gebhart/patrepeval huggingface dataset:
Epitaxy of light emitting SiGeSn materials using novel precursors (2014)

Significant advances have been achieved in the development and applications of Si-Ge-Sn materials over the past few years, with several groups demonstrating high performance optoelectronic devices with characteristics beyond those achievable with pure Ge. [1–10]
COMPRESS MULTIPLE CIPHERTEXTS USING ELGAMAL ENCRYPTION SCHEMES (2013)

In this work we deal with the problem of how to squeeze multiple ciphertexts without losing original message information. To do so, we formalize the notion of decomposability for public-key encryption and investigate why adding decomposability is challenging. We construct an ElGamal encryption scheme over extension fields, and show that it supports the efficient decomposition. We then analyze security of our scheme under the standard DDH assumption, and evaluate the performance of our construction.
GPU virtualization for high performance general purpose computing on the ESX hypervisor (2014)

Graphics Processing Units (GPU) have become important components in high performance computing (HPC) systems for their massively parallel computing capability and energy efficiency. Virtualization technologies are increasingly applied to HPC to reduce administration costs and improve system utilization. However, virtualizing the GPU to support general purpose computing presents many challenges because of the complexity of this device. On VMware's ESX hypervisor, DirectPath I/O can provide virtual machines (VM) high performance access to physical GPUs. However, this technology does not allow multiplexing for sharing GPUs among VMs and is not compatible with vMotion, VMware's technology for transparently migrating VMs among hosts inside clusters. In this paper, we address these issues by implementing a solution that uses remote API execution and takes advantage of DirectPath I/O to enable general purpose GPU on ESX. This solution, named vmCUDA, allows CUDA applications running concurrently in multiple VMs on ESX to share GPU(s). Our solution requires neither recompilation nor even editing of the source code of CUDA applications. Our performance evaluation has shown that vmCUDA introduced an overhead of 0.6% - 3.5% for applications with moderate data size and 14% - 20% for those with large data (e.g. 12.5 GB - 237.5GB in our experiments).
RESPONSES TO ANALOGUES OF GROWTH HORMONE‐RELEASING HORMONE IN NORMAL SUBJECTS, AND IN GROWTH‐HORMONE DEFICIENT CHILDREN AND YOUNG ADULTS (1984)

Three analogues of growth hormone-releasing hormone (GHRH) have been compared in normal subjects. GHRH(1-29)NH2 is equipotent to GHRH(1-40); increasing doses from 10-200 micrograms per subject augments the duration of stimulated growth hormone (GH) release, but the peak serum GH shows only a poor correlation with dose. The derivative D-Ala2-GHRH(1-29)NH2 is no more potent than the unsubstituted GHRH(1-29)NH2. In 20 children and young adults with growth hormone deficiency by conventional criteria, eight showed normal or only slightly subnormal peak serum GH responses to GHRH(1-40) or GHRH(1-29)NH2. These included two patients with tumours of the hypothalamus, as well as six with idiopathic isolated growth hormone deficiency or panhypopituitarism. A poor response to GHRH was generally seen in patients on long-term GH therapy. Priming with GHRH, in either a single bolus or a continuous infusion, did not increase the GH response to GHRH. It is concluded that GHRH(1-29)NH2 is a useful analogue in the testing of GH reserve in patients with growth hormone deficiency, and has considerable potential for long-term therapy.
A Framework to Segment Cellular Ultrastructure from 3D Electron Microscopy Images of Human Biopsies (2022)

Journal Article A Framework to Segment Cellular Ultrastructure from 3D Electron Microscopy Images of Human Biopsies Get access Archana Machireddy, Archana Machireddy Computer Science and Electrical Engineering, Oregon Health and Science University, Portland, OR, USA Corresponding author: machired@ohsu.edu Search for other works by this author on: Oxford Academic Google Scholar Guillaume Thibault, Guillaume Thibault Department of Biomedical Engineering, Oregon Health & Science University, Portland, OR, USAKnight Cancer Institute, Oregon Health & Science University, Portland, OR, USA Search for other works by this author on: Oxford Academic Google Scholar Cecilia E Bueno, Cecilia E Bueno Department of Biomedical Engineering, Oregon Health & Science University, Portland, OR, USAKnight Cancer Institute, Oregon Health & Science University, Portland, OR, USA Search for other works by this author on: Oxford Academic Google Scholar Hannah R Smith, Hannah R Smith Department of Biomedical Engineering, Oregon Health & Science University, Portland, OR, USA Search for other works by this author on: Oxford Academic Google Scholar Jessica L Riesterer, Jessica L Riesterer Department of Biomedical Engineering, Oregon Health & Science University, Portland, OR, USAMultiscale Microscopy Core, Oregon Health & Science University, Portland, OR, USAKnight Cancer Institute, Oregon Health & Science University, Portland, OR, USA Search for other works by this author on: Oxford Academic Google Scholar Joe W Gray, Joe W Gray Department of Biomedical Engineering, Oregon Health & Science University, Portland, OR, USAKnight Cancer Institute, Oregon Health & Science University, Portland, OR, USA Search for other works by this author on: Oxford Academic Google Scholar Xubo Song Xubo Song Computer Science and Electrical Engineering, Oregon Health and Science University, Portland, OR, USADepartment of Biomedical Engineering, Oregon Health & Science University, Portland, OR, USADepartment of Medical Informatics and Clinical Epidemiology at Oregon Health and Science University, Portland, OR, USA Search for other works by this author on: Oxford Academic Google Scholar Microscopy and Microanalysis, Volume 28, Issue S1, 1 August 2022, Pages 1522–1525, https://doi.org/10.1017/S1431927622006122 Published: 01 August 2022
Pharmacologic Targeting of Red Blood Cells to Improve Tissue Oxygenation (2017)

Disruption of microvascular blood flow is a common cause of tissue hypoxia in disease, yet no therapies are available that directly target the microvasculature to improve tissue oxygenation. Red blood cells (RBCs) autoregulate blood flow through S-nitroso-hemoglobin (SNO-Hb)-mediated export of nitric oxide (NO) bioactivity. We therefore tested the idea that pharmacological enhancement of RBCs using the S-nitrosylating agent ethyl nitrite (ENO) may provide a novel approach to improve tissue oxygenation. Serial ENO dosing was carried out in sheep (1-400 ppm) and humans (1-100 ppm) at normoxia and at reduced fraction of inspired oxygen (FiO<sub>2</sub> ). ENO increased RBC SNO-Hb levels, corrected hypoxia-induced deficits in tissue oxygenation, and improved measures of oxygen utilization in both species. No adverse effects or safety concerns were identified. Inasmuch as impaired oxygenation is a major cause of morbidity and mortality, ENO may have widespread therapeutic utility, providing a first-in-class agent targeting the microvasculature.
A noninvasive method for estimating acoustic admittance at the tympanic membrane (2000)

The acoustic admittance at the tympanic membrane (TM), Y(TM), describes the linear acoustic properties of the ear. Here, a noninvasive measurement procedure is developed for estimating Y(TM) in intact ears. The method consists of (1) measuring the admittance in the ear canal Y(EC) with a commercially available earphone-and-microphone system, and (2) estimating Y(TM) via a uniform-tube approximation of the space between the measurement point and the TM. The dimensions of this space are estimated from Y(EC) via an area-estimation algorithm [Keefe et al., J. Acoust. Soc. Am. 91, 470 (1992)] and measurements made with controlled static pressures in the canal. Measurements in artificial loads are used to test the accuracy of the measurement system and to determine sources of error. For accurate admittance measurements: (1) extension of the microphone tube medially beyond the earphone's port is necessary for frequencies above 2 kHz; (2) the acoustic system must be calibrated in known loads with diameters within 15% of the canal diameter, because the source's output characteristics vary with load diameter. The method is applied to intact ears of anesthetized domestic cats; for frequencies below 5 kHz, the estimated Y(TM) in four ears have features that are similar to those of previous measurements made at the cat TM. Sources of error include nonuniform waves generated at the earphone's narrow port, inaccuracy in estimation of canal dimensions, irregular geometry of the canal, and earphone-microphone cross talk.
Propagation of sonic booms in the thermosphere (1980)

A nonlinear theory for the long-range propagation of sonic booms through the thermosphere has been developed. A realistic atmosphere is employed, and consideration is given to such factors as nonlinear stretching and decay of the wave, the effects of the caustic, the linear acoustic attenuation, and the increase in Mach number due to the decreasing density at high altitudes. Detailed results are presented for the case of the Concorde SST in straight, level, and steady flight at 17.5 km and a velocity of Mach 2. We predict maximum ground level pressures of 0.3 Pa with an N-wave ’’period’’ of about 10 s. The sound level is a minimum along the flight track with the maximum signal strength occurring about 300 km off the flight track. The strongest received signal travels initially downward and reflects off the surface of the ocean to the thermosphere. The wave turns around at an altitude of 160 km and is returned back to the ground at a horizontal distance of 320 km from the launch point. The acoustic Mach number of the wave never exceeds 0.2. Ninety percent of the wave’s energy is attenuated below 100 km with 99% attenuated by the time the wave reaches the turning point.
Terahertz wide aperture reflection tomography (2005)

We describe a powerful imaging modality for terahertz (THz) radiation, THz wide aperture reflection tomography (WART). Edge maps of an object's cross section are reconstructed from a series of time-domain reflection measurements at different viewing angles. Each measurement corresponds to a parallel line projection of the object's cross section. The filtered backprojection algorithm is applied to recover the image from the projection data. To our knowledge, this is the first demonstration of a reflection computed tomography technique using electromagnetic waves. We demonstrate the capabilities of THz WART by imaging the cross sections of two test objects.
N-(2-Hydroxypropyl)methacrylamide Copolymer−6-(3-Aminopropyl)-ellipticine Conjugates. Synthesis, in Vitro, and Preliminary in Vivo Evaluation (2001)

Ellipticine derivatives have potential as anticancer drugs. Their clinical use has been limited, however, by poor solubility and host toxicity. As N-(2-hydroxypropyl)methacrylamide (HPMA) copolymer-anticancer conjugates are showing promise in early clinical trials, a series of novel HPMA copolymer conjugates have been prepared containing the 6-(3-aminopropyl)-ellipticine derivative (APE, NSC176328). Drug was linked to the polymer via GFLG or GG peptide side chains. To optimize biological behavior, HPMA copolymer-GFLG-APE conjugates with different drug loading (total APE: 2.3-7% w/w; free APE: <0.1% w/w) were synthesized. Conjugation of APE to HPMA copolymers considerably increased its aqueous solubility (>10-fold). HPMA copolymer-GG-APE did not liberate drug in the presence of isolated lysosomal enzymes (tritosomes), but HPMA copolymer-GFLG-APE released APE to a maximum of 60% after 5 h. The rate of drug release was influenced by drug loading; lower loading led to greater release. Whereas free APE (35 microg/mL) caused significant hemolysis (50% after 1 h), HPMA copolymer-APE conjugates were not hemolytic up to 300 microg/mL (APE-equiv). As would be expected from its cellular pharmacokinetics, HPMA copolymer-GFLG-APE was >75 times less cytotoxic than free drug (IC(50) approximately 0.4 microg/mL) against B16F10 melanoma in vitro. However, in vivo when tested in mice bearing s.c. B16F10 melanoma, HPMA copolymer-GFLG-APE (1-10 mg/kg single dose, APE-equiv) given i.p. was somewhat more active (highest T/C value of 143%) than free APE (1 mg/kg) (T/C =127%). HPMA copolymer-APE conjugates warrant further evaluation as potential anticancer agents.
Robust vehicle tracking for urban traffic videos at intersections (2016)

We develop a robust, unsupervised vehicle tracking system for videos of very congested road intersections in urban environments. Raw tracklets from the standard Kanade-Lucas-Tomasi tracking algorithm are treated as sample points and grouped to form different vehicle candidates. Each tracklet is described by multiple features including position, velocity, and a foreground score derived from robust PCA background subtraction. By considering each tracklet as a node in a graph, we build the adjacency matrix for the graph based on the feature similarity between the tracklets and group these tracklets using spectral embedding and Dirichelet Process Gaussian Mixture Models. The proposed system yields excellent performance for traffic videos captured in urban environments and highways.
"Limit on cross section 3" of "A search for pair-produced resonances in four-jet final states at $\sqrt{s}$=13 TeV with the ATLAS detector" (2017)

Cross section excluded at 95% CL as a function of the top squark mass, for a pair produced top squark with decays into a b- and an s-quark.
2005 International Conference on Metabolic Profiling (2006)

The 2005 International Conference on Metabolic Profiling entitled Using Metabolomics to Accelerate Drug Discovery and Development was held in Durham, NC, USA, November 14–15. The conference include...
Junk-DNA: Von wegen Schrott! Der “unwesentliche Rest” unseres Erbguts (2006)

Die für Proteine codierenden Bereiche in unserem Genom machen einen nur geringen Anteil aus. Ein weitaus größerer Teil besteht aus repetitiven Sequenzen. Diese wurden von mobilen Elementen gebildet, die sich im Genom durch den Prozess der Retrotransposition an neue Stellen kopieren können. Über viele Jahrmillionen habe sich diese Sequenzen auf Kopienzahlen von mehreren Millionen erhöht. Man unterscheidet SINE-, LINE- und HERV-Sequenzen, wobei letztere auf einstige Retrovirus-Infektionen von Keimzellen zurückgehen. Im Lauf der Jahrmillionen veränderten die repetitiven Sequenzen unser Genom massiv in seiner Struktur – und damit sicherlich auch in seiner Funktionalität. Auch heute sind noch repetitive Elemente in unserem Genom aktiv. In mehreren dokumentierten Fällen wurden hierdurch genetisch bedingte Krankheiten ausgelöst. Jedoch stellen repetitive Elemente insgesamt keine wirkliche Gefahr für uns dar. Im Gegenteil sind auch Fälle dokumentiert, in denen HERV-Sequenzen anscheinend essenzielle Funktionen in unserem Organismus übernommen haben.
Screening of β-hairpin peptide-engrafted 1,2,3-triazoles to identify APEH enzyme inhibitors (2015)

Peptide-engrafted triazoles, obtained <italic>via</italic> click chemistry, drive the inhibition activity toward Acyl Peptide Hydrolase (APEH), a modulator of the proteasome activity.
Wide-bandgap integrated photonic circuits for interfacing with quantum memories (Conference Presentation) (2018)

Quantum information processing relies on the fundamental property of quantum interference, where the quality of the interference directly correlates to the indistinguishability of the interacting particles. The creation of these indistinguishable particles, photons in this case, has conventionally been accomplished with nonlinear crystals and optical filters to remove spectral distinguishability, albeit sacrificing the number of photons. This research describes the use of an integrated aluminum nitride microring resonator circuit to selectively generate photon pairs at the narrow cavity transmissions, thereby producing spectrally indistinguishable photons in the ultraviolet regime to interact with trapped ion quantum memories. The spectral characteristics of these photons must be carefully controlled for two reasons: (i) interference quality depends on the spectral indistinguishability, and (ii) the wavelength must be strictly controlled to interact with atomic transitions. The specific ion of interest for these trapped ion quantum memories is Ytterbium which has a transition at 369.5 nm with 12.5 GHz offset levels. Ytterbium ions serve as very long lived and stable quantum memories with storage times on the order of 10’s of minutes, compared with photonic quantum memories which are limited to 10-6 to 10-3 seconds. The combination of the long lived atomic memory, integrated photonic circuitry, and the photonic quantum bits are necessary to produce the first quantum information processors. In this seminar, I will present results on ultraviolet wavelength operation, dispersion analysis, and propagation loss in aluminum nitride waveguides.
Cross-correlations of zero crossings in jointly Gaussian and stationary processes with zero means (2017)

Zero crossing data contain information of a process in compact form and is therefore of interest in wireless sensor networks where only reduced amounts of data can be transmitted. When analyzing the properties of certain algorithms using zero crossing data, the cross-covariance between the zero crossing rates of two jointly Gaussian and stationary processes is needed. The evaluation of such a cross-covariance is considered in the paper and an exact numerical expression as well as an asymptotic expression are presented.
Bipolar androgen therapy (BAT): A patient's guide (2022)

Bipolar androgen therapy (BAT) is a new treatment concept for men whose prostate cancer has become resistant to standard hormone-blocking therapy. Over the past decade, we have performed a series of clinical studies testing BAT in asymptomatic men with castration-resistant prostate cancer. The key findings from these clinical studies are that BAT (a) can be safely administered to asymptomatic patients with metastatic castrate-resistant prostate cancer; (b) does not produce symptomatic disease progression; (c) produces sustained prostate-specific antigen and objective responses in 30%-40% of patients; and (d) can resensitize and prolong response to subsequent antiandrogen therapy. The concept of BAT has generated significant interest from men with prostate cancer, their families, and their physicians. Here we provide a "Patient's Guide" that answers questions about BAT in a form that is accessible to patients, their families, and physicians. Our goal is to provide information to help patients make the most informed decisions they can regarding their prostate cancer treatment.
The quest to burn fat, effortlessly and safely (2016)

An enzyme steps up to BAT as a potential mitochondrial uncoupler
Low-Temperature Electron–Phonon Interaction of Quantum Emitters in Hexagonal Boron Nitride (2020)

Single photon sources based on atomic defects in layered hexagonal boron nitride (hBN) have emerged as promising solid state quantum emitters with atom-like photophysical and quantum optoelectronic properties. Similar to other atom-like emitters, defect-phonon coupling in hBN governs the characteristic single-photon emission and provides an opportunity to investigate the atomic and electronic structure of emitters as well as the coupling of their spin- and charge-dependent electronic states to phonons. Here, we investigate these questions using photoluminescence excitation (PLE) experiments at T = 4 K on single-photon emitters in multilayer hBN grown by chemical vapor deposition. By scanning up to 250 meV from the zero phonon line (ZPL), we can precisely measure the emitter’s coupling efficiency to different phonon modes. Our results show that excitation mediated by the absorption of one in-plane optical phonon increases the emitter absorption probability 10-fold compared to that mediated by acoustic or out-of-plane optical phonons. We perform complementary theoretical predictions by first-principles density-functional theory of four defect candidates for which we calculate prevalent charge states and their spin-dependent coupling to bulk and local phonon modes. We discuss possible hypotheses to overcome the disparity between experimental results and theoretical predictions. Our work illuminates the phonon-coupled dynamics in hBN quantum emitters at cryogenic temperature, with implications more generally for mesoscopic quantum emitter systems in 2D materials, and represents possible applications in solid-state quantum technologies.
Nucleotides. Part XXVIII. Chemical syntheses of the 2′‐5′‐cordycepin‐trimer core (1987)

Abstract The chemical synthesis of 3′‐deoxyadenyly‐(2′‐5′)‐3′‐deoxyadenylyl‐(2′‐5′)‐3′‐deoxyadenosine ( 30 ; trimeric cordycepin) is described by three different routes using various protecting groups and applying the phosphotriester approach. The intermediates have been isolated and characterized by elemental analyses and spectroscopic means. High yields of 30 have been obtained on deprotection making this biologically very active compound available in preparative scale.
Using composite variable modeling to achieve realism and tractability in production planning: An example from automotive stamping (2009)

Applying traditional mathematical programming techniques to problems in production planning can lead to tremendous challenges. These include non-linearities, very large numbers of constraints and weak linear programming relaxations. To ensure tractability, problems are often either simplified in scope or limited in instance size, resulting in solutions that may no longer address important real-world issues. As an alternative, this paper considers the use of models based on composite variables (variables that capture multiple decisions simultaneously) as a way to solve complex production planning problems. The scheduling of an automotive stamping facility is used as a demonstrative example, and it is shown how composite variable models and a novel corresponding algorithm can lead to high-quality, realistic solutions with acceptable run times. In the proposed approach, batch sizes, labor availability or sequencing of part types is not restricted and the number of changeovers is not fixed a priori. In addition, sequence-dependent changeover times and varying due dates are allowed. Computational results are presented using data from Ford Motor Company. [Supplementary materials are available for this article. Go to the publisher's online edition of IIE Transactions for the following free supplemental resource: Appendix]
Expedient Pathway into Optically Active 2‐Oxopiperidines (2010)

Abstract The piperidine ring system is one of the most common structural subunits and is found in many natural products. Moreover, piperidine alkaloids and derivatives thereof are of great interest for the pharmaceutical industry since they exhibit a wide range of biological activities. Consequently, short and valuable routes to highly functionalized building blocks for this important ring system are of general interest. A ring‐closing metathesis (RCM)‐mediated approach based on linear (substituted) dehydroamino esters was developed to provide cyclic dehydroamino esters. These structures represent valuable intermediates en route to highly substituted pipecolic acids as well as more elaborate heterocycles.