock-in thermography (LIT). This originates from the non-reciprocal propagation of magnons, which leads to an asymmetric heat transport. To excite the spin waves we use two different respective antenna geometries: a coplanar waveguide (CPW) or a 'microstrip'-like antenna on top of the YIG. By using the CPW and comparing the results for the Damon–Eshbach and the backward volume modes we are able to show that the origin of the asymmetric heat profile are indeed the non-reciprocal spin waves. Using the 'microstrip'-like geometry we can confirm these results and we can even observe a distinct excitation profile along the antenna due to small field inhomogeneities.
The biosynthesis of Caryophyllaceae‐like cyclic peptides in Saponaria vaccaria L. from DNA‐encoded precursors (2011)

Cyclic peptides (CPs) are produced in a very wide range of taxa. Their biosynthesis generally involves either non-ribosomal peptide synthases or ribosome-dependent production of precursor peptides. Plants within the Caryophyllaceae and certain other families produce CPs which generally consist of 5-9 proteinogenic amino acids. The biological roles for these CPs in the plant are not very clear, but many of them have activity in mammalian systems. There is currently very little known about the biosynthesis of CPs in the Caryophyllaceae. A collection of expressed sequence tags from developing seeds of Saponaria vaccaria was investigated for information about CP biosynthesis. This revealed genes that appeared to encode CP precursors which are subsequently cyclized to mature CPs. This was tested and confirmed by the expression of a cDNA encoding a putative precursor of the CP segetalin A in transformed S. vaccaria roots. Similarly, extracts of developing S. vaccaria seeds were shown to catalyze the production of segetalin A from the same putative (synthetic) precursor. Moreover, the presence in S. vaccaria seeds of two segetalins, J [cyclo(FGTHGLPAP)] and K [cyclo(GRVKA)], which was predicted by sequence analysis, was confirmed by liquid chromatography/mass spectrometry. Sequence analysis also predicts the presence of similar CP precursor genes in Dianthus caryophyllus and Citrus spp. The data support the ribosome-dependent biosynthesis of Caryophyllaceae-like CPs in the Caryophyllaceae and Rutaceae.
Esters as Radical Acceptors: β‐NHC‐Borylalkenyl Radicals Induce Lactonization by C−C Bond Formation/Cleavage on Esters (2019)

Substituted propargyl acetates are converted into 4-boryl-2(5H)-furanones upon thermolysis in the presence of an N-heterocyclic carbene borane (NHC-borane) and di-tert-butyl peroxide. The acetyl methyl group is lost during the reaction as methane. Evidence suggests that the reaction proceeds by a sequence of radical events including: 1) addition of an NHC-boryl radical to the triple bond; 2) cyclization of the resultant β-borylalkenyl radical to the ester carbonyl group; 3) β-scission of the so-formed alkoxy radical to provide the 4-boryl-2(5H)-furanone and a methyl radical; and 4) hydrogen abstraction from the NHC-borane to return the initial NHC-boryl radical and methane.
New Approach to the Synthesis of Oligo(nucleoside methanephosphonate)s1 (1996)

A new method of preparation of 5'-O-DMT-(N-protected) nucleoside 3'-O-(methanephosphonofluoridates) 2 and their phosphonylating properties toward alcohols, in particular the 5'-hydroxyl groups of nucleosides (or nucleotides), is presented. Preparation of dinucleoside (3',5')-methanephosphonates 3 in solution and solid-phase synthesis of Me-Oligo 6 demonstrate the potential use of 2 as monomers.
Hydrotherapy and Balneotherapy methods in the treatment of chronic low back pain (2021)

The aim of this study was to investigate the effects of balneotherapy on chronic low back pain. This is a minimized, follow-up study evaluated according to the analysis of intention to treat. The subjects included in the study were 105 patients suffering from chronic low back pain. The control group (n = 53) received the traditional musculoskeletal pain killer treatment, while the target group (n = 52) attended thermal mineral water treatment for 3 weeks for 15 occasions on top of the usual musculoskeletal pain killer treatment. The following parameters were measured before, right after, and 9 weeks after the 3-week therapy: the level of low back pain in rest and the level during activity are tested using the Visual Analog Scale (VAS); specific questionnaire on the back pain (Oswestry); and a questionnaire on quality of life (EuroQual-5D). All of the investigated parameters improved significantly (p < 0.001) in the target group by the end of the treatment compared to the base period, and this improvement was persistent during the follow-up period. There were no significant changes in the measured parameters in the control group. Based on our results, balneotherapy might have favorable impact on the clinical parameters and quality of life of patients suffering from chronic low back pain.
Antifibrinolytic Therapy in Surgery for Adolescent Idiopathic Scoliosis Does the Level 1 Evidence Translate to Practice? (2018)

Intraoperative administration of TXA significantly reduces EBL, %EBL, and cell saver transfused during AIS surgery. After taking operative and surgeon factors into consideration, %EBL was not significantly different between TXA and Amicar groups in the practice setting.
Gait decline while dual-tasking is an early sign of white matter deterioration in middle-aged and older adults (2022)

Loss of white matter integrity (WMI) is associated with gait deficits in middle-aged and older adults. However, these deficits are often only apparent under cognitively demanding situations, such as walking and simultaneously performing a secondary cognitive task. Moreover, evidence suggests that declining executive functions (EF) are linked to gait decline, and their co-occurrence may point to a common underlying pathology, i.e., degeneration of shared brain regions. In this study, we applied diffusion tensor imaging (DTI) and a standardized gait assessment under single- and dual-tasking (DT) conditions (walking and subtracting) in 74 middle-aged and older adults without any significant gait or cognitive impairments to detect subtle WM alterations associated with gait decline under DT conditions. Additionally, the Trail Making Test (TMT) was used to assess EF, classify participants into three groups based on their performance, and examine a possible interaction between gait, EF, and WMI. Gait speed and subtracting speed while dual-tasking correlated significantly with the fractional anisotropy (FA) in the bilateral anterior corona radiata (highest <i>r</i> = 0.51/<i>p</i> < 0.0125 FWE-corrected). Dual-task costs (DTC) of gait speed correlated significantly with FA in widespread pathways, including the corpus callosum, bilateral anterior and superior corona radiata, as well as the left superior longitudinal fasciculus (highest <i>r</i> = -0.47/<i>p</i> < 0.0125 FWE-corrected). EF performance was associated with FA in the left anterior corona radiata (<i>p</i> < 0.05); however, EF did not significantly mediate the effects of WMI on DTC of gait speed. There were no significant correlations between TMT and DTC of gait and subtracting speed, respectively. Our findings indicate that gait decline under DT conditions is associated with widespread WM deterioration even in middle-aged and older adults without any significant gait or cognitive impairments. However, this relationship was not mediated by EF.