gebhart/patrepeval huggingface dataset:
Data from Rapid Construction of Antitumor T-cell Receptor Vectors from Frozen Tumors for Engineered T-cell Therapy (2023)

<div>Abstract<p>T cells genetically engineered with tumor antigen–specific T-cell receptor (TCR) genes have demonstrated therapeutic potential in patients with solid tumors. In order to achieve broader application, an efficient method to identify TCR genes for an array of tumor antigens and HLA restriction elements is required. Here, we have developed a method to construct a TCR-expression library from specimens, including frozen tumor biopsies, that contain antigen-specific T cells. TCR-expressing cassettes were constructed and cloned in a retroviral plasmid vector within 24 hours by unbiased PCR amplification of TCR α and β chain variable regions assembled with TCR constant regions. The method was validated by constructing TCR-expressing vectors from tumor antigen–specific T-cell clones and functionally assessing TCR gene–transduced T cells. We applied this method to frozen ovarian tumor specimens that were infiltrated by tumor antigen–specific T cells. The tumor-derived TCR libraries were expressed in peripheral T cells from healthy volunteers and screened for tumor antigen–specific TCR pairs with the use of an MHC/peptide tetramer reagent. Tumor antigen–specific TCR-expressing transgenes were recovered from isolated tetramer-positive T cells. Peripheral T cells that were engineered with library-derived TCR gene showed potent therapeutic antitumor effect in a tumor xenograft model. Our method can efficiently and rapidly provide tumor-specific TCR-expressing viral vectors for the manufacture of therapeutic and personalized antitumor T-cell products. <i>Cancer Immunol Res; 6(5); 594–604. ©2018 AACR</i>.</p></div>
Two-stage Rydberg charge exchange: An efficient method for production of antihydrogen (1998)

An efficient method for production of cold antihydrogen $(\mathrm{H}\ifmmode\bar\else\textasciimacron\fi{})$ is proposed. Alkali-metal atoms laser excited to a Rydberg state are charge exchanged with cold trapped positrons, producing Rydberg states of positronium. In a second Rydberg-state charge exchange, the positronium atoms give up their Rydberg positrons to cold trapped antiprotons, producing Rydberg states of $\mathrm{H}\ifmmode\bar\else\textasciimacron\fi{}$. These $\mathrm{H}\ifmmode\bar\else\textasciimacron\fi{}$ atoms soon decay down to the ground state, and, because they are cold, could be trapped in a magnetic trap. The efficiency of the process results from the extremely large cross sections for Rydberg charge exchange. Classical trajectory Monte Carlo calculations indicate an $\mathrm{H}\ifmmode\bar\else\textasciimacron\fi{}$ instantaneous production rate of 10${}^{6}/$s.
Depth Painting for Image-based Rendering Applications (1999)

We describe a system that functions as a painter&apos;s tool for adding a third dimension in single images. In contrast with Horry et al.&apos;s &quot;Tour into the picture&quot; system [5], which adds the third dimension to the single image through polygons and planar regions, our system provides a means for more expressive depth variations that result in more realistic rendering. The key to intuitive &quot;depth painting&quot; is the use of four auxiliary side views in the interface that allows the user to observe direct changes to depth. In addition to a host of local and region-based operations, &quot;depth painting&quot; also involves the option to pad regions within the image so as to remove holes or gaps when viewed at novel camera poses. Finally, the resulting image with depth lends itself to multi-layered imagebased rendering, where new environments can be created from different representations of 3-D scenes and rendered at novel viewpoints in a geometrically-correct manner.
Real-Time Improvement of Continuous Glucose Monitoring Accuracy (2012)

We have introduced and implemented the sCGM sensor concept. Analysis of data from 24 patients demonstrates that incorporation of suitable real-time signal processing algorithms for denoising, enhancement, and prediction can significantly improve the performance of CGM applications. This can be of great clinical impact for hypo- and hyperglycemic alert generation as well in artificial pancreas devices.
Pouring control with prediction of filling weight in tilting ladle type automatic pouring system (2008)

This paper presents an advanced control system in a tilting ladle type automatic pouring system. To improve the productivity and save energy, in the pouring process, it is important that the mould be filled precisely and quickly with molten metal. A sequence control employing prediction of filling weight is proposed in this paper. In the proposed control system, the sequence parameter varies depending on the predicted filling weight during the back tilting. The proposed control system has an advantage in that it can be performed by common control equipment such as a programmable logical controller. The effectiveness of the proposed filling weight control system is demonstrated through the experiments using water.
Predicting anterior cruciate ligament failure load with T2* relaxometry and machine learning as a prospective imaging biomarker for revision surgery (2023)

Non-invasive methods to document healing anterior cruciate ligament (ACL) structural properties could potentially identify patients at risk for revision surgery. The objective was to evaluate machine learning models to predict ACL failure load from magnetic resonance images (MRI) and to determine if those predictions were related to revision surgery incidence. It was hypothesized that the optimal model would demonstrate a lower mean absolute error (MAE) than the benchmark linear regression model, and that patients with a lower estimated failure load would have higher revision incidence 2 years post-surgery. Support vector machine, random forest, AdaBoost, XGBoost, and linear regression models were trained using MRI T<sub>2</sub>* relaxometry and ACL tensile testing data from minipigs (n = 65). The lowest MAE model was used to estimate ACL failure load for surgical patients at 9 months post-surgery (n = 46) and dichotomized into low and high score groups via Youden's J statistic to compare revision incidence. Significance was set at alpha = 0.05. The random forest model decreased the failure load MAE by 55% (Wilcoxon signed-rank test: p = 0.01) versus the benchmark. The low score group had a higher revision incidence (21% vs. 5%; Chi-square test: p = 0.09). ACL structural property estimates via MRI may provide a biomarker for clinical decision making.
Effect of Reversion Treatment on Strength and Ductility of Low C, Cr-Ni Martensitic Stainless Steel with High Resistance to Weld Softening (1993)

In order to develop high strength stainless steels with good ductility and high resistance to weld softening, reversion behavior of martensite to austenite of low C, Si-13%Cr-7%Ni martensitic stainless steels have been studied. Moreover, dependences of mechanical properties of reversion treated steels on austenite stability, cold rolled reduction and Si have been investigated.Main results obtained are as follows;When cold rolled steels, Mf temperatures of which are around room temperature, are heat-treated at the region between As and Af temperatures, some portions of martensite are reversed to austenite, which results in microduplex structure of ultra-fine austenite grains and tempered martensite. These steels have excelent balance of high strength and good ductility. The steel containing high Si possesses good ductility as well as high strength. Softening of welded metal dose not occur because it undergoes martensitic transformation on cooling after welding.
Rapid prototyping of a novel and flexible paper based oxygen sensing patch<i>via</i>additive inkjet printing process (2019)

A novel and flexible oxygen sensing patch was successfully developed for wearable, industrial, food packaging, pharmaceutical and biomedical applications using a cost-efficient and rapid prototypable additive inkjet print manufacturing process. An oxygen sensitive ink was formulated by dissolving ruthenium dye and ethyl cellulose polymer in ethanol in a 1 : 1 : 98 (w/w/w) ratio. The patch was fabricated by depositing the oxygen sensitive ink on a flexible parchment paper substrate using an inkjet printing process. A maximum absorbance from 430 nm to 480 nm and a fluorescence of 600 nm was observed for the oxygen sensitive ink. The capability of the oxygen sensitive patch was investigated by measuring the fluorescence quenching lifetime of the printed dye for varying oxygen concentration levels. A fluorescence lifetime decay (<i>τ</i>) from ≈4 μs to ≈1.9 μs was calculated for the printed oxygen sensor patch, for oxygen concentrations varying from ≈5 mg L<sup>-1</sup> to ≈25 mg L<sup>-1</sup>. A sensitivity of 0.11 μs mg L<sup>-1</sup> and a correlation coefficient of 0.9315 was measured for the printed patches. The results demonstrated the feasibility of employing an inkjet printing process for the rapid prototyping of flexible and moisture resistant oxygen sensitive patches which facilitates a non-invasive method for monitoring oxygen and its concentration levels.
Chip-interleaved block-spread code division multiple access (2002)

A novel multiuser-interference (MUI)-free code division multiple access (CDMA) transceiver for frequency-selective multipath channels is developed. Relying on chip-interleaving and zero padded transmissions, orthogonality among different users' spreading codes is maintained at the receiver even after frequency-selective propagation. As a result, deterministic multiuser separation with low-complexity code-matched filtering becomes possible without loss of maximum likelihood optimality. In addition to MUI-free reception, the proposed system guarantees channel-irrespective symbol detection and achieves high bandwidth efficiency by increasing the symbol block size. Filling the zero-gaps with known symbols allows for perfectly constant modulus transmissions. Important variants of the proposed transceivers are derived to include cyclic prefixed transmissions and various redundant or nonredundant precoding alternatives. (Semi-) blind channel estimation algorithms are also discussed. Simulation results demonstrate improved performance of the proposed system relative to competing alternatives.
Discovery and Validation of Agonistic Angiotensin Receptor Autoantibodies as Biomarkers of Adverse Outcomes (2016)

In older individuals, higher AT1RaAb levels were associated with inflammation, hypertension, and adverse outcomes. Angiotensin receptor blocker treatment may blunt the harm associated with high levels of AT1RaAb.
A completely safe early-stopping criterion for max-log Turbo code decoding (2006)

Techniques for early stopping of the iterative decoding of Turbo codes are of interest for a variety of reasons, such as increasing average decoder throughput or reducing average decoder power consumption. Various forms of early stopping have been proposed to date. Something that seems lacking, however, is an early-stopping technique for Turbo codes that can mathematically be proven to have no effect on the decoder error-rate performance, whatsoever. This paper presents such an early-stopping criterion, and for the case of Turbo code decoding using max-log-APP type SISO processing, provides a proof showing that the new criterion is completely safe: early stopping according to the new criterion will not have any effect on the output decisions of the Turbo code decoder. The new early-stopping criterion can be used to significantly reduce processing compared to decoding to the maximum number of allowed iterations, and adds little implementation complexity.
Evaluation of safety and immunogenicity of a group A streptococcus vaccine candidate (MJ8VAX) in a randomized clinical trial (2018)

ACTRN12613000030774.
Open‐circuit Electrochemical Polymerization for the Sensitive Detection of Phenols (2015)

Abstract We report on a novel electrochemical method for electro‐polymerizing phenols under open‐circuit conditions. The method developed here is simple, sensitive, rapid, and overcomes the well‐documented surface fouling of carbon electrodes by phenols. A pre‐charged disposable graphite pencil electrode (pCGPE) was found to be useful for both phenol sampling and sensing. The pCGPE was prepared by charging the surface of a graphite pencil electrode by applying a cyclic voltammetry electrochemical treatment in a NaOH solution. Phenol sampling was accomplished by immersing the pCGPE into a phenol solution. This method permitted phenol detection with a detection limit of 4.17 nM (0.39 ppt).
VCSEL design for high power, densely packed arrays (2013)

We utilize high power VCSEL arrays for several applications where high efficiency especially at high operating temperatures is essential. Our approach to design VCSEL devices optimized for the requirements of these applications is presented.
Micro-/nanoscale electroporation (2016)

Electroporation has been one of the most popular non-viral technologies for cell transfection. However, conventional bulk electroporation (BEP) shows significant limitations in efficiency, cell viability and transfection uniformity. Recent advances in microscale-electroporation (MEP) resulted in improved cell viability. Further miniaturization of the electroporation system (i.e., nanoscale) has brought up many unique advantages, including negligible cell damage and dosage control capabilities with single-cell resolution, which has enabled more translational applications. In this review, we give an insight into the fundamental and technical aspects of micro- and nanoscale/nanochannel electroporation (NEP) and go over several examples of MEP/NEP-based cutting-edge research, including gene editing, adoptive immunotherapy, and cellular reprogramming. The challenges and opportunities of advanced electroporation technologies are also discussed.
Cloning, Sequence Analysis, and Expression in Escherichia coli of the Gene Encoding the Candida utilis Urate Oxidase (Uricase) (1996)

A urate oxidase (uricase) gene was cloned from Candida utilis with an oligonucleotide probe based on the amino acid sequence of cyanogen bromide-cleaved uricase. The uricase gene contains 909 base pairs and encodes a protein with a predicted mass of 34,193 Da. Candida uricase was similar (49% match in amino acid sequence) to the uricase from Aspergillus flavus. The uricase from Candida utilis has four cysteines and one of them, Cys168, participates in the enzyme activity. This enzyme was expressed to a level of about 20% of total cellular protein in an Escherichia coli cell as a soluble and functional form.
Adaptive Spectral Strain Estimators for Elastography (2004)

In conventional elastography, internal tissue deformations, induced by external compression applied to the tissue surface, are estimated by cross-correlation analysis of echo signals obtained before and after compression. Conventionally, strains are estimated by computing the gradient of estimated displacement. However, gradient-based algorithms are highly susceptible to noise and decorrelation, which could limit their utility. We previously developed strain estimators based on a frequency-domain (spectral) formulation that were shown to be more robust but less precise compared to conventional strain estimators, In this paper, we introduce a novel spectral strain estimator that estimates local strain by maximizing the correlation between the spectra of pre- and postcompression echo signals using iterative frequency-scaling of the latter; we also discuss a variation of this algorithm that may be computationally more efficient but less precise. The adaptive spectral strain estimator combines the advantages of time- and frequency-domain methods and has outperformed conventional estimators in experiments and 2-D finite-element simulations.
Exploring the Active Site of the Antibacterial Target MraY by Modified Tunicamycins (2020)

The alarming growth of antibiotic resistance that is currently ongoing is a serious threat to human health. One of the most promising novel antibiotic targets is MraY (phospho-MurNAc-pentapeptide-transferase), an essential enzyme in bacterial cell wall synthesis. Through recent advances in biochemical research, there is now structural information available for MraY, and for its human homologue GPT (GlcNAc-1-P-transferase), that opens up exciting possibilities for structure-based drug design. The antibiotic compound tunicamycin is a natural product inhibitor of MraY that is also toxic to eukaryotes through its binding to GPT. In this work, we have used tunicamycin and modified versions of tunicamycin as tool compounds to explore the active site of MraY and to gain further insight into what determines inhibitor potency. We have investigated tunicamycin variants where the following motifs have been modified: the length and branching of the tunicamycin fatty acyl chain, the saturation of the fatty acyl chain, the 6″-hydroxyl group of the GlcNAc ring, and the ring structure of the uracil motif. The compounds are analyzed in terms of how potently they bind to MraY, inhibit the activity of the enzyme, and affect the protein thermal stability. Finally, we rationalize these results in the context of the protein structures of MraY and GPT.
Cardiotonic agents. 4. Synthesis and biological evaluation of N-substituted 2,4,4a,5-tetrahydro-3H-indeno[1,2-c]pyridazin-3-ones: rigid structures derived from CI-930 and analogs (1986)

Several N-substituted 3H-indeno[1,2-c]pyridazinones (1-23) and a benzo[h]cinnolinone (24), which were designed as rigid structural modifications of 5-alkyl-4,5-dihydro-6-[4-N-substituted phenyl]-3(2H)-pyridazinones (ib-d), were synthesized and evaluated for positive inotropic activity. Most of these tricyclic pyridazinones (1-11, 14-15, 22-23) demonstrated potent positive inotropic activity comparable to the corresponding phenylpyridazinones related to I.
Magnetostrictive Roller-Drive Stepping Motor (1993)

Proposed motor based on magnetostrictive effect provides stepped angular motion with angular increments of order of 100 microradians. Driven to repeat stepping cycle rapidly enough to achieve maximum speed of about 20 rpm, provides torque an order of magnitude greater than electric motors, and brakes itself when power turned off. Magnetostrictive rods in electromagnet coils push against drive plate, causing it to rotate slightly. This slight rotation jams conical rollers between cam surfaces on outer drive ring and split drum, so rollers transmit rotation to drum. Suitable for precise, high-torque, fail-safe-braking, direct drive of robot joint, without bulk and weight of additional brake mechanism and gear train.
Synthesis and Reaction Chemistry of Nanosize Monosodium Titanate (2016)

This paper describes the synthesis and peroxide-modification of nanosize monosodium titanate (nMST), along with an ion-exchange reaction to load the material with Au(III) ions. The synthesis method was derived from a sol-gel process used to produce micron-sized monosodium titanate (MST), with several key modifications, including altering reagent concentrations, omitting a particle seed step, and introducing a non-ionic surfactant to facilitate control of particle formation and growth. The resultant nMST material exhibits spherical-shaped particle morphology with a monodisperse distribution of particle diameters in the range from 100 to 150 nm. The nMST material was found to have a Brunauer-Emmett-Teller (BET) surface area of 285 m(2)g(-1), which is more than an order of magnitude higher than the micron-sized MST. The isoelectric point of the nMST measured 3.34 pH units, which is a pH unit lower than that measured for the micron-size MST. The nMST material was found to serve as an effective ion exchanger under weakly acidic conditions for the preparation of an Au(III)-exchange nanotitanate. In addition, the formation of the corresponding peroxotitanate was demonstrated by reaction of the nMST with hydrogen peroxide.
InAs/InAsSb Type-II Strained-Layer Superlattice Infrared Photodetectors (2020)

The InAs/InAsSb (Gallium-free) type-II strained-layer superlattice (T2SLS) has emerged in the last decade as a viable infrared detector material with a continuously adjustable band gap capable of accommodating detector cutoff wavelengths ranging from 4 to 15 µm and beyond. When coupled with the unipolar barrier infrared detector architecture, the InAs/InAsSb T2SLS mid-wavelength infrared (MWIR) focal plane array (FPA) has demonstrated a significantly higher operating temperature than InSb FPA, a major incumbent technology. In this brief review paper, we describe the emergence of the InAs/InAsSb T2SLS infrared photodetector technology, point out its advantages and disadvantages, and survey its recent development.
Instrument for the noninvasive evaluation of human arterial endothelial function via measurement of changes in the transit time of an artificial pulse (2004)

Impairment of arterial endothelial function is an early event in atherosclerosis and correlates with the major risk factors for cardiovascular disease. The most widely used noninvasive measure of endothelial function involves the brachial artery (BA) diameter measurement using ultrasound imaging before and after several minutes of blood flow occlusion. The change in arterial diameter is a measure of flow-mediated vasorelaxation (FMVR). The high variability of results and high cost of instrumentation render this technique unsuitable for routine clinical use. We present an instrument we call the "relaxoscope" that is designed to overcome many obstacles that confine noninvasive assessment of FMVR to research settings. The relaxoscope induces an artificial pulse at the superficial radial artery via a linear actuator. An ultrasonic Doppler stethoscope detects this pulse 10-20 cm proximal to the point of pulse induction. The delay between pulse application and detection provides the pulse transit time (PTT). By measuring PTT before and after 5 minutes of BA occlusion and ensuing reactive hyperemia, FMVR may be measured based on the changes in PTT caused by changes in vessel caliber, smooth muscle tone and wall thickness. We compare the results obtained using the relaxoscope with M-mode BA diameter measurements in human subjects.
Abstract 5190: DNA aptamer-targeted periostin inhibits adhesion and migration of breast cancer (2012)

Abstract Tumor metastasis is multiple step pathological process involved in the final phase of tumor development. During this process, tumor cells obtain invasiveness and metastatic potential. Periostin, a mesenchyme-specific gene, has emerged as critical contributor of tumor metastasis and angiogenesis. Clinical evidence has supported that periostin are highly expressed in several cancers including breast, where it is associated with a poor outcome. Thus, periostin is a potential therapeutic target for the regulation of breast cancer growth and metastasis. In this study, we generated and characterized a DNA aptamer directed against human periostin (PNDAs) through utilization of Advanced-SELEX process. Aptamers have been selected that bind to periostin with nanomolar binding affinity (Kd: 1nM) and specificity. Furthermore, PNDA specifically binds to periostin which is expressed in breast cancer tissues and serum. In addition, PNDA treatment led to a reduction of integrin-mediated breast cancer cell migration and adhesion by 50%. Also, PNDA can significantly decrease activation of various components of integrin signal transduction pathways and their downstream effector molecules. Together, our data suggest that DNA aptamer targeting periostin may have potential as an agent to inhibit breast cancer growth and metastasis. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 5190. doi:1538-7445.AM2012-5190