gebhart/patrepeval huggingface dataset:
Phase 1/2 study of the novel SUMOylation inhibitor TAK-981 in adult patients (pts) with advanced or metastatic solid tumors or relapsed/refractory (RR) hematologic malignancies. (2021)

TPS2667 Background: SUMOylation, a posttranslational modification analogous to ubiquitination, attaches a small, ubiquitin-like modifier (SUMO) to target proteins. SUMOylation plays a central role in regulating type I interferon (IFN-I)-dependent innate response and functions to constrain the innate immune response, which can impair tumor immune surveillance. TAK-981 is a first-in-class, small-molecule inhibitor of SUMO-activating enzyme subunit 2 (SAE2). Inhibition of SAE2 by TAK-981 disrupts SUMOylation, thereby allowing innate immune system activation. In ex vivo assays, TAK-981 increased phagocytic activity of monocyte-derived macrophages, increased natural killer cell cytotoxicity, and induced markers of dendritic cell activation and maturation via IFN-I signaling. In syngeneic mouse models, TAK-981 resulted in antitumor activity, including complete remissions, and a sustained, protective antitumor immune response. Methods: This first-in-human study of single-agent TAK-981 comprises two parts. Phase 1 primary objectives are to determine safety and tolerability, and to select a recommended phase 2 dose (RP2D); secondary objectives are to assess preliminary antitumor activity, characterize pharmacokinetics (PK), and explore pharmacodynamic (PD) biomarkers. This phase will enroll ̃70 pts with untreatable locally advanced or metastatic solid tumors or RR lymphoma. The phase 2 primary objective is to evaluate preliminary efficacy at the RP2D in ̃132 pts with non-squamous non-small cell lung cancer, cervical cancer, microsatellite-stable colorectal cancer, or CD20+ RR diffuse large B-cell lymphoma or follicular lymphoma. Pts receive TAK-981 via a 1-hour intravenous infusion on days 1, 4, 8, and 11 in 21-day cycles until unacceptable toxicity, pt withdrawal, or death. Dose escalation is proceeding from 3 mg, guided by an adaptive 3+3 design combined with Bayesian logistic regression modelling with overdose control, plus consideration of other safety, clinical, PK, and PD data. The RP2D will be based on the maximum tolerated dose (MTD) or on a biologically effective dose (BED) that is ≤MTD. The BED is defined as a dose at which there is evidence of drug-target engagement and inhibition of SUMOylation, plus: induction of cytokines/chemokines and/or IFN-I signature in tumor or blood; evidence of increased T cell infiltration in tumor; or antitumor activity. PK/PD modeling in the BED range is ongoing and will be used in RP2D determination. Clinical trial information: NCT03648372.
Rapid Antibiotic Susceptibility Analysis Using Microscopy and Machine Learning (2020)

Here we present machine learning-based approach to automatic classify live and dead bacteria that can be used for rapid search for optimal antibiotics in case of bacterial infections. The patients must be promptly administered a most efficient medication because all delays significantly increase morbidity and mortality. We engineered a new technology allowing us to efficiently and rapidly capture bacterial cells from different biological samples and proceed with a rapid antibiotic susceptibility testing thereby bypassing the need to culture the bacterium. We developed a new machine learning and microscopy-based approach for rapid assessment of bacterial viability following tests with antibiotics. Also, we created a labeled dataset with ~100 images of live and dead bacteria stained with DAPI (DNA; blue) and FM4-64 (membrane; red) either treated with an antibiotic or untreated. We analyzed wild type (WT) and ampicillin-resistant (ampR) E. coli, WT and ampR S. aureus, and B. subtilis. For antibiotic susceptibility testing we used ampicillin, chloramphenicol and erythromycin. We extracted information about red and blue channels from the images and tried two machine learning classifiers for rapid assessment of viability of the bacteria. The classifiers Random Forest and J48 Decision Tree demonstrated precision 90.7% and 96%, recall 94.4% and 100%, and F-measure 92.5% and 95.2%, correspondingly, on 10-fold cross-validation.
Effect of Brimonidine Tartrate on Ocular Hemodynamics in Healthy Volunteers (2001)

While alpha2-adrenergic agonists, such as brimonidine tartrate, significantly reduce the intraocular pressure (IOP), the presence of vasoconstrictor postsynaptic alpha2 receptors on vascular smooth muscle raise the possibility that brimonidine could potentially compromise ocular blood flow. Consequently, the ocular hemodynamic effects of brimonidine were studied in normal subjects. Twelve healthy volunteers were included in this prospective, double-masked, placebo controlled, crossover-designed clinical trial. They received either brimonidine tartrate 0.2% or placebo b.i.d. for 2 weeks. Goldmann tonometry and color Doppler imaging (CDI) were performed at baseline, at 2 hr, 1 week, and 2 weeks after the treatment. Fundus angiography using a scanning laser ophthalmoscope was performed at baseline and 2 weeks after treatment to determine retinal arteriovenous passage time. Brimonidine lowered IOP at 2 hr, 1 week, and 2 weeks (p = 0.058, p = 0.031, and p = 0.022, respectively). Brimonidine did not affect the retrobulbar arterial velocities measured by CDI, nor retinal arteriovenous passage time. In conclusion, two-week treatment with brimonidine reduces IOP and does not reduce the bulk retinal or retrobulbar arterial perfusion in young healthy volunteers.
WAVE CURRENT INTERACTION (1990)

The contribution to the load on offshore structures from the design current is very significant. Research related to the determination of wave current interaction is therefore important. The paper discusses - which combination of wave conditions and current should be used in the design - influence of current on wave spectra - incorporation of current in the Morison formula for calculation of forces on slender offshore structures - wave-current kinematic models for the wave crest - higher order nonlinear resonance effects caused by wave-current interaction - effect on the loading and response of structures by introducing current.
Simultaneous actuator and sensor fault reconstruction of singular delayed linear parameter varying systems in the presence of unknown time varying delays and inexact parameters (2022)

Summary In this article, robust fault diagnosis of a class of singular delayed linear parameter varying systems is considered. The considered system has delayed dynamics with unknown time varying delays and also it is affected by noise, disturbance and faults in both actuators and sensors. Moreover, in addition to the aforementioned unknown inputs and uncertainty, another source of uncertainty related to inexact measures of the scheduling parameters is present in the system. Making use of the descriptor system approach, sensor faults in the system are added as additional states into the original state vector to obtain an augmented system. Then, by designing a suitable proportional double integral unknown input observer (PDIUIO), the states, actuator, and sensor faults are estimated. The uncertainty due to the mismatch between the inexact parameters that schedule the observer and the real parameters that schedule the original system is formulated with an uncertain system approach. In the PDIUIO, the uncertainty induced by unknown inputs (disturbance, noise and actuator, and sensor faults), unknown delays, and inexact parameter measures are attenuated in H ∞ sense with different weights. The constraints regarding the existence and the robust stability of the designed PDIUIO are formulated using linear matrix inequalities. The efficiency of the proposed method is verified using an application example based on an electrical circuit.
Fractionation of soybean isolate with carbon dioxide (1999)

The potential of using volatile electrolytes for the fractionation of complex protein mixtures has been explored. The various protein fractions naturally found in soybeans have been concentrated in both batch and semi-continuous single stage processes. Glycinin and beta-conglycinin, the major protein fractions in soybeans, were isolated as precipitates (respectively, 95% and 85%) by carbon dioxide acidification and without the need for additional salts. The total protein yield was greater than 94%. A 1 litre stirred autoclave was used to model the batch precipitation of soybean protein with carbon dioxide from solution. The vessel head space was pressurised with carbon dioxide to a specific pressure in order to induce protein precipitation. The process was also extended to semi-continuous operation by performing both the solution acidification and precipitate separation in a bucket centrifuge. The purity of protein fraction was dependent on the initial protein concentration. Higher protein concentrations enabled purer beta-conglycinin fractions to be precipitated, yet resulted in less efficient settling of the glycinin fraction. Higher temperatures increased the rate of glycinin settling and allowed precipitates rich in this fraction to be collected. The use of a volatile electrolyte also prevented both pH overshoot and the large pH gradients that occur in the localised regions close to the acid addition port in conventional precipitation vessels.
Moveout analysis by time‐warping (2009)

The ideal moveout analysis should be dense, azimuth‐dependent, and nonhyperbolic. Semblance‐based methods are an inefficient approach to obtain such a model. We propose an inversion approach to moveout parameter estimation using automatic flattening of common midpoint (CMP) gathers. In contrast to semblance‐based moveout analysis, we directly measure local slopes to obtain event geometries, rather than search for the best‐fit surfaces through parameter scanning. We use plane‐wave destruction filters to automatically measure local slopes throughout a CMP gather. These slopes are used to predict traveltime surfaces, which are then warped until by a non‐physical flattening method. By applying the same warping to a time attribute volume, the shifts in time‐squared needed to flatten each event can be computed. From these shifts, best‐fit physical parameters of any type of moveout curve can be found using a linear or non‐linear least‐squares fitting scheme.
EEG ocular artifact removal through ARMAX model system identification using extended least squares (2003)

The removal of ocular artifact from scalp electroencephalograms (EEGs) is of considerable importance for both the automated and visual analysis of underlying brainwave activity. Traditionally, subtraction techniques use linear regression to estimate the influence of eye movements on the electrodes of interest. These methods are based on the assumption that the underlying brainwave activity is uncorrelated when, in general, it is not. Furthermore, regression methods assume that the ocular artifact propagation is frequency independent, i.e. all waveforms of the ocular artifact propagate similarly. In this paper, we examine relaxing these assumptions by using a more general autoregressive (AR) moving average (MA) exogenous (X) model and the extended least squares (ELS) algorithm to remove ocular artifact. We demonstrate that in some cases this general ARMAX model can decrease ocular artifact not removable by standard regression techniques. We also show that the incorporation of a forgetting factor to exponentially weight past data can improve ocular artifact removal even for the traditional subtraction method.
Stereomutation at an Octahedral Transition-Metal Center:  Energetics of Hydride Transit between Syn and Anti Faces of the Bis(diphenylphosphinopropyl)(methyl)silyl (biPSi) Complex RuH(biPSi)(CO)2 (2001)

Reaction of SiH(Me)(CH2CH2CH2PPh2)2, “biPSiH”, with Ru(PPh3)2(CO)3 affords quantitatively the phosphinoalkylsilyl complex RuH(biPSi)(CO)2, as a mixture of the crystallographically characterized syn diastereomer 3-s and its anti correspondent 3-a; subsequent treatment with CCl4 then LiAl2H4 provides access to the deuterioisotopomer Ru2H(biPSi)(CO)2, 3-d1. Slow stereomutation of pure 3-s to an equilibrium mixture 3-s/3-a (4.5:1, 295 K) occurs with ΔG⧧295, 102(5) kJ mol-1; ΔH⧧295, 113(7) kJ mol-1; ΔS⧧295, 37(2) J K-1 mol-1; this is not accompanied by incorporation of external 13CO, shows only a minor isotope effect vs 3-d1, and is concluded to be nondissociative.
Complex matching of RDF datatype properties (2011)

lapaesleme @ ic.uff.br Abstract. Property mapping is a fundamental component of ontology matching, and yet there is little support that goes beyond the identification of single property matches. Real data often requires some degree of composition, trivially exemplified by the mapping of FirstName, LastName to FullName on one end, to complex machings, such as parsing and pairing symbol/digit strings to SSN numbers, at the other end of the spectrum. In this paper, we briefly introduce a two-phase instance-based technique for complex datatype property matching.
Theoretical Investigation of H2 Combustion on alphaAl2O3 Support (2008)

Abstract : Based on Density Functional Theory Generalized Gradient Approximation (DFT-GGA) calculations, we provide a theoretical model for the effect of the catalytic support (alpha alumina oxide (alphaAl2O3)) on the dissociation of molecular hydrogen (H2), molecular oxygen (O2), hydroxyl (OH), water (H2O), and the surface diffusion of oxygen and hydrogen species along the Al2O3 (0001) surface. These processes are key to understanding the inverse spillover effect that occurs during hydrogen combustion on alumina surfaces. Our results indicate the dissociation of O2 is not thermodynamically favored on the Al2O3 surface. However, both H2 and H2O can dissociate, forming hydroxyls with oxygen atoms in the second atomic layer. Once dissociated, oxygen species can diffuse locally but encounter a large barrier to long-range surface diffusion in the absence of defects or other species. In contrast, the barrier to the long-range surface diffusion of hydrogen is modest under ideal conditions.
FLOW FIELD IN A HOT AIR JET IMPINGEMENT OVEN ? PART 11: MULTIPLE IMPINGEMENT JETS (1999)

The axial velocity component of three and four jet arrays impinging on a flat plate have been measured using a laser Doppler anemometer. the axial velocity profiles for all jets were found to demonstrate characteristics of a turbulent jet in its potential core region. Between neighboring jets, reversal of the airflow occurred. At measurements closer to the flat plate, the reverse flow velocity values were found to be about 50% of the maximum jet velocity. the results indicated that the products passing under multiple jets may experience uneven heating rates, depending upon the product size and jet orifice spacing.
Table S5 from Epigenetic Identity in AML Depends on Disruption of Nonpromoter Regulatory Elements and Is Affected by Antagonistic Effects of Mutations in Epigenetic Modifiers (2023)

&lt;p&gt;DMC identity and annotation for mouse Idh2, Dnmt3a, and Idh2/Dnmt3a cohorts.&lt;/p&gt;
Macrophage migration inhibitory factor and multiple organ dysfunction syndrome (2008)

During severe sepsis, organ dysfunction is an important predictor of poor outcomes. Animal and human studies suggest that macrophage migration inhibitory factor (MIF) plays a detrimental role in organ dysfunction in severe sepsis. However, MIF is a key mediator of the innate immune response and is necessary for resistance to certain infections. We provide a broad overview of the beneficial and detrimental effects of MIF in sepsis. The interplay between MIF and glucocorticoids, which may play a critical role in sepsis, is also examined.
AECVT sensors with reconfigurable capabilities for industrial imaging applications (2016)

Different synthetic electrode configurations are investigated for use in adaptive electrical capacitance volume tomography (AECVT). We evaluate in particular the spectrum of singular values of the sensitivity matrix as a function of the set of activated electrode to seek optimal arrangements that maximize the information content provided by a fixed number of measurement acquisitions (or acquisition speed). We also briefly discuss the impact of these factors on the resolution of the reconstructed images. Since field singularities near the sensing electrodes exacerbate the ill-conditioning of the reconstruction problem as number of measurements increases, spectral methods based on singular value decomposition (SVD) can be used as a means of regularization of the problem. The use of spectral analysis of the sensitivity matrix SVD is also suggested to provide design rules for the choice of optimal excitation strategies in AECVT.
The Image Recognizing Method of Chip Shape Based onExpanding Feature (2003)

For the defects of supervision of chips' shape, the figure - character of C chip, spiral chip and abnormal chip are studied, the new method of pattern recognition based on extend and transformed shape feature is brought forward, which is recognition method based on area contrast and recognition method by calculating Euler number of expanding image. The recognizing theoretical algorithm and computer program based on Matlab are worked out, and are proved to have a good feasibility and precision reaching to 98% by recognizing three types of chips' shape.
Small Shop Dynamics: Time and Technology (2014)

Nearly invisible in the manufacturing industry hierarchy are those small manufacturers with fewer than 50 employees. These firms, labeled Small Shops, constitute a large percentage of manufacturers. This study focuses on the impact of technological innovation and time relative to the re-emergence of small shops as a competitive entity in the industrial hierarchy.
Purification and structural analysis of a murine chemotactic cytokine (CP-10) with sequence homology to S100 proteins. (1992)

In delayed-type hypersensitivity reactions, cytokine-mediated cell migration leads to localized accumulation of neutrophils and mononuclear cells over 4-48 h. In contrast to transient (2-6 h) responses elicited by other chemotactic factors, earlier studies indicated that a chemotactic activity previously described in our laboratory elicited skin test responses over 24 h, identical to those induced by injection of antigen into a sensitized test subject. We have isolated this factor, a 10.3-kDa chemotactic protein designated CP-10, from supernatants of activated murine spleen cells. Purification to homogeneity was achieved using affinity chromatography on iminodiacetic acid-immobilized copper and cation-exchange, mixed mode (cation exchange/metal affinity), reversed-phase, and size-exclusion high performance liquid chromatography. CP-10 had maximal chemotactic activity for neutrophils at 10(-13) M. The 76-amino acid sequence, obtained by automated N-terminal microsequence analysis of native CP-10, and fragments derived from trypsin digestion and cyanogen bromide cleavage indicated no sequence identity with any known cytokine or chemotactic factor but revealed up to 55% sequence homology with S100, Ca2(+)-binding proteins. CP-10 appears to be the first protein of this family with a well defined function affecting cell migration, and its biological potency suggests an important role for this cytokine in cellular immune reactions.
Numerology and frame structure for 5G radio access (2016)

5G radio access technology is envisioned to operate from sub-1 GHz to 100 GHz using a wide range of deployment options and to support diverse services. This paper proposes OFDM numerology and frame structure for 5G radio access. The numerology is proposed keeping in view realistic propagation channel measurements, mobility, effect of phase noise, and implementation complexity. The frame structure is proposed for both FDD and TDD. The proposed frame structure is flexible, scalable, and fulfills low latency requirements.
An easy-to-assemble, robust, and lightweight drive implant for chronic tetrode recordings in freely moving animals (2020)

This design significantly improves the data yield of chronic electrophysiology experiments.
Quantitative Immunoblotting of Plasma and Platelet Protein S (1986)

Protein S, the activated protein C cofactor, was measured in plasma and in platelets by a quantitative immunoblotting assay using a double antibody technique. Either whole plasma or platelet lysates were electrophoresed on sodium dodecyl sulfate polyacrylamide gels and transferred to nitrocellulose membranes by electroblotting. Based on the demonstration of proportional transfer of protein S from the gel to the nitrocellulose membrane, a reproducible and sensitive quantitative assay for protein S antigen (approximately 70,000 MW) was developed that correlated well with the Laurell rocket assay for plasma protein S. Pooled normal plasma contains 22 micrograms/ml protein S. Total platelet protein S antigen at approximately 70,000 MW was determined in gel filtered platelets of ten healthy adults (mean, 163 ng per 10(8) platelets). In the supernatants of thrombin-stimulated platelets, 63% of the total platelet protein S antigen was measured. Thus, quantitative immunoblotting is a useful method to detect low levels of protein S in platelets or in plasma with the advantage of giving qualitative information, i.e. apparent MW, of protein S.
Design and Performance Benchmarking of Hybrid Tunnel FET/STT-MTJ-Based Logic In-Memory Designs for Energy Efficiency (2022)

With CMOS technology scaling and increased short channel effects, spin-transfer torque-magnetic tunnel junction (STT-MTJ)/CMOS-based logic-in-memory (LIM) designs consume significantly higher energy at scaled supply voltages. To enhance the energy efficiency of LIM circuit designs, this work proposes a hybrid tunnel FET (TFET)/MTJ-based digital circuit design approach at <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$V_{\mathbf {DD}} = 0.3$ </tex-math></inline-formula> V. A Schmitt triggered pre-charge sense amplifier (ST-PCSA) with a strong feedback mechanism at the pull-down section is considered in TFET/MTJ-based LIM designs. The proposed LIM-MTJ designs are implemented using 20 nm TEFT technology and perpendicular anisotropy CoFeB/MgO/CoFeB MTJs. Two input and, or, xor logic gates, <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$2\times1$ </tex-math></inline-formula> multiplexer, 1-bit magnetic full adder (MFA), 4-bit magnetic ripple carry adder (RCA), and a simple 1-bit magnetic arithmetic and logical unit (M-ALU) are designed, exploring the proposed ST-PCSA-based hybrid TFET/MTJ logic. The proposed ST-PCSA-based hybrid TFET/MTJ LIM designs achieve ~47.2%–55.55% lower energy consumption in comparison with the PCSA-based TFET/MTJ LIM designs. Performance benchmarking with 20 nm FinFET designs demonstrates that the proposed TFET/MTJ LIM designs achieve 11.1%–25.9% lower energy consumption when compared with equivalent FinFET/MTJ-based LIM designs.
An Improved Particle Swarm Optimization with Mutation Based on Similarity (2007)

Particle swarm optimization (PSO) is a new population-based intelligence algorithm and exhibits good performance on optimization. However, during the running of the algorithm, the particles become more and more similar, and cluster into the best particle in the swarm, which make the swarm premature convergence around the local solution. In this paper, a new conception, collectivity, is proposed which is based on similarity between the particle and the current global best particle in the swarm. And the collectivity was used to randomly mutate the position of the particles, which make swarm keep diversity in the search space. Experiments on benchmark functions show that the new algorithm outperforms the basic PSO and some other improved PSO.