gebhart/patrepeval huggingface dataset:
Understanding LRRK2 kinase activity in preclinical models and human subjects through quantitative analysis of LRRK2 and pRab10 (2021)

Abstract Variants in the leucine-rich repeat kinase 2 ( LRRK2 ) gene are associated with increased risk for familial and sporadic Parkinson’s disease (PD). Pathogenic variants in LRRK2, including the common variant G2019S, result in increased LRRK2 kinase activity, supporting the therapeutic potential of LRRK2 kinase inhibitors for PD. To better understand the role of LRRK2 in disease and to support the clinical development of LRRK2 inhibitors, quantitative and high-throughput assays to measure LRRK2 levels and activity are needed. We developed and applied such assays to measure the levels of LRRK2 as well as the phosphorylation of LRRK2 itself or one of its substrates, Rab10 (pT73 Rab10). We observed increased LRRK2 activity in various cellular models of disease, including iPSC-derived microglia, as well as in human subjects carrying disease-linked variant in LRRK2 (G2019S). Capitalizing on the high-throughput and sensitive nature of these assays, we detected a significant reduction in LRRK2 activity in subjects carrying missense variants in LRRK2 associated with reduced disease risk. Finally, we optimized these assays to enable analysis of LRRK2 activity following inhibition in human peripheral blood mononuclear cells (PBMCs) and whole blood, demonstrating their potential utility as biomarkers to assess changes in LRRK2 expression and activity in the clinic.
Visualizing And Quantifying the Residual Phase Distribution In Core Material (2009)

At the conclusion of flooding in an oil-or gas-bearing reservoir, a significant fraction of the original hydrocarbon in place remains in the swept region as trapped residual phase.In addition to the amount of trapped phase, its microscopic distribution within the pore space of a reservoir rock is important to gain a better understanding of recovery mechanisms and for the design and implementation of tertiary recovery processes.Despite the importance of the pore scale structure and distribution of residual oil, little quantitative information is currently available.We utilize a technique for imaging the pore-scale distribution of fluids in reservoir cores.The method allows the same core to be imaged after flooding under different wettability conditions, saturation states and flooding rates.Secondary and tertiary floods can be considered.Recovery mechanisms can be directly tested and the differences in the habitat of the residual fluids under different conditions can be directly quantified.We present results for imbibition experiments on a number of sandstone and reservoir carbonate samples of varying complexity.The role of rate, wettability and initial water saturation on residual phase saturations are given.The detailed structure of the residual trapped phase is described; the size distributions of residual oil blobs, features of blob shape and dimensions are enumerated and compared under variable flooding conditions.These results provide an important platform for both the understanding of pore scale displacement mechanisms and for the testing and calibration of image and network-based models of multiphase flow.
A high-q all-fused silica solid-stem wineglass hemispherical resonator formed using micro blow torching and welding (2015)

We report a new fabrication technology for making fused silica (FS) wineglass resonators with arbitrarily sized FS solid stems through a simultaneous process of micro blow-torching and microwelding. The process allows the welding of multiple FS structures at controlled locations during blow torching. We demonstrate a new micro FS wineglass resonator with high quality factor (Q) and long ring down time (τ). The resonator is formed by blow torching and flowing a thin FS substrate using vacuum to form the resonator shell, and by welding the shell to a solid post at a controlled location. The flowing of the shell and welding to the rod is performed in one step and in a single mold. This solid-stem resonator offers low anchor loss due to the large stem length/stiffness, and small shell rim thickness. The device has a shell radius/height of ∼2.8 mm, and a stem radius of 0.5 mm. At <10 µTorr vacuum, the n=2 wineglass mode, located at a frequency (f) of 22.6 kHz, has σ = 35.9 s and Q = 2.55 million.
Effect of Recombinant Human Granulocyte Colony-Stimulating Factor on Combination Therapy with Aztreonam and Clindamycin for Infections in Neutropenic Patients with Hematologic Diseases (1996)

The present multicenter study was performed to evaluate the effect of recombinant human granulocyte-colony stimulating factor (rhG-CSF) on combination therapy using aztreonam (AZT) and clindamycin (CLDM) to treat severe infection in neutropenic patients with hematologic diseases. Forty-three neutropenic patients with infections (rhG-CSF group) were treated with AZT (2 g) and CLDM (600 mg) 2-3 times daily as well as rhG-CSF (Lenograstim or Filgrastim: 2-5 mu/kg/day). The clinical efficacy of this regimen was compared to that obtained in 44 febrile neutropenic patients, with hematologic diseases, who received only AZT and CLDM in a previous study (historical control group). The overall efficacy rate was 69.8% (30/43) in the rhG-CSF group and 65.9% (29/44) in the historical control group. Although the neutrophil count was significantly increased and C-reactive protein tended to be lower in the rhG-CSF group, the daily maximum body temperature profiles of the 2 groups were nearly the same. These results suggest that rhG-CSF is of little benefit in the treatment of single infectious episodes in neutropenic patients, and that appropriate antibiotic therapy is more important.
Formal Specification Based Automatic Test Generation for Embedded Network Systems (2014)

Embedded systems have become increasingly connected and communicate with each other, forming large-scaled and complicated network systems. To make their design and testing more reliable and robust, this paper proposes a formal specification language called SENS and a SENS -based automatic test generation tool called TGSENS . Our approach is summarized as follows: (1) A user describes requirements of target embedded network systems by logical property-based constraints using SENS . (2) Given SENS specifications, test cases are automatically generated using a SAT-based solver. Filtering mechanisms to select efficient test cases are also available in our tool. (3) In addition, given a testing goal by the user, test sequences are automatically extracted from exhaustive test cases. We’ve implemented our approach and conducted several experiments on practical case studies. Through the experiments, we confirmed the efficiency of our approach in design and test generation of real embedded air-conditioning network systems.
Determination of Ultratrace Indium in Water Sample by Electrothermal Atomic Absorption Spectrometry after Preconcentration with Solvent Extraction and Back Extraction (1999)

Abstract A method for the determination of indium at ng dm−3 levels in water sample is described. Indium is extracted into carbon tetrachloride as an ion pair of (5-sulfo-8-quinolinolato) indate(III) anion with tetradecyldimethylbenzylammonium chloride, and subsequently back-extracted into 0.3 cm3 of a nitric acid solution. The back-extracted solution, containing 100 μg cm−3 of palladium as a matrix modifier, is suitable for the determination of indium by electrothermal atomic absorption spectrometry. The extraction behavior of the ion associate was also compared with that of the 8-quinolinolato complex. The detection limit (3σ) for indium is 0.28 ng dm−3, based on a 2000-fold preconcentration. The proposed method is applicable to the determination of indium at ng dm−3 levels in water sample.
Microbial Dysbiosis in Colorectal Cancer (CRC) Patients (2011)

This is the first large series to demonstrate a composition change in the microbiota of colon cancer patients with possible impact on mucosal immune response. These data open new filed for mass screening and pathophysiology investigations.
Rearrangements in the 11-Thia-9,10-dihydro-9,10-ethanoanthracene Series. Synthesis of a Bridged Thienooxepin (1999)

A rearrangement from 11-thia-9,10-dihydro-9,10-ethanoanthracene derivatives into a thienooxepin is reported; the structure of the bridged oxepin is confirmed by X-ray analysis.
Crossover from Weak to Strong Localization in Quasi-One-Dimensional Conductors (1997)

The crossover from weak to strong localization in the resistance of quasi-1D conductors is observed for the first time with decreasing the temperature; it occurs when the phase-breaking length becomes comparable with the localization length. The signature of the strong-localization regime is an activation-type temperature dependence of the resistance and exponentially strong negative magnetoresistance. The magnetoresistance is well described by the theory of doubling of the localization length in quasi-1D conductors in strong fields; this provides a direct measurement of the localization length.
Scattering and mode conversion by a penetrable cylinder in an asymmetric slab waveguide (2002)

Discontinuity problems in open dielectric waveguide are essential in the design of various optical and millimetre wave components. The two-dimensional problem of dielectric slab eigenmode scattering from a penetrable body immersed into a stratified medium is solved by the numerical method based on the surface potentials approach. The original scattering problem is formulated in terms of a set of boundary integral equations. The layered geometry of the host medium is taken into account in the kernels of the integral equation by using the Green's functions of the corresponding boundary problem. The Euler method is used to improve the convergence of Sommerfeld-type integrals that are contained in the expressions for the Green's functions. Some illustrative numerical results are presented.
[Straight femoral taper in cementless primary total hip replacement in less than 65 year-old patients: multicenter study of 115 consecutive implantations at mean 8,2 year follow-up]. (2001)

Press-fitting but not filling the femoral canal with rough titanium straight tapers like the Alloclassic-SL femoral component represent a promising alternative to modern femoral cementing technique in primary THA. Improvement is expected through the use of more wear resistant bearing surfaces.
GENETIC ANALYSIS OF METABOLIC SYNDROME IN RATS (2004)

Wssatanabe, T.1; Liang, Y.-Q.1; Inomata, H.1; Yanai, K.1; Yazaki, Y.1; Sasazuki, T.1; Kato, N.1; lizuka, Y.2; Gotoda, T.3; Isobe, M.4 Author Information
Use of boundary-condition wavefunctions for bound states, continuum states, and resonances (1974)

Supplementing the Schrodinger equation with (artificial) boundary conditions in the traditional manner selects discrete scattering energies and alters bound-state wavefunctions. Two examples of single-channel scattering, electron-He+(1s) and neutral particle-soft shell, illustrate the dependence of phase shifts and bound states upon boundary condition. Comparison of nodal and antinodal boundary conditions tests the termination error of bound-state computations and locates the positions of scattering resonances.
Group Key Agreement for Mobile Devices in Different Cells (2005)

Mobile communication has become more pervasive and it is considered as one of main concerns oi conferencing, multi-user games and etc. in mobile environment. These applications need to secure communication in group. Most of the published protocols are based on model which consists of a stationary base station and a cluster of mobile devices. In this paper, we have focused on the extended model of which participants are several base stations and mobile devices in different cells. We present a new group key protocol among mobile devices in different cells and analyze its security And we also look at how password authentication can be used to our group key agreement protocol. The mobile device's computing load may be reduced by using password authentication.
Evaluation of an injectable hyaluronan hydrogel for cartilage regeneration (2009)

The extracellular matrix is (ECM) is a network of large, structural proteins and polysaccharides, important for cellular behavior, tissue development and maintenance. Present thesis describes work exploring ECM as scaffolds for tissue engineering by manipulating cells cultured in vitro or by influencing ECM expression in vivo. By culturing cells on polymer meshes under dynamic culture conditions, deposition of a complex ECM could be achieved, but with low yields. Since the major part of synthesized ECM diffused into the medium the rate limiting step of deposition was investigated. This quantitative analysis showed that the real rate limiting factor is the low proportion of new proteins which are deposited as functional ECM. It is suggested that cells are pre-embedded in for example collagen gels to increase the steric retention and hence functional deposition. The possibility to induce endogenous ECM formation and tissue regeneration by implantation of growth factors in a carrier material was investigated. Bone morphogenetic protein-2 (BMP-2) is a growth factor known to be involved in growth and differentiation of bone and cartilage tissue. The BMP-2 processing and secretion was examined in two cell systems representing endochondral (chondrocytes) and intramembranous (mesenchymal stem cells) bone formation. It was discovered that chondrocytes are more efficient in producing BMP-2 compared to MSC. The role of the antagonist noggin was also investigated and was found to affect the stability of BMP-2 and modulate its effect. Finally, an injectable gel of the ECM component hyaluronan has been evaluated as delivery vehicle in cartilage regeneration. The hyaluronan hydrogel system showed promising results as a versatile biomaterial for cartilage regeneration, could easily be placed intraarticulary and can be used for both cell based and cell free therapies.
On‐line computerized diagnosis of pain‐related disability and psychological status of TMD patients: a pilot study (2001)

Temporomandibular disorders (TMD) is a collective term embracing a number of clinical problems, which involve the masticatory musculature, the temporomandibular joint or both. Virtually all theories dealing with the aetiology and treatment of TMD have recognized the importance of psychological factors. This paper reports the development of a computerized on-line program (NUS TMD v1.1) for the diagnosis of pain-related disability and psychological status of TMD patients based on Axis II of the research diagnostic criteria (RDC)/TMD (Dworkin, S.F. & LeResche, L. 1992. Journal of Craniomandibular Disorders: Facial Oral Pain, 6, 301), which was developed to redress the lack of diagnostic criteria in TMD research. Methods adopted by RDC/TMD for use in assessing Axis II status include a seven-item questionnaire for grading chronic pain severity, the Symptom Checklist 90 Revised (SCL-90-R) and a jaw disability checklist. A pilot study, based on 37 new TMD patient records, was conducted to study the pain-related disability and psychological status of TMD patients using this newly developed program. The mean age of the predominantly Chinese population (86.5%) was 32.19 years (range 20-72 years) with a sex distribution of 24 females and 13 males. Most patients (78%) had low disability, with 12 patients having low intensity and 17 patients having high intensity pain. Approximately 73% of the sample population were moderately or severely depressed. Patients that were moderately and severely depressed had significantly higher scores for limitation related to mandibular functioning than normal patients. The three most frequent jaw disabilities were: eating hard foods (84%), yawning (78%) and chewing (65%).
X-ray Rietveld Analysis with a Physically Based Background (1995)

On the basis of known equations for calculating X-ray diffraction intensities from a given number of unit cells of a crystal phase in polycrystalline material, as due to: (i) Bragg reflections; (ii) average diffuse scattering caused by thermal plus first-kind disorder; and (iii) incoherent scattering, a relationship has been found that ties, in the Rietveld analysis, the Bragg scale factor to a scale factor for `disorder' as well as incoherent scattering. Instead of fitting the background with a polynomial function, it becomes possible to describe the background by physically based equations. Air scattering is included in the background simulation. By this means, the refinement can be carried out with fewer parameters (six fewer than when a fifth-order polynomial is used). The DBWS-9006PC computer program written by Sakthivel & Young [(1990), Georgia Institute of Technology, Atlanta, GA, USA] has been modified to follow this approach and it has been used to refine the crystal structures of the cubic form of Y2O3 and of α-Al2O3. Peak asymmetry has been described by a function based on an exponential approximation. The results from refinements using polynomial physically based background function are, in terms of final structural parameters and reliability indices, very close to each other and in agreement with results reported in the literature. The reconstruction and optimization of the background scattering by means of physically based equations helps the implementation in the Rietveld code of other possible specific diffuse scattering contributions, such as that due to an amorphous phase.
Reflection in interaction (2007)

A decision delay can translate into significant financial and business losses. One way to accelerate the decision process is through improved communication among the stakeholders engaged in the project. Capturing, transferring, managing, and reusing data, information, and knowledge in the context it is generated can lead to higher productivity, effective communication, reduced number of requests for clarification, and a shorter time-to-market cycle. We formalized the concept of reflection in interaction during communicative events among multiple project stakeholders. This concept extends Donald Schon’s theory of reflection in action of a single practitioner. We model the observed reflection in interaction with a prototype system called TalkingPaperTM. It is a ubiquitous client-server collaborative environment that facilitates knowledge capture, sharing, and reuse during synchronous and asynchronous communicative events. TalkingPaperTM bridges the paper and digital worlds. It transforms the analog verbal discours, annotated paper corporate documents, and the paper and pencil sketches into indexed and synchronized digital content that is published on and streamed on-demand from a TalkingPaperTM web server. The TalkingPaperTM sessions can be accessed by all stakeholders for rapid knowledge sharing and decision-making.
ChemInform Abstract: MAGNETIC STRUCTURES AND PROPERTIES OF V(1‐T)CR(T)AS (1975)

Abstract Das pseudo‐binäre System VAs‐CrAs wird röntgenographisch sowie durch Messungen der Neutronenbeugung und der magnetischen Suszeptibilität untersucht.
<title>Feasibility of data fusion techniques applied to rotorcraft transmission diagnostics</title> (1993)

This paper addresses the feasibility of applying data fusion techniques to resolve the sensitivity versus false alarm dilemma of rotorcraft transmission diagnostics. Traditionally, data fusion techniques have been applied almost exclusively to automatic target recognition problems, but the processing concepts are well-suited to address complex machine diagnostics and prognostics. Processing methods such as data alignment and association, hierarchical inferencing, situation assessment, threat assessment, time predictions, sensor management, and human-computer interface are common to both automatic target recognition and transmission diagnostics. The benefits of this approach include: (1) improved decision support, (2) reduced false alarm rates, (3) improved mission effectiveness, and (4) enhanced safety.
Chromane helicity rule – scope and challenges based on an ECD study of various trolox derivatives (2014)

The validity of the chromane helicity rule correlating the sense of twist within the dihydropyran ring with the CD sign of the (1)Lb band observed at ca. 290 nm in their electronic circular dichroism (ECD) spectra is examined using a set of natural (S)-trolox derivatives. To investigate both the scope and the limitations of the rule a combination of ECD spectroscopy, especially the temperature dependence of the ECD spectra, single crystal X-ray diffraction analyses, and density functional theory (DFT) calculations was used. A thorough conformational analysis supported by the X-ray data led to the identification of predominant conformers. Then, a comparison of the experimental ECD spectra with the spectra simulated by TDDFT calculations allowed for a reasonable interpretation of the accumulated data. The results clearly indicated that to avoid the possibility of erroneous conclusions the chromane helicity rule should be used with great caution. This is likely related to the conformational flexibility of tested compounds by which conformers of different helicities can be produced. Therefore, based on the results presented here, it is strongly recommended that the conclusions derived from analysis of experimental data are supported with the appropriate theoretical computations.