gebhart/patrepeval huggingface dataset:
Active optical zoom for space-based imaging (2006)

The development of sensors that are compact, lighter weight, and adaptive is critical for the success of future military initiatives. Space-based systems need the flexibility of a wide FOV for surveillance while simultaneously maintaining high-resolution for threat identification and tracking from a single, nonmechanical imaging system. In order to meet these stringent requirements, the military needs revolutionary alternatives to conventional imaging systems. We will present recent progress in active optical (aka nonmechanical) zoom for space applications. Active optical zoom uses multiple active optics elements to change the magnification of the imaging system. In order to optically vary the magnification of an imaging system, continuous mechanical zoom systems require multiple optical elements and use fine mechanical motion to precisely adjust the separations between individual or groups of elements. By incorporating active elements into the optical design, we have designed, demonstrated, and patented imaging systems that are capable of variable optical magnification with no macroscopic moving parts.
Advances and Open Problems in Backscatter Networking (2021)

Despite significant research in backscatter communication over the past decade, key technical open problems remain underexplored. Here, we first systematically lay out the design space for backscatter networking and identify applications that make backscatter an attractive communication primitive. We then identify 10 research problems that remain to be solved in backscatter networking. These open problems span across the network stack to include circuits, embedded systems, physical layer, MAC and network protocols as well as applications. We believe that addressing these problems can help deliver on backscatter's promise of low-power ubiquitous connectivity.
T cell receptor–targeted immunotherapeutics drive selective in vivo HIV- and CMV-specific T cell expansion in humanized mice (2021)

To delineate the in vivo role of different costimulatory signals in activating and expanding highly functional virus-specific cytotoxic CD8+ T cells, we designed synTacs, infusible biologics that recapitulate antigen-specific T cell activation signals delivered by antigen-presenting cells. We constructed synTacs consisting of dimeric Fc-domain scaffolds linking CD28- or 4-1BB-specific ligands to HLA-A2 MHC molecules covalently tethered to HIV- or CMV-derived peptides. Treatment of HIV-infected donor PBMCs with synTacs bearing HIV- or CMV-derived peptides induced vigorous and selective ex vivo expansion of highly functional HIV- and/or CMV-specific CD8+ T cells, respectively, with potent antiviral activities. Intravenous injection of HIV- or CMV-specific synTacs into immunodeficient mice intrasplenically engrafted with donor PBMCs markedly and selectively expanded HIV-specific (32-fold) or CMV-specific (46-fold) human CD8+ T cells populating their spleens. Notably, these expanded HIV- or CMV-specific CD8+ T cells directed potent in vivo suppression of HIV or CMV infections in the humanized mice, providing strong rationale for consideration of synTac-based approaches as a therapeutic strategy to cure HIV and treat CMV and other viral infections. The synTac platform flexibility supports facile delineation of in vivo effects of different costimulatory signals on patient-derived virus-specific CD8+ T cells, enabling optimization of individualized therapies, including HIV cure strategies.
Synthesis of 5‐Nitrotetrazolates by the Direct Oxidation of 5‐Aminotetrazole in a Single‐Pot Synthesis without Isolation of Explosive Intermediates (2020)

A readily available oxidizer, potassium superoxide can be used for the oxidation of 5-amino-1H-tetrazole (5-AT) to 5-nitrotetrazole (5-NT) in high yields in a single-pot synthesis. This strategy reduces the synthesis of this important energetic material down to a single step and eliminates highly sensitive diazonium and copper salt primary explosive intermediates. Use of dimethyl sulfoxide along with molecular sieves and 18-crown-6 as phase transfer catalyst promoted faster reaction rates and greater yield. The overall yield of this process is 48-53 % and the resultant aqueous solution of product was effectively used for the preparation of nitrotetrazole-containing primary explosive DBX-1. Unlike current methods of nitrotetrazole preparation, this entirely solution-based route results in a final solution of sodium nitrotetrazolate, without the need to handle energetic intermediates or products, making it the safest method of nitrotetrazole preparation reported to date.
Enlargement of effective area of effectively single-mode all-solid photonic bandgap fiber with low bending loss (2012)

Effectively single-mode all-solid photonic bandgap fiber with an effective area of 830 μm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> and a bending loss of less than 0.1 dB/m at a bending radius of 15-cm has been demonstrated.
Normal human immunoglobulins for intravenous use (IVIg) delay hyperacute xenograft rejection through F(ab')2-mediated anti-complement activity (1997)

Xenotransplantation between discordant species leads to a hyperacute rejection mediated by natural antibodies, both of the IgG and IgM isotypes, activation of complement and endothelial cell activation. The combination of these mechanisms leads to a transplant survival of minutes to a few hours. Polyclonal human immunoglobulins for intravenous use (IVIg) from normal donors have proved effective in a number of antibody-mediated disorders, as well as in inflammatory disorders. We demonstrate that administration of IVIg in a guinea pig to rat model of cardiac xenografting can effectively delay hyperacute rejection. This effect is mediated by the F(ab′)2 fragments of IVIg, and is correlated to an anti-complementary activity.
Microwave tomography: two-dimensional system for biological imaging (1996)

Microwave tomographic imaging is one of the new technologies which has the potential for important applications in medicine. Microwave tomographically reconstructed images may potentially provide information about the physiological state of tissue as well as the anatomical structure of an organ. A two-dimensional (2-D) prototype of a quasi real-time microwave tomographic system was constructed. It was utilized to reconstruct images of physiologically active biological tissues such as an explanted canine perfused heart. The tomographic system consisted of 64 special antennae, divided into 32 emitters and 32 receivers which were electronically scanned. The cylindrical microwave chamber had an internal diameter of 360 mm and was filled with various solutions, including deionized water. The system operated on a frequency of 2.45 GHz. The polarization of the incident electromagnetic field was linear in the vertical direction. Total acquisition time was less than 500 ms. Both accurate and approximation methods of image reconstruction were used. Images of 2-D phantoms, canine hearts, and beating canine hearts have been achieved. In the worst-case situation when the 2-D diffraction model was used for an attempt to "slice" three-dimensional (3-D) object reconstruction, we still achieved spatial resolution of 1 to 2 cm and contrast resolution of 5%.
Evaluation of a Unique Defibrillation Unit with Dual‐Vector Biphasic Waveform Capabilities: Towards a Miniaturized Defibrillator (2016)

Our early findings support the feasibility of a unique external defibrillation unit using a dual-vector biphasic waveform approach. This warrants further study to leverage this unique concept and work toward a miniaturized, portable shock delivery system.
Serum Neprilysin and Recurrent Admissions in Patients With Heart Failure (2017)

Elevated sNEP levels predicted an increased risk of recurrent all-cause, cardiovascular, and AHF admissions in ambulatory patients with heart failure.
Efficient SIMD Code Generation for Runtime Alignment and Length Conversion (2005)

When generating codes for today's multimedia extensions, one of the major challenges is to deal with memory alignment issues. While hand programming still yields best performing SIMD codes, it is both time consuming and error prone. Compiler technology has greatly improved, including techniques that simdize loops with misaligned accesses by automatically rearranging misaligned memory streams in registers. Current techniques are applicable to runtime alignments, but they aggressively reduce the alignment overhead only when all alignments are known at compile time. This paper presents two major enhancements to the state of the art, improving both performance and coverage. First, we propose a novel technique to simdize loops with runtime alignment nearly as efficiently as those with compile-time misalignment. Runtime alignment is pervasive in real applications because it is either part of the algorithms, or it is an artifact of the compiler's inability to extract accurate alignment information from complex applications. Second, we incorporate length conversion operations, e.g., conversions between data of different sizes, into the alignment handling framework. Length conversions are pervasive in multimedia applications where mixed integer types are often used. Supporting length conversion can greatly improve the coverage of simdizable loops. Experimental results indicate that our runtime alignment technique achieves a 19% to 32% speedup increase over prior art for a benchmark stressing the impact of misaligned data. We also demonstrate speedup factors of up to 8.11 for real benchmarks over sequential execution.
High-sensitivity single molecule fluorescence detection using scanning single-molecule counting (2014)

A new, simple technique for single molecule fluorescence detection has been developed and detection limit of less than 100 aM fluorophores has been demonstrated. The technique, similarly to Fluorescence Correlation Spectroscopy (FCS) and other related techniques, uses confocal optics, but differs in that it detects individual molecules crossing the inside of a scanning confocal volume without using statistical techniques as applied in FCS or similar methods. The scanning speed of the confocal volume is higher than the Brownian motion speed of the molecules. Thus, the time evolution of the light intensity data reflects the confocal volume intensity profile, which clearly shows the crossing of single molecules. The estimated total scanning volume enables the concentration or the density of molecules to be obtained. In addition, information related to the rotational and translational diffusion of the molecule was obtained for the purpose of identifying different molecules. It was shown that utilizing the plural characteristic properties of molecules passing through a confocal volume makes possible the discrimination of different molecules. The proposed technique is based on the simple principle of counting molecules one by one using a scanning confocal volume, and is hereafter referred to as Scanning Single-Molecule Counting (SSMC).
Immunopathogenesis of Dengue Hemorrhagic Fever (2008)

Dengue virus infection causes Dengue Fever (DF), Dengue Hemorrhagic Fever (DHF) and Dengue Shock Syndrome (DSS) whose pathogeneses were not clearly understood. A new hypothesis of immunopathogenesis is proposed for the development of the DHF/DSS. An aberrant immune over-activation after dengue virus infection not only impair the immune response to clear the virus, but also result in overproduction of cytokines that affect monocytes, endothelial cells, and hepatocytes, as well as the abnormal production of autoantibodies to platelet and endothelial cells. A molecular mimicry occurs between platelets/endothelial cells and dengue virus antigens. Platelets and endothelial cells are bound by the cross-reactive anti-dengue virus antibodies such as anti-NS1 or anti-prM antibodies. The IFN-γ activated macrophage would phagocytosize the osponized targets. Dengue virus-induced vasculopathy and coagulopathy are involved in the pathogenesis of hemorrhage, and the unbalance between coagulation and fibrinolysis activation increases the likelihood of severe hemorrhage in DHF/DSS. This theory of transient hemophagocytic activity in immunopathogenesis of DHF/DSS can account for specific characteristics of clinical, pathologic, and epidemiological observations in dengue virus infection.
Spectral reflection and dot surface prediction models for color halftone prints (2005)

The proposed new spectral reflection model enhances the classical Clapper-Yule model by taking into account the fact that proportionally more incident light through a given colorant surface is reflected back onto the same colorant surface than onto other colorant surfaces. It comprises a weighted mean between a component specifying the part of the incident light that exits through the same colorant as the colorant from which it enters (Saunderson corrected Neugebauer component) and a component specifying the part of the incident light whose emerging light components exit from all colorants (Clapper-Yule component). We also propose models for taking into account ink spreading, a phenomenon that occurs when printing an ink halftone in superposition with one or several solid inks. The ink-spreading model incorporates nominal-to-effective surface coverage functions for each of the different ink superposition conditions. A system of equations yields the effective ink surface coverages of a color halftone as a weighted mean of the ink surface coverages specific to the different superposition conditions. The new spectral reflection prediction model combined with the ink-spreading model yields excellent spectral reflection predictions for clustered-dot color halftones printed on an offset press or on thermal transfer printers.
Low power compression of incompatible test cubes (2010)

The paper presents a new power-aware test scheme compatible with a newly proposed test compression environment based on deterministic clustering of test cubes with conflicts. The key contribution is a flexible test application framework that achieves significant reductions in switching activity during scan loading by means of a tri-modal test data decompressor.
Control of Stair Ascent and Descent With a Powered Transfemoral Prosthesis (2012)

This paper presents a finite state-based control system for a powered transfemoral prosthesis that provides stair ascent and descent capability. The control system was implemented on a powered prosthesis and evaluated by a unilateral, transfemoral amputee subject. The ability of the powered prosthesis to provide stair ascent and descent capability was assessed by comparing the gait kinematics, as recorded by a motion capture system, with the kinematics provided by a passive prosthesis, in addition to those recorded from a set of healthy subjects. The results indicate that the powered prosthesis provides gait kinematics that are considerably more representative of healthy gait, relative to the passive prosthesis, for both stair ascent and descent.
Converting Neural Network Language Models into back-off language models for efficient decoding in automatic speech recognition (2013)

Neural Network Language Models (NNLMs) have achieved very good performance in large-vocabulary continuous speech recognition (LVCSR) systems. Because decoding with NNLMs is very computationally expensive, there is interest in developing methods to approximate NNLMs with simpler language models that are suitable for fast decoding. In this work, we propose an approximate method for converting a feedforward NNLM into a back-off n-gram language model that can be used directly in existing LVCSR decoders. We convert NNLMs of increasing order to pruned back-off language models, using lower-order models to constrain the n-grams allowed in higher-order models. In experiments on Broadcast News data, we find that the resulting back-off models retain the bulk of the gain achieved by NNLMs over conventional n-gram language models, and give significant accuracy improvements as compared to existing methods for converting NNLMs to back-off models. In addition, the proposed approach can be applied to any type of non-back-off language model to enable efficient decoding.
Abstract 1790: Small molecule inhibitors of QSOX1 suppress tumor cell growth and invasion (2014)

Abstract Introduction: QSOX1 is a flavin-dependent sulfhydryl oxidase and the only known human enzyme with both disulfide generating and transferring activities. Using tissue microarrays, we previously demonstrated that QSOX1 is over-expressed in multiple tumor types including breast, pancreas, prostate and myeloma. Loss of QSOX1 leads to a significant decrease in tumor cell proliferation and invasion. The over-expression of QSOX1 in tumor cells compared to non-malignant cells combined with its role in tumor cell proliferation and invasion make it an attractive target for potential anti-neoplastic agents. Methods: Using a high throughput screening assay to detect sulfhydryl oxidase activity, we screened a library of compounds for inhibition of the QSOX1 enzyme. We used ROS-GloTM, a luciferase-based assay that detects H2O2, to determine if any compounds in the library inhibited QSOX1-mediated disulfide bond formation using reduced RNAse A as a substrate. QSOX1 generates H2O2 as a by-product of disulfide bond formation. To determine if compounds that showed activity in the enzymatic assay were also active against tumor cells, we treated pancreatic, breast, and myeloma cells with the compounds in a dose-dependent fashion, using non-malignant cells as controls. We assayed growth/viability by MTT and CellTiter-Glo assays. Invasive activity of tumor cells was assessed using matrigel-coated inserts in a modified Boyden chamber assay. Results: High throughput library screening identified 4 compounds that specifically inhibited QSOX1 activity (designated A-D) compared to a glucose oxidase counter-screen. Growth/viability assays showed that compound D suppressed the growth of tumor cells with IC50s between 300nM-750nM, depending on tumor cell line. In non-malignant cells the IC50s for compound D were more than 10-fold higher than in tumor cells. Compounds A and D also inhibited invasion of breast and pancreatic tumor cells through Matrigel. Conclusion: This is the first report of chemical compounds that inhibit QSOX1 enzymatic activity. The discovery of QSOX1 inhibitors with cellular efficacy establishes the chemical tractability of the target. Our data demonstrate that these First-In-Class compounds have potential as anti-neoplastic therapeutics via inhibition of QSOX1. Citation Format: Paul D. Hanavan, Douglas O. Faigel, Chen-Ting Ma, Eduard Sergienko, Nathalie Meurice, Joachim L. Petit, Yvette W. Ruiz, Benjamin A. Katchman, Douglas F. Lake. Small molecule inhibitors of QSOX1 suppress tumor cell growth and invasion. [abstract]. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 1790. doi:10.1158/1538-7445.AM2014-1790
Method for processing ultrasonic echo signals of both directionally reflecting as well as nondirectionally scattering objects, particularly for ultrasonic image processing in the field of substance or tissue investigation (1984)

First Page
Tau Antibody Structure Reveals a Molecular Switch Defining a Pathological Conformation of the Tau Protein (2018)

Tau antibodies have shown therapeutic potential for Alzheimer's disease and several are in clinical trials. As a microtubule-associated protein, tau relies on dynamic phosphorylation for its normal functions. In tauopathies, it becomes hyperphosphorylated and aggregates into toxic assemblies, which collectively lead to neurodegeneration. Of the phospho-epitopes, the region around Ser396 has received particular attention because of its prominence and stability in tauopathies. Here we report the first structure of a monoclonal tau antibody in complex with the pathologically important phospho-Ser396 residue. Its binding region reveals tau residues Tyr394 to phospho-Ser396 stabilized in a β-strand conformation that is coordinated by a phospho-specific antigen binding site. These details highlight a molecular switch that defines this prominent conformation of tau and ways to target it. Overall, the structure of the antibody-antigen complex clarifies why certain phosphorylation sites in tau are more closely linked to neurodegeneration than others.
3D cellular imaging of the cornea with Gabor-domain optical coherence microscopy (2019)

A Gabor-domain optical coherence microscope (GDOCM) with 2-micrometer invariant lateral and axial resolutions and a working distance of 15 mm was developed for 3D imaging of corneal tissue over a 1 mm<sup>2</sup> field of view. The increased working distance over the previous in-contact implementation enables imaging of corneal tissue inside the viewing chamber in which corneas are stored after recovery from donors. The GDOCM system was used to image excised human corneas. 3D images of the cornea were acquired by imaging through the PMMA viewing chamber. The images achieved cellular resolution in the volume being imaged. Due to the curvature of the cornea, the endothelium, a single layer of cells lining the posterior surface of the cornea, cannot be viewed in a single en face image. A flattening algorithm was implemented to obtain an en face view of the endothelium. The GDOCM images were compared with those acquired with a specular microscope commonly used in eye banks for endothelial evaluation, and the endothelial cell density was assessed for both sets of images. A key advantage of GDOCM is the capability to image the entire thickness of the cornea in 3D with cellular resolution over a large field of view.
Chronic Hepatitis B Virus Infection (2016)

Chronic hepatitis B virus (HBV) infection evolves from immune-tolerance phase, through immune clearance phase to a quiescent phase or reactivation as hepatitis B e antigen-negative hepatitis. Persistent infection may result in the development of cirrhosis and hepatocellular carcinoma (HCC). Host factors including gender, age, family history, HLA-DP, and viral factors including HBV DNA, genotypes, precore mutations, pre-S deletions, and hepatitis B surface antigen (HBsAg) level are associated with the development of these complications. Risk scores for the development of HCC have been derived. Patients with persistently elevated alanine aminotransferase levels (>30 for males; >19 U/L for females) and HBV DNA levels >2000 IU/mL should be treated. Patients with established cirrhosis with detectable HBV DNA should also be treated. The recommended first-line agents include pegylated interferon and 2 nucleos(t)ide analogs, entecavir and tenofovir. NAs require long-term treatment to maintain suppression of HBV DNA. They have been shown to decrease hepatic fibrosis, or reverse cirrhosis and to reduce the development of HCC. They have very low rates (0% to 1.2%) of resistance. HBsAg seroclearance, although the ideal endpoint, is only achievable in 10% to 12% of patients by multicenter trials usually studying relatively young patients. Patients on long-term treatment should be monitored for viral breakthrough that may be due to noncompliance or the development of resistance. Newer agents are under trials to enhance the rate of HBsAg seroclearance. However, even with the current NAs, long-term treatment of >6 years can markedly reduce the covalently closed circular DNA, the viral component responsible for initiation of viral replication.