gebhart/patrepeval huggingface dataset:
Unique features of the basal cells of human prostate epithelium (2000)

The prostate gland is globally composed of epithelium and stroma. The epithelium plays an important role in the development of both benign and malignant disorders while the stroma is involved in benign prostatic hyperplasia. While the prostatic epithelium of the majority of laboratory animals is well recognized as a pseudostratified columnar, the classification of the human prostatic epithelium is controversial. Moreover, the role of the basal cells of the human prostatic epithelium is still uncertain. These cells have been described as undifferentiated cells, precursors of luminal cells, reserve and myoepithelial cells. The objective of the present study was to assess the similarities and/or differences between the epithelium of the human prostate and that of other laboratory animals and thus derive information about the potential functions of basal cells in the human prostate. In the human, basal cells form a continuous layer of cells resting on the basement membrane and upon which rests a layer of luminal cells. This results in a stratified columnar epithelium of two layers of cells, unlike the sporadic appearance of basal cells observed in other species where it results in a pseudostratified epithelium. In addition, the ratio of basal to luminal cells in the human is about 1:1, while the average ratio in the other animal species examined is about 1:7. Furthermore, the gap junctional proteins connexin 26 and 43, are present between basal and luminal cells in the human, thus suggesting that these cells communicate directly with each other. In addition, the ultrastructure of the human basal cells shows morphological evidence of differentiated but not of undifferentiated cells. Moreover, the presence of junction-like structures between adjacent basal cells suggests that these cells form a blood-prostate barrier. In this way, basal cells could prevent substances derived from the blood from directly coming in contact with the luminal cells. Human basal cells could thus regulate functions of the luminal cells by being part of a two-cell mechanism somewhat analogous to thecal and granulosa cells in the ovary.
Faster Linear Transformations in $\textsf{HElib}$ , Revisited (2019)

HElib is a C++ library that implements fully homomorphic encryption (FHE). This supports homomorphic linear transformations on plaintext slots which consist of many rotation operations on plaintext slots, and currently, each rotation involves one or two automorphisms. In this paper, we describe a new method for linear transformations that perform only one automorphism for the rotation operation for many kinds of linear transformations. We then further investigate our new method to have algorithmic improvement, which can be understood as a generalization of the baby-step/giant-step strategy on HElib. Finally, we verify that our improvement works well by implementation, and see 2-4 times speedup than the current HElib implementation.
Effects of two-photon absorption on degenerate four-wave mixing in solutions of diphenyl polyenes (1992)

We have observed double-peaked phase-conjugate pulses in the degenerate four-wave mixing of nanosecond laser pulses in solutions of diphenyl polyenes. We attribute this to the superposition of fast and slow gratings, where the slow grating is due to two-photon absorption. This is supported by the results of time delay and polarization experiments as well as evidence of a second spatial harmonic grating.
Diethylamine Dess–Martin periodinane: an efficient catalyst–oxidant combination in a sequential, one-pot synthesis of difficult to access 2-amino-3,5-dicarbonitrile-6-sulfanylpyridines at ambient temperature (2017)

A problem solving approach towards high yielding synthesis of 2-amino-3,5-dicarbonitrile-6-sulfanylpyridines is described. Simple isolation and avoidance of chromatographic purification are the noteworthy advantages.
Spatial Distributions of Individual Traps in a Si/SiO 2 Interface (1997)

We have investigated individual traps in the Si/SiO 2 interface by observing random telegraph signals (RTSs). The traps having energy levels within a few k B T of the Fermi level can capture or emit single electrons, and become sources of RTSs. We report the first investigation of spatial distributions of single-carrier traps in a MOSFET with a double gate structure. We observe RTSs with changing bias voltages on two lower gates, and show that their variations describe the spatial distributions of the individual traps.
Direct Differentiation of Pathological Changes in the Human Lung Parenchyma With Grating-Based Spectral X-ray Dark-Field Radiography (2021)

Diagnostic lung imaging is often associated with high radiation dose and lacks sensitivity, especially for diagnosing early stages of structural lung diseases. Therefore, diagnostic imaging methods are required which provide sound diagnosis of lung diseases with a high sensitivity as well as low patient dose. In small animal experiments, the sensitivity of grating-based X-ray dark-field imaging to structural changes in the lung tissue was demonstrated. The energy-dependence of the X-ray dark-field signal of lung tissue is a function of its microstructure and not yet known. Furthermore, conventional X-ray dark-field imaging is not capable of differentiating different types of pathological changes, such as fibrosis and emphysema. Here we demonstrate the potential diagnostic power of grating-based X-ray dark-field in combination with spectral imaging in human chest radiography for the direct differentiation of lung diseases. We investigated the energy-dependent linear diffusion coefficient of simulated lung tissue with different diseases in wave-propagation simulations and validated the results with analytical calculations. Additionally, we modeled spectral X-ray dark-field chest radiography scans to exploit these differences in energy-dependency. The results demonstrate the potential to directly differentiate structural changes in the human lung. Consequently, grating-based spectral X-ray dark-field imaging potentially contributes to the differential diagnosis of structural lung diseases at a clinically relevant dose level.
Myeloid Differentiation of t(8;21)-positive Leukemic Cells AML1/MTG8 Oncogene Suppression by Small Interfering RNAs Supports (2013)

Ł € Oncogenes and Tumor Suppressors (795 articles)Ł € Neoplasia (4217 articles)Articles on similar topics can be found in the following Blood collectionshttp://bloodjournal.hematologylibrary.org/site/misc/rights.xhtml#repub_requests Information about reproducing this article in parts or in its entirety may be found online at:http://bloodjournal.hematologylibrary.org/site/misc/rights.xhtml#reprints Information about ordering reprints may be found online at:http://bloodjournal.hematologylibrary.org/site/subscriptions/index.xhtml Information about subscriptions and ASH membership may be found online at:
Office building model identification and control design (2014)

This paper presents the identification of a lumped thermal model for one floor of a large office building consisting of partitioned cubicles and conference rooms. The space is instrumented with a large number of interior temperature sensors as well as supply-air temperature and flowrate sensors. Roof top solar radiation data is also available. The first step in the model identification process is to cluster the interior temperature measurements into zones. The zones form a thermal connectivity graph based on the physical location of the clusters. Each zone corresponds to a node in the graph with a corresponding thermal capacitance. The zones connect to adjacent zones and to the ambient via thermal resistances. Due to large windows on two walls and the ceiling, the model also needs to account for the radiant heat input into the space. We identify thermal capacitance, thermal resistance, and radiant heat transfer coefficients in the model by matching the predicted temperature trajectory with the measured data. As validation, the model shows reasonable prediction of temperatures on dates not used for identification. Using the identified model, we also consider the temperature control problem with real-world ambient temperature and solar data. By using our previously reported passivity-based temperature controller, we achieve tighter temperature regulation while consuming less energy as compared with the existing controller.
Introduction to the Issue on Convex Optimization Methods for Signal Processing (2007)

The 17 papers in this special issue focus on convex optimization methods for signal processing.
Impacts of SQ-PIC to capacity and coverage in WCDMA uplink (2005)

The capacity and coverage gains from soft quantized parallel interference cancellation (SQ-PIC) in the 3GPP uplink are assessed. We derive analytical expressions for the required E/sub b//N/sub 0/, capacity and coverage with intercell interference. The SQ-PIC receiver is described and its performance is evaluated in an isolated cell. These performance figures are used to evaluate capacity and coverage gains with intercell interference.
A Fourier series based Data compression model for Acoustic transfer function (2020)

This paper addresses a modeling of acoustic transfer function using Fourier series expansion. A transfer function set consisting of many transfer functions, which are obtained by measurements or geometrical calculations, is usually required for applications like sound source localization and separation. The data size of the set is often so large because of the fine resolution. Such a large set is unsuitable for embedded systems, e.g. robots and mobile phones due to the limitation of their storage size and computational resources. To avoid this problem, a novel modeling of acoustic transfer function is proposed, which reduces the size of the transfer function set smaller enough for embedded systems by means of function representation based on Fourier series. Since the proposed modeling is based on the function representation, the interpolation between two adjacent measured transfer functions is naturally obtained. This allows the fine resolution in sound source localization and separation compared to the application that any conventional transfer function sets are used. The error of the proposed model was about 2 dB in amplitude and 15° in phase on average in the numerical simulation. The proposed model is also evaluated in sound source localization. The experimental results indicated that the localization error was 3.5° even though the memory usage and the calculation time decreased 97% and 24% respectively, when the conventional model results was 100%.
Role for cytoplasmic nucleotide hydrolysis in hepatic function and protein synthesis (2013)

Nucleotide hydrolysis is essential for many aspects of cellular function. In the case of 3',5'-bisphosphorylated nucleotides, mammals possess two related 3'-nucleotidases, Golgi-resident 3'-phosphoadenosine 5'-phosphate (PAP) phosphatase (gPAPP) and Bisphosphate 3'-nucleotidase 1 (Bpnt1). gPAPP and Bpnt1 localize to distinct subcellular compartments and are members of a conserved family of metal-dependent lithium-sensitive enzymes. Although recent studies have demonstrated the importance of gPAPP for proper skeletal development in mice and humans, the role of Bpnt1 in mammals remains largely unknown. Here we report that mice deficient for Bpnt1 do not exhibit skeletal defects but instead develop severe liver pathologies, including hypoproteinemia, hepatocellular damage, and in severe cases, frank whole-body edema and death. Accompanying these phenotypes, we observed tissue-specific elevations of the substrate PAP, up to 50-fold in liver, repressed translation, and aberrant nucleolar architecture. Remarkably, the phenotypes of the Bpnt1 knockout are rescued by generating a double mutant mouse deficient for both PAP synthesis and hydrolysis, consistent with a mechanism in which PAP accumulation is toxic to tissue function independent of sulfation. Overall, our study defines a role for Bpnt1 in mammalian physiology and provides mechanistic insights into the importance of sulfur assimilation and cytoplasmic PAP hydrolysis to normal liver function.
A Secure Communication Network Infrastructure Based on Quantum Key Distribution Technology (2016)

Quantum key distribution (QKD), a cryptography technology providing information theoretic security based on physical laws, has moved from the research stage to the engineering stage. Although the communication distance is subject to a limitation attributable to the QKD fundamentals, recent research and development of “key relaying” over a “QKD network” is overcoming this limitation. However, there are still barriers to widespread use of QKD integrated with conventional information systems: applicability and development cost. In order to break down these barriers, this paper proposes a new solution for developing secure network infrastructure based on QKD technology to accommodate multiple applications. The proposed solution introduces 3 functions: (1) a directory mechanism to manage multiple applications hosted on the QKD network, (2) a key management method to share and to allocate the keys for multiple applications, and (3) a cryptography communication library enabling existing cryptographic communication software to be ported to the QKD network easily. The proposed solution allows the QKD network to accommodate multiple applications of various types, and moreover, realizes applicability to conventional information systems easily. It also contributes to a reduction in the development cost per information system, since the development cost of the QKD network can be shared between the multiple applications. The proposed solution was implemented with a network emulating QKD technology and evaluated. The evaluation results show that the proposed solution enables the infrastructure of a single QKD network to host multiple applications concurrently, fairly, and effectively through a conventional application programming interface, OpenSSL API. In addition, the overhead of secure session establishment by the proposed solution was quantitatively evaluated and compared.
Sum rate maximization for MU-MISO with partial CSIT using Joint Multicasting and Broadcasting (2015)

In this paper, we consider a MU-MISO system where users have highly accurate Channel State Information (CSI), while the Base Station (BS) has partial CSI consisting of an imperfect channel estimate and statistical knowledge of the CSI error. With the objective of maximizing the Average Sum Rate (ASR) subject to a power constraint, a special transmission scheme is considered where the BS transmits a common symbol in a multicast fashion, in addition to the conventional private symbols. This scheme is termed Joint Multicasting and Broadcasting (JMB). The ASR problem is transformed into an augmented Average Weighted Sum Mean Square Error (AWSMSE) problem which is solved using Alternating Optimization (AO). The enhanced rate performance accompanied with the incorporation of the multicast part is demonstrated through simulations.
GeneTerpret: a customizable multilayer approach to genomic variant prioritization and interpretation (2020)

ABSTRACT Variant interpretation is the main bottleneck in medical genomic sequencing efforts. This usually involves genome analysts manually scouring through a multitude of independent databases, often with the aid of several and mostly independent computational tools. To streamline the variant interpretation process, we developed GeneTerpret platform that collates data from current interpretation tools and databases, and applies a phenotype-driven query to categorize the variants identified in a given genome. The platform assigns quantitative validity scores to genes by query and assembly of the current genotype-phenotype data, sequence homology, molecular interactions, expression data, and animal models. The platform uses the American College of Medical Genetics (ACMG) criteria to categorize variants into five tiers (from benign to pathogenic). The platform then outputs a prioritized list of potentially causal variants/genes in a given genome for a specific case. GeneTerpret is a flexible and free platform designed to streamline the variant interpretation process through a unique interface, with improved ease, speed and accuracy. This unique integrated system provides effective validity and pathogenicity modules to assess genetic variant data and allows the user to decide which output and impact level should be considered in this process. The platform can be accessed and used online at https://geneterpret.com .
CCR Translation for This Article from Differential Protein Stability and ALK Inhibitor Sensitivity of EML4-ALK Fusion Variants (2023)

CCR Translation for This Article from Differential Protein Stability and ALK Inhibitor Sensitivity of EML4-ALK Fusion Variants
Roles for Pain Modulatory Cells during Micturition and Continence (2005)

We studied how the nervous system selects between noxious stimulus-evoked withdrawals and micturition, movements that are necessary for survival but use overlapping muscles and therefore cannot occur simultaneously. In lightly anesthetized rats, micturition was favored, because noxious stimulation never interrupted micturition, whereas withdrawals were suppressed during voiding. Neurons in the ventromedial medulla (VMM) are a major source of descending antinociceptive signals. To test whether VMM neurons support withdrawal suppression during micturition, the discharge of VMM neurons was recorded during continence and micturition. VMM cells that were inhibited (M-inh) or excited (M-exc) during micturition were observed. M-inh cells were excited by noxious cutaneous stimulation and thus are likely nociception facilitating, whereas M-exc cells were inhibited by noxious heat and are likely nociception inhibiting. The excitation of nociception-inhibiting M-exc and inhibition of nociception-facilitating M-inh cells predicts suppression of withdrawals during micturition. M-exc cells were typically silent before micturition, whereas most M-inh cells fired before micturition, suggesting that these cells may also play a preparatory role for micturition. To test this idea, we examined manipulations that either advanced or delayed the onset of micturition. Hypothalamic stimulation and noxious paw heat advanced micturition while exciting M-inh cells and inhibiting M-exc cells. In contrast, colorectal distension, a stimulus that delays micturition, inhibited M-inh cells and excited M-exc cells. These results suggest a model in which, during continence, VMM M-inh cells facilitate and M-exc cells inhibit bladder afferents, advancing micturition onset when M-inh cells are activated and delaying onset when M-exc cells are activated.
Out-of-Band Radiation from Large Antenna Arrays (2018)

The OOB radiation from large arrays with nonlinear hardware has a different radiation pattern than the beamformed in-band signal. This is the main difference between the OOB radiation from large arrays and from well-studied legacy systems. Beamforming might focus the OOB radiation in certain directions but also significantly reduce the total power that has to be transmitted. For cost and power-consumption reasons, large arrays might have to be built from low-complexity hardware without advanced precompensation for linearization, which increases the relative amount of OOB radiation. Given that large arrays will be used in future base stations, a correct understanding of the OOB radiation is crucial to specify appropriate linearity requirements for the hardware. We show that the OOB radiation from large arrays varies little between coherence times; it is isotropic in many cases; and when it is beamformed, it is directed toward the served user in a very narrow beam with an array gain equal to or less than that of the in-band signal. We draw the conclusion that, compared to legacy systems, less stringent linearity requirements can be used in many systems with large arrays by virtue of the lower transmit power needed
Band-engineered Ge-on-Si lasers (2010)

We report optically-pumped Ge-on-Si lasers with direct gap emission near 1600 nm at room temperature. The Ge-on-Si material was band-engineered by tensile strain and n-type doping to compensate the energy difference between direct and indirect band gaps for efficient light emission. Modeling of Ge/Si double heterojunction LEDs shows that it is possible to achieve >;10% quantum efficiency even assuming an Auger coefficient 10 times larger than reports in literature. Edge-emitting Ge-on-Si waveguide LEDs have also been demonstrated at room temperature. These simulation and experimental results strongly indicate the feasibility of electrically-pumped Ge-on-Si lasers.
An unexpected twist to the activation of IKKβ: TAK1 primes IKKβ for activation by autophosphorylation (2014)

IKKβ {IκB [inhibitor of NF-κB (nuclear factor κB)] kinase β} is required to activate the transcription factor NF-κB, but how IKKβ itself is activated in vivo is still unclear. It was found to require phosphorylation by one or more 'upstream' protein kinases in some reports, but by autophosphorylation in others. In the present study, we resolve this contro-versy by demonstrating that the activation of IKKβ induced by IL-1 (interleukin-1) or TNF (tumour necrosis factor) in embryonic fibroblasts, or by ligands that activate Toll-like receptors in macrophages, requires two distinct phosphorylation events: first, the TAK1 [TGFβ (transforming growth factor β)-activated kinase-1]-catalysed phosphorylation of Ser¹⁷⁷ and, secondly, the IKKβ-catalysed autophosphorylation of Ser¹⁸¹. The phosphorylation of Ser¹⁷⁷ by TAK1 is a priming event required for the subsequent autophosphorylation of Ser¹⁸¹, which enables IKKβ to phosphorylate exogenous substrates. We also provide genetic evidence which indicates that the IL-1-stimulated, LUBAC (linear ubiquitin chain assembly complex)-catalysed formation of linear ubiquitin chains and their interaction with the NEMO (NF-κB essential modulator) component of the canonical IKK complex permits the TAK1-catalysed priming phosphorylation of IKKβ at Ser¹⁷⁷ and IKKα at Ser¹⁷⁶. These findings may be of general significance for the activation of other protein kinases.
Cu impurity in insulators and in metal-insulator-metal structures: Implications for resistance-switching random access memories (2015)

We present numerical results from atomistic simulations of Cu in SiO2 and Al2O3, with an emphasis on the thermodynamic, kinetic, and electronic properties. The calculated properties of Cu impurity at various concentrations (9.91 × 1020 cm−3 and 3.41 × 1022 cm−3) in bulk oxides are presented. The metal-insulator interfaces result in up to a ∼4 eV reduction in the formation energies relative to the crystalline bulk. Additionally, the importance of Cu-Cu interaction in lowering the chemical potential is introduced. These concepts are then discussed in the context of formation and stability of localized conductive paths in resistance-switching Random Access Memories (RRAM-M). The electronic density of states and non-equilibrium transmission through these localized paths are studied, confirming conduction by showing three orders of magnitude increase in the electron transmission. The dynamic behavior of the conductive paths is investigated with atomistic drift-diffusion calculations. Finally, the paper concludes with a molecular dynamics simulation of a RRAM-M cell that attempts to combine the aforementioned phenomena in one self-consistent model.