gebhart/patrepeval huggingface dataset:
Microfluidic remote loading for rapid single-step liposomal drug preparation (2014)

Microfluidic-directed formation of liposomes is combined with in-line sample purification and remote drug loading for single step, continuous-flow synthesis of nanoscale vesicles containing high concentrations of stably loaded drug compounds. Using an on-chip microdialysis element, the system enables rapid formation of large transmembrane pH and ion gradients, followed by immediate introduction of amphipathic drug for real-time remote loading into the liposomes. The microfluidic process enables in-line formation of drug-laden liposomes with drug : lipid molar ratios of up to 1.3, and a total on-chip residence time of approximately 3 min, representing a significant improvement over conventional bulk-scale methods which require hours to days for combined liposome synthesis and remote drug loading. The microfluidic platform may be further optimized to support real-time generation of purified liposomal drug formulations with high concentrations of drugs and minimal reagent waste for effective liposomal drug preparation at or near the point of care.
A Mitochondrial Target Sequence Polymorphism in Manganese Superoxide Dismutase Predicts Inferior Survival in Breast Cancer Patients Treated with Cyclophosphamide (2009)

The Val16Ala polymorphism affects survival of patients receiving cyclophosphamide-containing chemotherapy. The findings provide the first evidence pointing toward a mechanism for cyclophosphamide resistance in breast cancer patients.
Empirical Methods for Compound Splitting (2003)

Compounded words are a challenge for NLP applications such as machine translation (MT). We introduce methods to learn splitting rules from monolingual and parallel corpora. We evaluate them against a gold standard and measure their impact on performance of statistical MT systems. Results show accuracy of 99.1% and performance gains for MT of 0.039 BLEU on a German-English noun phrase translation task.
A pose‐invariant approach for hypothesis support (2003)

Abstract This article presents a tractable and empirically accurate algorithm realizing a midlevel visual process for pattern recognition. The algorithm takes advantage of hypotheses provided by a high‐level visual process, thereby, attempting to extract a region in an image based on these hypotheses. The main focus is to recognize quadrilateral as well as arbitrarily shaped objects from synthetic and real‐world images. The novel approach is based on a study of the Hough Transform and its generalized version. To show overall usefulness of the algorithm, an extensive series of experiments was performed. In particular, occlusion and multiple object‐instances were tested, indicating the effectiveness of this work's approach.© 2003 Wiley Periodicals, Inc. Int J Imaging Syst Technol, 13, 201–207;2003; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/ima.10056
A copper(i)-ion selective two-photon fluorescent probe for in vivo imaging (2011)

We report a two-photon fluorescent probe (ACu1) that can be excited by 750 nm femto-second pulses, shows high photostability and negligible toxicity, and can visualize Cu(+) distribution in live cells and tissues by two-photon microscopy.
Hydrolysis of lactose by a thermostable β‐galactosidase immobilised on DEAE‐cellulose (1980)

Abstract A method is described for the attachment of whole cells of Bacillus stearothermophilus to an ion‐exchange support such as DEAE‐cellulose by covalent linkage. This system enables full retention of the β‐galactosidase activity of the cells. The enzyme activity immobilised in this way is extremely thermostable with a half‐life of approximately 15 days at 60°C and pH 7. The pH optimum appears to be about 6.4 and the immobilised system hydrolyses lactose in dairy products such as whey and skim milk.
Whole Blood Biomarkers of Acute Cardiac Allograft Rejection: Double-Crossing the Biopsy (2010)

Most of the probesets replicated between biopsy and blood are regulated in opposite direction between the two sources of information. We also observed that the biopsy-targeted blood biomarker discovery approach can improve performance of the biomarker panel. The biomarker panel developed using this targeted approach is able to diagnose acute cardiac allograft rejection almost as well as the biopsy-only based biomarker panel.
Novel design method for sub-miniature MEMS microphones with enhanced acoustic SNR (2023)

A well understood performance limitation in the conventional design of MEMS microphones relates to the dimensions of the back volume, which, along with the barometric vent, sets the ultimate limit of acoustic noise in the system, regardless of the microphone transduction principle. The acoustic noise in the back volume is generated from the heat flow within the thermal boundary layer near the isothermal walls. In this paper, a new and previously unused part of the back volume design space is explored, in which the primary loss mechanism is thermal (as opposed to viscous), and the effective thermal conductivity and heat capacitance of the gas in the volume is designed to achieve low acoustic noise in extremely small enclosures. In this new regime, the acoustic SNR in frequency bands of interest can be optimized to achieve values comparable or even larger than those in the conventional design space with much larger enclosures. The primary trade-off in design relates to achievable acoustic SNR versus necessary acoustic compliance with the selected transduction principle. Underlying principles and design examples are presented with supporting measurements from prototype devices, showing acoustic SNR in excess of 70 dB with a back volume of less than 0.2 mm3.
Utilizing Fused Features to Mine Unknown Clusters in Training Data (2006)

In this paper, a previously introduced data mining technique, utilizing the mean field Bayesian data reduction algorithm (BDRA), is extended for use in finding unknown data clusters in a fused multidimensional feature space. In the BDRA the modeling assumption is that the discrete symbol probabilities of each class are a priori uniformly Dirichlet distributed, and where the primary metric for selecting and discretizing all relevant features is an analytic formula for the probability of error conditioned on the training data. In extending the BDRA for this application, notice that its built-in dimensionality reduction aspects are exploited for isolating and automatically sorting out and mining all points contained in each unknown data cluster. To illustrate performance, results are demonstrated using simulated data containing multiple clusters, and where the fused feature space contains relevant classification information
Recognition of Blood Group ABH Type 1 Determinants by the FedF Adhesin of F18-fimbriated Escherichia coli (2009)

F18-fimbriated Escherichia coli are associated with porcine postweaning diarrhea and edema disease. Adhesion of F18-fimbriated bacteria to the small intestine of susceptible pigs is mediated by the minor fimbrial subunit FedF. However, the target cell receptor for FedF has remained unidentified. Here we report that F18-fimbriated E. coli selectively interact with glycosphingolipids having blood group ABH determinants on type 1 core, and blood group A type 4 heptaglycosylceramide. The minimal binding epitope was identified as the blood group H type 1 determinant (Fucalpha2Galbeta3GlcNAc), while an optimal binding epitope was created by addition of the terminal alpha3-linked galactose or N-acetylgalactosamine of the blood group B type 1 determinant (Galalpha3(Fucalpha2)Galbeta3GlcNAc) and the blood group A type 1 determinant (GalNAcalpha3(Fucalpha2)-Galbeta3GlcNAc). To assess the role of glycosphingolipid recognition by F18-fimbriated E. coli in target tissue adherence, F18-binding glycosphingolipids were isolated from the small intestinal epithelium of blood group O and A pigs and characterized by mass spectrometry and proton NMR. The only glycosphingolipid with F18-binding activity of the blood group O pig was an H type 1 pentaglycosylceramide (Fucalpha2Galbeta3GlcNAc-beta3Galbeta4Glcbeta1Cer). In contrast, the blood group A pig had a number of F18-binding glycosphingolipids, characterized as A type 1 hexaglycosylceramide (GalNAcalpha3(Fucalpha2)Galbeta3GlcNAcbeta3Galbeta4Glcbeta1Cer), A type 4 heptaglycosylceramide (GalNAcalpha3(Fucalpha2)Galbeta3GalNAcbeta3Galalpha4Galbeta4Glcbeta1Cer), A type 1 octaglycosylceramide (GalNAcalpha3(Fucalpha2)Galbeta3GlcNAcbeta3Galbeta3GlcNAcbeta3Galbeta4Glcbeta1Cer), and repetitive A type 1 nonaglycosylceramide (GalNAcalpha3(Fucalpha2)Galbeta3GalNAcalpha3-(Fucalpha2)Galbeta3GlcNAcbeta3Galbeta4Glcbeta1Cer). No blood group antigen-carrying glycosphingolipids were recognized by a mutant E. coli strain with deletion of the FedF adhesin, demonstrating that FedF is the structural element mediating binding of F18-fimbriated bacteria to blood group ABH determinants.
Organometallic chemical vapor deposition of high <i>T</i> <i>c</i> superconducting Bi-Sr-Ca-Cu-O films (1989)

Films of the high Tc Bi-Sr-Ca-Cu-O superconductor have been prepared by organometallic chemical vapor deposition using the volatile metalorganic precursors Cu(acetylacetonate)2 , Sr(dipivaloylmethanate)2 , and Ca(dipivaloylmethanate)2, and triphenylbismuth. Deposition is carried out at 2 Torr with argon as the carrier gas and oxygen and water vapor as reactants. Film growth rates of 2–3 μm/h are achieved. After annealing under oxygen, energy dispersive x-ray analysis and x-ray diffraction data reveal that such films on [100] single-crystal MgO consist predominantly of the Bi2(Sr,Ca)3Cu2Ox, Tc=85 K, phase and have preferential orientation of the crystallite c axes perpendicular to the substrate surface. Four-probe resistivity measurements reveal the onset of film superconductivity at ∼110 K and zero resistance by 75 K.
Information Leakage-Aware Computer-Aided Cyber-Physical Manufacturing (2018)

Cyber-physical additive manufacturing systems consist of tight integration of cyber and physical domains. This union, however, induces new cross-domain vulnerabilities that pose unique security challenges. One of these challenges is preventing confidentiality breach, caused by physical-to-cyber domain attacks. In this form of attack, attackers utilize the side-channels (such as acoustics, power, electromagnetic emissions, and so on) in the physical-domain to estimate and steal cyber-domain data (such as G/M-codes). Since these emissions depend on the physical structure of the system, one way to minimize the information leakage is to modify the physical-domain. However, this process can be costly due to added hardware modification. Instead, we propose a novel methodology that allows the cyber-domain tools [such as computer aided-manufacturing (CAM)] to be aware of the existing information leakage. Then, we propose to change either machine process or product design parameters in the cyber-domain to minimize the information leakage. Our methodology aids the existing cyber-domain and physical-domain security solution by utilizing the cross-domain relationship. We have implemented our methodology in a fused-deposition modeling-based Cartesian additive manufacturing system. Our methodology achieves reduction of mutual information by 24.94% in acoustic side-channel, 32.91% in power side-channel, 32.29% in magnetic side-channel, and 55.65% in vibration side-channel. As a case study, to help understand the implication of mutual information drop, we have also presented the calculation of success rate and the reconstruction of the 3D object based on an attack model. For the given attack model, our leakage-aware CAM tool decreases the success rate of an attacker by 8.74% and obstructs the reconstruction of finer geometry details.
A MAGE‐3 peptide presented by HLA‐B44 is also recognized by cytolytic T lymphocytes on HLA‐B18 (2002)

Antigens encoded by MAGE genes are of particular interest for cancer immunotherapy because of their tumoral specificity and because they are shared by many tumors. Antigenic peptide MEVDPIGHLY, which is encoded by MAGE-3 and is known to be presented by human leukocyte antigen (HLA)-B44, is currently being used in therapeutic vaccination trials. We report here that a cytolytic T lymphocyte (CTL) clone, which is restricted by HLA-B*1801, recognizes the same peptide and, importantly, lyzes HLA-B18 tumor cells expressing MAGE-3. These results imply that the use of peptide MEVDPIGHLY can now be extended to HLA-B18 patients. We also provide evidence that, under limiting amounts of protein MAGE-3, HLA B*1801 and B*4403 compete for binding to the peptide.
Rewiring the severe acute respiratory syndrome coronavirus (SARS-CoV) transcription circuit: Engineering a recombination-resistant genome (2006)

Live virus vaccines provide significant protection against many detrimental human and animal diseases, but reversion to virulence by mutation and recombination has reduced appeal. Using severe acute respiratory syndrome coronavirus as a model, we engineered a different transcription regulatory circuit and isolated recombinant viruses. The transcription network allowed for efficient expression of the viral transcripts and proteins, and the recombinant viruses replicated to WT levels. Recombinant genomes were then constructed that contained mixtures of the WT and mutant regulatory circuits, reflecting recombinant viruses that might occur in nature. Although viable viruses could readily be isolated from WT and recombinant genomes containing homogeneous transcription circuits, chimeras that contained mixed regulatory networks were invariantly lethal, because viable chimeric viruses were not isolated. Mechanistically, mixed regulatory circuits promoted inefficient subgenomic transcription from inappropriate start sites, resulting in truncated ORFs and effectively minimize viral structural protein expression. Engineering regulatory transcription circuits of intercommunicating alleles successfully introduces genetic traps into a viral genome that are lethal in RNA recombinant progeny viruses.
Oral L-glutamine therapy for sickle cell anemia: I. subjective clinical improvement and favorable change in red cell NAD redox potential (1998)

Previously, we demonstrated that there is an increased utilization of glutamine by intact sickle red blood cells (RBC) in conjunction with nicotinamide adenine dinucleotide (NAD) metabolism in vitro. In this report, we describe the in vivo effect of L-glutamine supplementation on total NAD, nicotinamide adenine dinucleotide reduced (NADH), and NAD redox potential of sickle RBC. Seven adult sickle cell anemia patients participated in this study. The exclusion criteria were pregnancy, previous or current use of hydroxyurea, and transfusion within 3 months of initiation of the study. After proper consent, L-glutamine was started at a dose of 30 g/day administered orally. Fasting blood samples were drawn at baseline and after 4 weeks of therapy by routine phlebotomy for evaluation of RBC total NAD and NADH levels. We found significant changes in both the NADH level and NAD redox potential (ratio of NADH to NAD+ + NADH). NAD redox potential increased from 47.2 +/- 3.7% to 62.1 +/- 11.8% (P < 0.01). The NADH level increased from 47.5 +/- 6.3 to 72.1 +/- 15.1 nmol/ml RBC (P < 0.01). The total NAD level demonstrated an upward trend (from 101.2 +/- 16 to 116.4 +/- 14.7 nmol/ml RBC) but this was not statistically significant. Our data show that oral L-glutamine can significantly increase the NAD redox potential and NADH level in sickle RBC. These changes may decrease oxidative susceptibility of sickle RBC and result in clinical benefit.
Very low noise avalanche detection (2001)

Recent theoretical work has shown that the excess noise of an avalanche can be quenched in high-frequency fields. In this brief, we propose a circuit to exploit this result and achieve very low noise avalanche photodiodes. The circuit also has the potential to discriminate against dark counts.
<title>Can a coupling coefficient of a piezoelectric device be higher than those of its active material?</title> (1997)

A coupling coefficient is a measure of the effectiveness with which a shape-changing material (or a device employing such a material) converts the energy in an imposed signal to useful mechanical energy. There are different kinds of material and device coupling coefficients, corresponding to different modes of excitation and response. Device coupling coefficients are properties of the device and, although related to the material coupling coefficients, are generally different from them. It is commonly held that a device coupling coefficient cannot be greater than some corresponding coupling coefficient of the active material used in the device. A class of devices was recently identified in which the apparent coupling coefficient can, in principle, approach 1.0, corresponding to perfect electromechanical energy conversion. The key feature of this class of devices is the use of destabilizing mechanical pre- loads to counter inherent stiffness. The approach is illustrated for a piezoelectric bimorph device: theory predicts a smooth increase of the apparent coupling coefficient with pre-load, approaching 1.0 at the buckling load. An experiment verified the trend of increasing coupling with pre-load. This approach provides a way to simultaneously increase both displacement and force, distinguishing it from alternatives such as motion amplification, and may allow transducer designers to achieve substantial performance gains for some actuator and sensor devices.
Rubber-Thermoplastic Compositions. Part VIII. Nitrile Rubber Polyolefin Blends with Technological Compatibilization (1983)

Abstract The results of this work suggest a practical route to hot-oil-resistant thermoplastic elastomers based on NBR and a polyolefin resin (such as polypropylene). Although these two types of polymer are normally grossly incompatible with each other, a melt-mixed blend thereof is technologically improved by the presence of a small amount of a compatibilizing block copolymer which contains both polar and nonpolar segments. Ideally, the block copolymer should contain molecular segments of the types of polymers to be compatibilized. The compatibilizing block (graft) copolymer can form in situ during melt-mixing. Dynamic vulcanization (during melt-mixing) of a compatibilized NBR-polypropylene blend produces a thermoplastic elastomer with mechanical properties about as good as those of a corresponding composition of EPDM and polypropylene (two polymers which are nearly mutually compatible in a thermodynamic sense). The compatibilizing NBR-polypropylene graft copolymer might act by reducing (molten-state) interfacial tension at the NBR-polypropylene interface and also by increasing the interfacial adhesion in the “solidified-state” composition during its use. The hot-oil resistance of the compatibilized NBR-polypropylene thermoplastic vulcanizates is excellent. Also, the NBR-polypropylene compositions can be blended with thermoplastic vulcanizates based on EPDM and polypropylene to obtain thermoplastic elastomeric compositions which exhibit both good hot oil resistance and low temperature brittleness characteristics.
<title>Practical verification of hologram multiplexing without beam movement</title> (1993)

Holographic recording for data storage typically utilizes angular multiplexing for effectively accomplishing a 3D packing of data in the media. For large storage systems this results in very complex optical paths. Multiplexing by employing an orthogonal set of phase encoded references is an elegant answer to this problem. The results of experiments where as many as forty holograms are multiplexed in an SBN crystal using this technique are reported. Efficiency versus number of pages for different write times and crosstalk for various configurations is shown.© (1993) COPYRIGHT SPIE--The International Society for Optical Engineering. Downloading of the abstract is permitted for personal use only.
Skippy: Enabling Long-Lived Snapshots of the Long-Lived Past (2008)

Decreasing disk costs have made it practical to retain long- lived snapshots, enabling new applications that analyze past states and infer about future states. Current approaches offer no satisfactory way to organize long-lived snapshots because they disrupt the database in either short or long run. Split snapshots are a recent approach that overcomes some of the limitations. An unsolved problem has been how to support efficient application code access to arbitrarily long-lived snapshots. We describe Skippy, a new approach that solves this problem. Performance evaluation of Skippy, based on theoretical analysis and experimental measurements, indicates that the new approach is effective and efficient.
Functional Elimination of Calmodulin within the Nucleus by Targeted Expression of an Inhibitor Peptide (1995)

Genetic manipulation has proven valuable in identifying the role of specific genes in cellular function. Genomic disruption of genes that are expressed during embryonic development or in multiple tissue types, however, complicates phenotypic analysis. We demonstrate that targeted expression of an inhibitor peptide derived from myosin light chain kinase can neutralize the function of calmodulin. We have shown that elimination of the nuclear function of Ca(2+)-calmodulin causes disruption of the nuclear structure. Targeted expression of this calmodulin inhibitor gene in the lung epithelium of transgenic mice leads to cellular death and dysfunctional lung development. This approach is a strategy to modify the activity of a targeted protein within a specific organelle in order to evaluate its role in cellular and tissue function.
The positron emission mammography/tomography breast imaging and biopsy system (PEM/PET): design, construction and phantom-based measurements (2008)

Tomographic breast imaging techniques can potentially improve detection and diagnosis of cancer in women with radiodense and/or fibrocystic breasts. We have developed a high-resolution positron emission mammography/tomography imaging and biopsy device (called PEM/PET) to detect and guide the biopsy of suspicious breast lesions. PET images are acquired to detect suspicious focal uptake of the radiotracer and guide biopsy of the area. Limited-angle PEM images could then be used to verify the biopsy needle position prior to tissue sampling. The PEM/PET scanner consists of two sets of rotating planar detector heads. Each detector consists of a 4 x 3 array of Hamamatsu H8500 flat panel position sensitive photomultipliers (PSPMTs) coupled to a 96 x 72 array of 2 x 2 x 15 mm(3) LYSO detector elements (pitch = 2.1 mm). Image reconstruction is performed with a three-dimensional, ordered set expectation maximization (OSEM) algorithm parallelized to run on a multi-processor computer system. The reconstructed field of view (FOV) is 15 x 15 x 15 cm(3). Initial phantom-based testing of the device is focusing upon its PET imaging capabilities. Specifically, spatial resolution and detection sensitivity were assessed. The results from these measurements yielded a spatial resolution at the center of the FOV of 2.01 +/- 0.09 mm (radial), 2.04 +/- 0.08 mm (tangential) and 1.84 +/- 0.07 mm (axial). At a radius of 7 cm from the center of the scanner, the results were 2.11 +/- 0.08 mm (radial), 2.16 +/- 0.07 mm (tangential) and 1.87 +/- 0.08 mm (axial). Maximum system detection sensitivity of the scanner is 488.9 kcps microCi(-1) ml(-1) (6.88%). These promising findings indicate that PEM/PET may be an effective system for the detection and diagnosis of breast cancer.