gebhart/patrepeval huggingface dataset:
EXTH-33. OS2966 DRAMATICALLY ENHANCES PRECLINICAL EFFICACY OF ONCOLYTIC VIRUS THERAPY (2016)

Oncolytic viruses (OVs) are a promising immunotherapy which have largely proven to be safe in cancer patients, but with equivocal efficacy in the clinic. We recently demonstrated that therapeutic resistance to OV is driven by an integrin-dependent activation of a type-I antiviral interferon response. OS2966 is an experimental FDA Orphan Drug designated humanized monoclonal antibody which blocks CD29, the dominant β integrin subunit, and attenuates growth of bevacizumab-resistant glioblastoma xenografts. Therefore, we hypothesized that combination OS2966+OV therapy would be synergistic in the setting of glioblastoma and other solid malignancies. Indeed, OS2966 attenuated tumor cell gene expression of pro-inflammatory cytokines and STAT-1/STAT-2 activation in response to OV and, furthermore, increased OV replication and glioblastoma cell killing in vitro. Additionally, OS2966 treatment significantly increased in vivo OV replication in established subcutaneous and orthotopic xenografts. Finally, combination OS2966+OV treatment significantly enhanced anti-tumor efficacy in an orthotopic xenograft model, producing complete responses (CR) with a single cycle of treatment in 50% of animals compared to 0% CR in the OV only group. Further experiments suggested an additional ligand-independent mechanism for increased viral uptake implying OS2966 could be effective in combination with diverse types of OVs. Thus, OS2966 enhanced OV therapy by 1) increasing viral replication, 2) inhibiting anti-viral signaling, and 3) synergistically promoting tumor cell killing in vitro and in vivo. These studies suggest that OS2966 may dramatically improve the effectiveness of OV immunotherapy approaches particularly those currently under development for the treatment of glioblastoma.
eSkip-Finder: a machine learning-based web application and database to identify the optimal sequences of antisense oligonucleotides for exon skipping (2021)

Exon skipping using antisense oligonucleotides (ASOs) has recently proven to be a powerful tool for mRNA splicing modulation. Several exon-skipping ASOs have been approved to treat genetic diseases worldwide. However, a significant challenge is the difficulty in selecting an optimal sequence for exon skipping. The efficacy of ASOs is often unpredictable, because of the numerous factors involved in exon skipping. To address this gap, we have developed a computational method using machine-learning algorithms that factors in many parameters as well as experimental data to design highly effective ASOs for exon skipping. eSkip-Finder (https://eskip-finder.org) is the first web-based resource for helping researchers identify effective exon skipping ASOs. eSkip-Finder features two sections: (i) a predictor of the exon skipping efficacy of novel ASOs and (ii) a database of exon skipping ASOs. The predictor facilitates rapid analysis of a given set of exon/intron sequences and ASO lengths to identify effective ASOs for exon skipping based on a machine learning model trained by experimental data. We confirmed that predictions correlated well with in vitro skipping efficacy of sequences that were not included in the training data. The database enables users to search for ASOs using queries such as gene name, species, and exon number.
Transducer Adaptive Ultrasound Volume Reconstruction (2020)

Reconstructed 3D ultrasound volume provides more context information compared to a sequence of 2D scanning frames, which is desirable for various clinical applications such as ultrasound-guided prostate biopsy. Nevertheless, 3D volume reconstruction from freehand 2D scans is a very challenging problem, especially without the use of external tracking devices. Recent deep learning based methods demonstrate the potential of directly estimating inter-frame motion between consecutive ultrasound frames. However, such algorithms are specific to particular transducers and scanning trajectories associated with the training data, which may not be generalized to other image acquisition settings. In this paper, we tackle the data acquisition difference as a domain shift problem and propose a novel domain adaptation strategy to adapt deep learning algorithms to data acquired with different transducers. Specifically, feature extractors that generate transducer-invariant features from different datasets are trained by minimizing the discrepancy between deep features of paired samples in a latent space. Our results show that the proposed domain adaptation method can successfully align different feature distributions while preserving the transducer-specific information for universal freehand ultrasound volume reconstruction.
T-cell receptor gene transfer by lentiviral vectors in adoptive cell therapy (2007)

Adoptive cell therapy can be envisioned as a promising strategy for tumour immunotherapy. However, existing protocols of adoptive cell therapy still require optimisation as many factors, such as specificity, avidity, level of differentiation and amount of transferred T lymphocytes, can influence their immunocompetence and in vivo functionality. In particular, the need to reduce the in vitro expansion phase and to obtain large numbers of tumour-reactive T cells, as a favourable condition for cancer regression, make TCR gene transfer a potentially ideal tool to overcome the limits of adoptive cell therapy strategies. Here, the authors review the state-of-the-art and recent advances in TCR transfer with particular emphasis on lentiviral vector systems. Initial data from preclinical models and recent clinical trials encourage optimisation of a safe, simplified and stable transfer system. In this regard, HIV-based vectors are emerging as good alternative candidates over the most widely used oncoretroviral vectors due to their peculiar molecular features that fit the ideal conditions for donor T cell in vitro manipulation.
Model reference adaptive fuzzy logic control for vehicle guidance (2005)

A formulation is made for a model reference adaptive fuzzy logic control (MRAFLC) algorithm for the automatic vehicle guidance problem. The goal is to make the output of the closed-loop system, under fuzzy logic control, follow a reference output, generated by a fuzzy system. Using Lyapunov theory, convergence between the actual output and the reference output is discussed as well as the state bounded stability. Advantages of using the MRAFLC in vehicle guidance, such as adapting the controller to changes in operating conditions, are shown by simulation results applying the MRAFLC to a full-sized automobile.
Real-time three-dimensional passive cavitation detection for clinical high intensity focused ultrasound systems (2013)

Bubble activity during high intensity focused ultrasound (HIFU) surgery has been linked with desirable effects, such as an enhanced heat deposition caused by inertial cavitation, and undesirable effects, such as lesion migration caused by boiling bubbles. There is presently no reliable way of achieving spatiotemporal monitoring of cavitation activity during clinical HIFU treatments. In the present work, a near-acoustically transparent two-dimensional 32-element PVDF array was designed and mounted on the therapy transducer of a clinical HIFU device (Model JC200, Chongqing Haifu) to enable detection of acoustic emissions arising from cavitation during therapy. The signal detected by each of the elements was digitized and processed in real time on a graphical processing unit (GPU), and beamformed using our previously described passive acoustic mapping (PAM) algorithm to produce real-time three-dimensional (3D) maps of cavitation activity with a frame rate in excess of 5 Hz. The system was initially validated in agar-based tissue-mimicking materials, demonstrating that the displayed volume of cavitation activity agreed with predictions based on in situ pressure calibrations. The system was further validated during clinical HIFU treatments of kidney tumor, liver tumor, and uterine fibroid ablation, and was found to enable accurate localization of the HIFU focus at sub-lesioning intensities.
154.9 Gb/s OFDM Transmission Using IM-DD, Electrical IQ-Mixing and Signal Combining (2016)

We demonstrate a wideband OFDM transmission, using electrical IQ-mixing and signal combining. Transmission rates of 154.9 Gb/s over 2 km of SSMF were achieved with an IM/DD system on a single wavelength and a single polarization.
Micromechanisms of Capacity Fade in Silicon Anode for Lithium-Ion Batteries (2012)

Large volume change and associated stress generation is known to cause failure of the silicon thin film anode used for Lithium-ion batteries after a few cycles. Experimental observations suggest that plastic deformation of the underlying Cu substrate and degradation of the active/inactive interface are the primary reasons responsible for the capacity fade. The goal of the present study is to examine the interplay between these mechanisms using a computational mechanics approach. In the present study, a novel multi-physics finite element framework has been developed to simulate the lithiation and de-lithiation induced failure of amorphous Si (a-Si) thin film on Cu foil. The numerical framework is based on the finite deformation of the active silicon wherein diffusion of lithium occurs, plastic deformation of the Cu foil, and debonding of the active/inactive interface. The effect of substrate property, interfacial energy and kinetics of interface degradation has been examined.
Acrylonitrile Polymerization by Ceric lon-Primary Alcohol Redox Systems in Aqueous Nitric Acid (1981)

Abstract The polymerization of acrylonitrile (AN) initiated by CeIV-primary alcohol redox systems has been studied in aqueous nitric acid under nitrogen in the temperature range 0 to 45° C. Taft's correlation can be applied to fit the kinetic results relative to a series of differently substituted primary alcohols. The polymerization is initiated by primary radicals formed in water from the dismutation of the CeIV -alcohol complex, This process has a high activation energy (21 kcal/mol) and gives rise to an induction period at temperatures lower than 40° C. PAN chains containing the alcohol residue are terminated predominantly on metal ions. The alcohol enhances the AN solubility in water and accordingly influences the polymerization kinetics. Variations in temperature and concentration of both components of the redox system allow control of the polymerization rate and of the molecular weight of the resulting PAN.
Developing Potent Human Uric Acid Transporter 1 (hURAT1) Inhibitors (2011)

The kidneys are a vital organ in the human body. They serve several purposes including homeostatic functions such as regulating extracellular fluid volume and maintaining acid-base and electrolyte balance and are essential regarding the excretion of metabolic waste. Furthermore, the kidneys play an important role in uric acid secretion/reabsorption. Abnormalities associated with kidney transporters have been associated with various diseases, such as gout. The current study utilized Xenopus oocytes expressing human uric acid transporter 1 (hURAT1; SLC22A12) as an in vitro method to investigate novel compounds and their ability to inhibit (14)C-uric acid uptake via hURAT1. We have prepared and tested a series of 2-ethyl-benzofuran compounds and probed the hURAT1 in vitro inhibitor structure-activity relationship. As compared to dimethoxy analogues, monophenols formed on the C ring showed the best in vitro inhibitory potential. Compounds with submicromolar (i.e., IC(50) < 1000 nM) inhibitors were prepared by brominating the corresponding phenols to produce compounds with potent uricosuric activity.
ChemInform Abstract: Metal Propionate Synthesis of Magnetoresistive La1‐x(Ca,Sr)xMnO3 Thin Films. (1998)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Silicon Resonant Microsensors (2008)

Mechanically resonant structures are sensitive transducers of signals that alter the kinetic or potential energy of vibration. This paper reviews the design issues for this class of sensor and evaluates the potential for silicon resonant microsensors fabricated using planar microfabrication technology. We first apply Rayleigh's Energy Method to determine the resonant frequencies of selected microstructures. Insight into resonant sensor design is gained through perturbing the expressions for kinetic or potential energy, making Rayleigh's Method an important design tool. We apply this technique to compare the sensitivities of surface-acoustic-wave and resonant microbridge vapor sensors and to evaluate the resonant diaphragm and axially loaded vibrating beam structures for force or pressure sensing. Finally, the challenges for developing a silicon resonant microsensor technology are outlined, including questions of excitation and detection, material properties, fabrication and structural constraints, and packaging.
Green initiative-power management and its effects on electronics packaging (2010)

The influence of Green initiatives and resulting reduction in power consumption have an impact on module reliability. In this paper we will discuss an approach that IBM is using to acquire and save cyclic field data from processors as well as the testing methodology used to quantify the reliability impacts of variable cyclic loads on FCPLGA packages. Important questions to be answered are: (1) what types of cyclic loads will IBM modules see in the field as a result of power management and applications run by our diverse customer set, and (2) what unique testing must be conducted to assure that there is no reliability exposure associated with said cyclic loads. This paper discusses new failure mechanisms found through minicycle stressing in a lab environment, meant to simulate cyclic loads that a processor would see in the field, where power was being throttled to control overall consumption. We will also discuss the methodology and implementation of a Figure of Merit algorithm which allows us to pull cyclic load histories on individual processors while in the field or from processors that have been returned to IBM.
On the propagation speed of excitation waves (2002)

The authors show that the propagation speed in the singular limit (with no recovery processes) is a homogeneous function of the order 1/2 with respect to the "intensive" shape parameters of the I-V curve and derive appropriate general scaling laws. The authors also introduce a new simple iterative procedure for solving the nonlinear eigenvalue problem.
Synthesis and Electrochemical Properties of Oxovanadium Complexes with a Pentadentate Schiff Base Ligand (2004)

Abstract Oxovanadium(IV) and (V) complexes with a pentadentate Schiff base ligand, [VIVO(HL)]·H2O {H3L: N,N′-bis(3-ethoxysalicylidene)-2-hydroxy-1,3-propanediamine} and [VVO(L)]·CH3CN, were prepared by the reaction of the Schiff base ligand with [VIVO(acac)2] (H2acac: acetylacetone) in CH3CN under an argon atmosphere and in air, respectively. IR data of the complexes indicate that [VIVO(HL)] and [VVO(L)] have polymeric (···V=O···V=O···) and monomeric structures, respectively, in the solid state. An X-ray crystal structure analysis of [VVO(L)]·CH3CN was carried out. The complex has a distorted octahedral structure with one of the imine nitrogen atoms trans to the oxo atom. The cyclic voltammogram of [VVO(L)] in CH2Cl2 shows a quasi-reversible V(V)/V(IV) redox couple with E1/2 = −0.74 V vs Ag/Ag+. On the other hand, the cyclic voltammogram of [VIVO(HL)] in CH2Cl2 shows two irreversible oxidation waves at +0.23 and +0.33 V with a scan rate 100 mV/s. The cyclic voltammogram of [VIVO(HL)] in DMSO shows a quasi-reversible V(V)/V(IV) redox couple with E1/2 = −0.05 V. Electrochemcal data indicate that [VIVO(HL)] form dimeric species in a weakly Lewis basic solvent by coodination of the alcohol group to the vanadium atom of the adjacent molecule.
Oxidized Resveratrol Metabolites as Potent Antioxidants and Xanthine Oxidase Inhibitors (2022)

Resveratrol is a well-known natural polyphenol with a plethora of pharmacological activities. As a potent antioxidant, resveratrol is highly oxidizable, and readily reacts with reactive oxygen species (ROS). Such a reaction not only leads to a decrease in ROS levels in a biological environ-ment but may also generate a wide range of metabolites with altered bioactivities. Inspired by this notion, in the current study, our aim was to take a diversity-oriented chemical approach to study the chemical space of oxidized resveratrol metabolites. Chemical oxidation of resveratrol and a bioactivity-guided isolation strategy using xanthine oxidase (XO) and radical scavenging activities led to the isolation of a diverse group of compounds, including a chlorine-substituted compound (2), two iodine-substituted compounds (3 and 4), two viniferins (5 and 6), an eth-oxy-substituted compound (7) two ethoxy-substituted dimers (8 and 9). Compounds 4, 7, 8 and 9 are reported here for the first time. All compounds without ethoxy-substitution exerted stronger XO inhibition than their parent compound, resveratrol. By enzyme kinetic and in silico docking studies compounds 2, 3 and 4 were identified as potent competitive inhibitors of the enzyme while the viniferins acted as mixed-type inhibitors. Further, compounds 2 and 9 had better DPPH scavenging activity and oxygen radical absorbing capacity than resveratrol. Our results suggest that the antioxidant activity of resveratrol is modulated by the effect of a cascade of chemically stable oxidized metabolites, several of which have significantly altered target specificity as compared to their parent compound.
Improved Resolution of Epitaxial Thin Film Doping Using FTIR Reflectance Spectroscopy (2005)

This DOI is not currently attached to any metadata records. DOIs can’t actually ever be deleted (they’re persistent), but sometimes our members create DOIs in error. We do have a process to approximate deletion which we follow only in rare cases where the DOI has been genuinely created in error, and most crucially, if the DOI has never been published anywhere online or in print and never otherwise distributed to or communicated with anyone (authors, readers, reviewers, etc.
Detection of T and B cell antigens hybridoma monoclonal antibodies: a biotin-avidin-horseradish peroxidase method. (1980)

Acetone-fixed frozen sections of reactive lymph node, spleen, three B cell lymphomas, and three T cell lymphomas were studied for the presence of Ia-like antigens and two T cell antigens. Detection of the binding of the hybridoma monoclonal antibodies to these antigens took advantage of the biotin-avidin interaction. The detection method employed a biotin conjugate of goat anti-mouse antibody and an avidin conjugate of horseradish peroxidase. B cell lymphoma cells stained for Ia. The cell lymphomas were shown to be heterogeneous for the expression of the two T cell antigens. these three antigens were generally not detectable after 10% formalin fixation of B-5 fixation. Detection of these antigens and the method employed should prove useful in the immunologic categorization of human lymphomas.
Improved image reconstruction incorporating non-rigid motion correction for cardiac MRI using BLADE acquisition (2009)

Introduction: Prophylactic implantation of a cardioverter/ defibrillator (ICD) has been shown to reduce mortality in patients with chronic myocardial infarction (CMI) and an increased risk for life threatening ventricular arrhythmia (VA). The use of ICDs in this large patient population is still limited by high costs and possible adverse events including inappropriate discharges and progression of heart failure. VA is related to infarct size and seems to be related to infarct morphology. Contrast enhanced cardiovascular magnetic resonance imaging (ceCMR) can detect and quantify myocardial fibrosis in the setting of CMI and might therefore be a valuable tool for a more accurate risk stratification in this setting. Hypothesis: ceCMR can identify the subgroup developing VA in patients with prophylactic ICD implantation following MADIT criteria. Methods: We prospectively enrolled 52 patients (49 males, age 69 10 years) with CMI and clinical indication for ICD therapy following MADIT criteria. Prior to implantation (36 78 days) patients were investigated on a 1.5 T clinical scanner (Siemens Avanto , Germany) to assess left ventricular function (LVEF), LV end-diastolic volume (LVEDV) and LV mass (sequence parameters: GRE SSFP, matrix 256 192, short axis stack; full LV coverage, no gap; slice thickness 6 mm). For quantitative assessment of infarct morphology late gadolinium enhancement (LGE) was performed including measurement of total and relative infarct mass (related to LV mass) and the degree of transmurality (DT) as defined by the percentage of transmurality in each scar. (sequence parameters: inversion recovery gradient echo; matrix 256 148, imaging 10 min after 0.2 g/kg gadolinium DTPA; slice orientation equal to SSFP). MRI images were analysed using dedicated software (MASS , Medis, Netherlands). LGE was defined as myocardial areas with signal intensity above the average plus 5 SD of the remote myocardium. After implantation, patients were followed up including ICD readout after 3 and than every 6 months for a mean of 945 344 days. ICD data were evaluated by an experienced electrophysiologist. Primary endpoint was the occurrence of an appropriate discharge (DC), antitachycard pacing (ATP) or death from cardiac cause. Results: The endpoint occurred in 10 patients (3 DC, 6 ATP, 1 death). These patients had a higher relative infarct mass (28 7% vs. 22 11%, p = 0.03) as well as high degree of transmurality (64 22% vs. 44 25%, p = 0.05). Their LVEF (29 8% vs. 30 4%, p = 0.75), LV mass (148 29 g vs. 154 42 g, p = 0.60), LVEDV (270 133 ml vs. 275 83 ml, p = 0.90) or total infarct mass (43 19 g vs. 37 21 g, p = 0.43) were however not significant from the group with no events. In a cox proportional hazards regression model including LVEF, LVEDV, LV mass, DT and age, only degree of transmurality and relative infarct mass emerged as independent predictors of the primary end point (p = 0.009).
Effects of Rolling Friction of the Balancing Balls on the Automatic Ball Balancer for Optical Disk Drives (2004)

This study is devoted to evaluate the performance of an automatic ball-type balance system (ABB) installed in optical disk drives (ODD) with consideration of the rolling friction between the balancing balls and the ball-containing race of the ABB. Researches have been conducted to study the performance of the ABB by investigating the nonlinear dynamics of the system; however, the rolling friction model adopted was a simple stick-slip type, which does not reflect the true contact dynamics between rolling balls and their races, leading to an inaccuracy in predicting ABB performance. In this study, a complete dynamic model of the ABB including a detailed rolling friction model based on contact mechanics is established. The method of multiple scales is then applied to formulate a scaled model to find all possible steady-state ball positions and analyze stabilities. It is found that possible steady-state residing positions of the ball inside the race are multiple and form continuous ranges. Numerical simulations and experiments are conducted to verify the validness of the theoretical findings. The obtained results are used to predict the level of residual vibration, with which the guidelines on dimension design and material choices of the ABB are distilled to achieve desired performance.