gebhart/patrepeval huggingface dataset:
Arming an Oncolytic Herpes Simplex Virus Type 1 with a Single-chain Fragment Variable Antibody against PD-1 for Experimental Glioblastoma Therapy (2018)

NG34scFvPD-1 treatment induces a durable antitumor response in 2 preclinical mouse models of GBM with evidence for antitumor memory.
The D-Diastereomer of ShK Toxin Selectively Blocks Voltage-gated K+ Channels and Inhibits T Lymphocyte Proliferation (2007)

The polypeptide toxin ShK is a potent blocker of Kv1.3 potassium channels, which are crucial in the activation of human effector memory T cells (T(EM)); selective blockers constitute valuable therapeutic leads for the treatment of autoimmune diseases mediated by T(EM) cells, such as multiple sclerosis, rheumatoid arthritis, and type-1 diabetes. The critical motif on the toxin for potassium channel blockade consists of neighboring lysine and tyrosine residues. Because this motif is sufficient for activity, an ShK analogue was designed based on D-amino acids. D-allo-ShK has a structure essentially identical with that of ShK and is resistant to proteolysis. It blocked Kv1.3 with K(d) 36 nm (2,800-fold lower affinity than ShK), was 2-fold selective for Kv1.3 over Kv1.1, and was inactive against other K(+) channels tested. D-allo-ShK inhibited human T(EM) cell proliferation at 100-fold higher concentration than ShK. Its circulating half-life was only slightly longer than that of ShK, implying that renal clearance is the major determinant of its plasma levels. D-allo-ShK did not bind to the closed state of the channel, unlike ShK. Models of D-allo-ShK bound to Kv1.3 show that it can block the pore as effectively as ShK but makes different interactions with the vestibule, some of which are less favorable than for native ShK. The finding that an all-D analogue of a polypeptide toxin retains biological activity and selectivity is highly unusual. Being resistant to proteolysis and nonantigenic, this analogue should be useful in K(+) channel studies; all-d analogues with improved Kv1.3 potency and specificity may have therapeutic advantages.
MineFleet® (2010)

This paper describes the MineFleet distributed vehicle performance data mining system designed for commercial fleets. MineFleet analyzes high throughput data streams onboard the vehicle, generates the analytics, sends those to the remote server over the wide-area wireless networks and offers them to the fleet managers using stand-alone and web-based user-interface. The paper describes the overall architecture of the system, business needs, and shares experience from successful large-scale commercial deployments. MineFleet is probably one of the first commercially successful distributed data stream mining systems. This patented technology has been adopted, productized, and commercially offered by many large companies in the mobile resource management and GPS fleet tracking industry. This paper offers an overview of the system and offers a detailed analysis of what made it work.
hsa-miR-29c* Is Linked to the Prognosis of Malignant Pleural Mesothelioma (2010)

The inability to forecast outcomes for malignant mesothelioma prevents clinicians from providing aggressive multimodality therapy to the most appropriate individuals who may benefit from such an approach. We investigated whether specific microRNAs (miR) could segregate a largely surgically treated group of mesotheliomas into good or bad prognosis categories. A training set of 44 and a test set of 98 mesothelioma tumors were analyzed by a custom miR platform, along with 9 mesothelioma cell lines and 3 normal mesothelial lines. Functional implications as well as downstream targets of potential prognostic miRs were investigated. In both the training and test sets, hsa-miR-29c* was an independent prognostic factor for time to progression as well as survival after surgical cytoreduction. The miR was expressed at higher levels in epithelial mesothelioma, and the level of this miR could segregate patients with this histology into groups with differing prognosis. Increased expression of hsa-miR-29c* predicted a more favorable prognosis, and overexpression of the miR in mesothelioma cell lines resulted in significantly decreased proliferation, migration, invasion, and colony formation. Moreover, major epigenetic regulation of mesothelioma is mediated by hsa-miR-29c* and was shown through downregulation of DNA methyltransferases as well as upregulation of demethylating genes. A single miR has the potential to be a prognostic biomarker in mesothelioma, and validation of these findings as well as investigation of its downstream targets may give insight for potential therapies in the future.
Extracting word correspondences from bilingual corpora based on word co-occurrences information (1996)

A new method has been developed for extracting word correspondences from a bilingual corpus. First, the co-occurrence information for each word in both languages is extracted from the corpus. Then, the correlations between the co-occurrence features of the words are calculated pairwisely with the assistance of a basic word bilingual dictionary. Finally, the pairs of words with the highest correlations are output selectively. This method is applicable to rather small, unaligned corpora; it can extract correspondences between compound words as well as simple words. An experiment using bilingual patent-specification corpora achieved 28% recall and 76% precision; this demonstrates that the method effectively reduces the cost of bilingual dictionary augmenntation.
Automatic CT simulation optimization for radiation therapy: A general strategy (2014)

A general strategy to predict the optimal CT simulation protocols in a flexible and quantitative way was developed that takes into account patient size, treatment planning task, and radiation dose. The experimental study indicated that the optimal CT simulation protocol and the corresponding radiation dose varied significantly for different patient sizes, contouring accuracy, and radiation treatment planning tasks.
Reprogramming the Translation Initiation for the Synthesis of Physiologically Stable Cyclic Peptides (2008)

The initiation codon dictates that the translation initiation event exclusively begins with methionine. We report here a new technology to reprogram the initiation event, where various amino acids and those bearing N (alpha)-acyl groups can be used as an initiator for peptide synthesis. The technology is built upon the concept of genetic code reprogramming, where methionine is depleted from the translation system and the initiation codon is reassigned to the desired amino acid. We have applied this technology to the synthesis of an antitumor cyclic peptide, G7-18NATE, closed by a physiologically stable bond, and it is also extended to the custom synthesis of its analogues with various ring sizes. Significantly, cyclization occurs spontaneously upon translation of the precursor linear peptides. To demonstrate the practicality of this methodology, we also prepared a small cyclic peptide library designated by 160 distinct mRNAs. Thus, this technology offers a new means to prepare a wide array of in vivo compatible cyclic peptide libraries for the discovery of peptidic drug candidates against various therapeutic targets.
Short-circuit boundary conditions in ferroelectric<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:mrow><mml:mi mathvariant="normal">Pb</mml:mi><mml:mi mathvariant="normal">Ti</mml:mi><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn>3</mml:mn></mml:msub></mml:mrow></mml:math>thin films (2006)

We examine the application of short-circuit electrical boundary conditions in density-functional theory calculations of ferroelectric thin films. Modeling $\mathrm{Pb}\mathrm{Ti}{\mathrm{O}}_{3}$ films with metallic electrodes, we demonstrate that under periodic boundary conditions of supercells, short-circuit conditions for the electrodes are equivalently satisfied in two repeated slab geometries: a $\mathrm{Pb}\mathrm{Ti}{\mathrm{O}}_{3}$/metal superlattice geometry and a periodic metal/$\mathrm{Pb}\mathrm{Ti}{\mathrm{O}}_{3}$/metal/vacuum geometry, where the metal is Pt or $\mathrm{Sr}\mathrm{Ru}{\mathrm{O}}_{3}$. We discuss the benefits of each geometry in the study of ferroelectricity in thin films.
Prospects for anti-rejection therapies based upon CD8-dependent immunoregulation. (1993)

In this article we propose that anti-rejection immunotherapies for countering acute allograft rejection can be designed around manipulation of the cell surface phenotype of alloantigen-presenting cells (allo-APCs) in ways that convert them from T cell activators to inhibitors. It is further suggested that a class of molecules, termed "coinhibitors," can be defined that carry out this APC conversion process. Data are summarized indicating that the human lymphoid cell surface molecule CD8 has such a trans-coinhibitor function which is in addition to the cis-coreceptor and adhesin functions traditionally ascribed to it. Antisense and sense gene transfer studies indicate that CD8 on the surface of allo-APCs leads to inhibition of allospecific T cell responders. We have explored the possibility of using protein, rather than gene, transfer as a therapeutic strategy for delivering CD8 to APC surfaces. Two membrane-binding variants of CD8 have been assembled to show retention of the coinhibitor function of native CD8. Immunotherapeutic possibilities associated with these chimeric CD8 polypeptides in the clinical context of renal and other organ transplantation are considered.
Woven Fabric-Based Electrical Circuits (2004)

One important problem in electronic textiles is crosstalk and lack of signal integrity between conductive lines. Two significant advantages of electronic textiles over tradi tional circuit boards are flexibility and the ability to scale to large areas. Capacitive and inductive crosstalk is aggravated by long parallel conductors, and varies as the electronic textile is flexed into different configurations. This paper evaluates crosstalk between woven parallel conductors. Two new thread structures—coaxial and twisted pair copper threads—to minimize cross talk are developed and evaluated. Significant reductions in crosstalk are obtained with the coaxial and twisted pair thread structures when compared with bare copper threads or insulated conductive threads.
Optimistic parallelism requires abstractions (2007)

Irregular applications, which manipulate large, pointer-based data structures like graphs, are difficult to parallelize manually. Automatic tools and techniques such as restructuring compilers and run-time speculative execution have failed to uncover much parallelism in these applications, in spite of a lot of effort by the research community. These difficulties have even led some researchers to wonder if there is any coarse-grain parallelism worth exploiting in irregular applications.
Extraction of Finger-Vein Patterns Using Maximum Curvature Points in Image Profiles (2007)

A biometrics system for identifying individuals using the pattern of veins in a finger was previously proposed. The system has the advantage of being resistant to forgery because the pattern is inside a finger. Infrared light is used to capture an image of a finger that shows the vein patterns, which have various widths and brightnesses that change temporally as a result of fluctuations in the amount of blood in the vein, depending on temperature, physical conditions, etc. To robustly extract the precise details of the depicted veins, we developed a method of calculating local maximum curvatures in cross-sectional profiles of a vein image. This method can extract the centerlines of the veins consistently without being affected by the fluctuations in vein width and brightness, so its pattern matching is highly accurate. Experimental results show that our method extracted patterns robustly when vein width and brightness fluctuated, and that the equal error rate for personal identification was 0.0009%, which is much better than that of conventional methods.
Effects of Rare Earth Oxide Addition on NdFeB Magnets (1988)

The effects of addition of rare-earth oxides on the magnetic properties of Nd-Fe-B sintered magnets are studied. The addition of Dy <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> and Tb <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">4</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">7</sub> leads to an increase in intrinsic coercivity. For addition of Dy <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> , the optimum conditions for powder mixing and the optimum Dy <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> particle size were determined. A mixing time of more than 10 minutes, and a Dy <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> particle size of less than 3 μm, are required to obtain a high intrinsic coercivity. EPMA measurements of NdFeBAl magnets with Dy <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> added reveal an inhomogeneous distribution of Dy in the Nd <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> Fe <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">14</sub> B matrix: the material is Dy-rich near grain boundaries, but Dy-poor within the matrix. The appearance of such an inhomogeneous distribution of Dy is attributed to the reduction of Dy <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> in the Nd-rich phases, followed by diffusion of the resulting Dy atoms into the matrix.
Serum Autoantibodies as Biomarkers for Parkinsons Disease: Background and Utility (2015)

There are no definitive diagnostic tests for early detection, diagnosis and staging of Parkinson's disease (PD). Available methods have thus far failed to yield high accuracy, are expensive, and can be highly invasive to the patient. The use of serum biomarkers for the diagnosis of early-stage PD has the potential to provide an accurate, inexpensive, and non-invasive alternative to conventional tests. Recently, investigations into the role of the immune system in the development of PD and other diseases have led to the identification of potential PD-specific autoantibodies. This mini review focuses on the background and utility of these autoantibodies as diagnostic biomarkers of PD. Advantages of serum biomarkers as well as potential benefits of a blood-based diagnostic test to clinical medicine are discussed.
Interference suppression using repeated reduced rank adaptive filtering in Fractional Fourier Transform domains (2017)

The Fractional Fourier Transform (FrFT) is a powerful tool that cancels interference and noise in non-stationary, real-world, environments to pull out a signal-of-interest (SOI). This requires estimation of the best rotational parameter `a' to rotate the signal to a new domain along an axis `t <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">a</sub> ' for filtering. The value of `a' is usually chosen to give the minimum mean-square error (MMSE) between the desired SOI and its estimate. Recently, a technique was presented that uses repeated MMSE-FrFT filtering. This is done with a training sequence using mean-square error (MSE) as the metric by which to compute `a' at each stage. This simple approach improves performance over conventional single stage MMSE-FrFT methods or methods based solely on filtering in frequency using an FFT. In this paper we apply repeated reduced rank adaptive filtering using a multistage Wiener filter (MWF). We show that the proposed MMSE-MWF-FrFT repeated filtering method significantly reduces the MSE over the repeated MMSE-FrFT method typically with just L = 1 or 2 stages and a nominal filter rank, D = 5, vs. L = 3 for MMSE. This is demonstrated by simulation using non-stationary channels as well as two types of non-stationary interference: chirp and Gaussian signals, at signal-to-noise ratios (SNRs) as low as 0 dB and carrier-to-noise ratios (CIRs) also down to 0 dB. Reduction in MSE from 0.001 to 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-4</sup> or 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-5</sup> , or lower, is observed.
A simple bi-directional node for WDM virtual ring networks (2002)

We have demonstrated operation of a bi-directional node for WDM virtual ring networks at OC-48 rates. We found that even with 40 km of fiber on each input side to the ring, scattering impairments were insufficient to cause serious performance degradation.
Endometrial miRNome profile according to the receptivity status and implantation failure (2020)

This is a retrospective study to evaluate if the miRNome profile of endometrium samples collected during the implantation window predicts Assisted Reproduction Technology (ART) outcomes. We first investigated the endometrial miRNome profile according to the receptivity status in 20 patients with repeated implantation failures (RIF) (discovery cohort). After customized embryo transfer, the miRNome profiles of receptive patients with a positive or negative β-hCG, and with early miscarriage or live birth were analysed. Some differentially expressed miRNAs were selected for validation by RT-qPCR in endometrial samples from 103 RIF patients (validation cohort). Analysis of the different miRNome profiles identified endometrial receptivity, implantation failure, and early miscarriage-associated miRNA signatures that included 11, 261, and 76 miRNAs, respectively. However, only four miRNAs associated with the endometrial receptivity status (miR-455-3p and miR-4423-3p) and implantation failure (miR-152-3p and miR-155-5p) were significantly validated in endometrial samples. The miRNome profile of endometrial tissues during the implantation window can predict the pregnancy outcome. These data are crucial for opening new perspectives to predict implantation failure and consequently, to increase ART success.
SSZ-70 borosilicate delamination without sonication: effect of framework topology on olefin epoxidation catalysis (2018)

We report a scalable delamination procedure for a SSZ-70-framework layered-zeolite precursor, which for the first time does not involve either sonication or long-chain surfactants. Our approach instead relies on the mild heating of layered zeolite precursor B-SSZ-70(P) in an aqueous solution containing Zn(NO3)2 and tetrabutylammonium fluoride. Powder X-ray diffraction data are consistent with a loss of long-range order along the z-direction, while 29Si MAS NMR spectroscopy demonstrates preservation of the zeolite framework crystallinity during delamination. The resulting delaminated material, DZ-2, possesses 1.4-fold higher external surface area relative to the nondelaminated three-dimensional zeolite B-SSZ-70, based on N2 physisorption data at 77 K. DZ-2 was functionalized with cationic Ti heteroatoms to synthesize Ti-DZ-2 via exchange with framework B. Ti-DZ-2 contains isolated titanium centers in its crystalline framework, as shown by UV-Vis spectroscopy. The generality of the synthetic delamination approach and catalyst synthesis is demonstrated with the synthesis of delaminated material DZ-3, which is derived from layered zeolite precursor ERB-1(P) with MWW framework topology. Upon catalytic testing for the epoxidation of 1-octene with ethylbenzene hydroperoxide as oxidant, under harsh tail-end conditions that deactivate amorphous Ti-silica-based catalysts, Ti-DZ-2 exhibits the highest per-Ti-site activity, selectivity, and stability for 1-octene epoxidation of all catalysts investigated. This testing includes the prior benchmark delaminated zeolite catalyst in this area, Ti-UCB-4, which possesses similar external surface area to Ti-DZ-2 but requires sonication and long-chain surfactants for its synthesis. The synthesis of DZ-2 is the first example of an economical delamination of layered zeolite precursor SSZ-70(P) and opens up new doors to the development of delaminated zeolites as commercial catalysts.
Single-Blind Placebo-Controlled Response Test with Phenytoin 10% Cream in Neuropathic Pain Patients (2018)

The SIBRET helps patients and clinicians to quickly identify the appropriate treatment and can thus be seen as an important contributor to the domain of personalized medicine in pain. These results can also be regarded as a proof of principle for the analgesic activity of 10% phenytoin cream.