gebhart/patrepeval huggingface dataset:
Binding of Gal4p and Bicoid to Nucleosomal Sites in Yeast in the Absence of Replication (1999)

The yeast transcriptional activator Gal4p can bind to sites in nucleosomal DNA in vivo which it is unable to access in vitro. One event which could allow proteins to bind to otherwise inaccessible sites in chromatin in living cells is DNA replication. To determine whether replication is required for Gal4p to bind to nucleosomal sites in yeast, we have used previously characterized chromatin reporters in which Gal4p binding sites are incorporated into nucleosomes. We find that Gal4p is able to perturb nucleosome positioning via nucleosomal binding sites in yeast arrested either in G1, with alpha-factor, or in G2/M, with nocodazole. Similar results were obtained whether Gal4p synthesis was induced from the endogenous promoter by growth in galactose medium or by an artificial, hormone-inducible system. We also examined binding of the Drosophila transcriptional activator Bicoid, which belongs to the homeodomain class of transcription factors. We show that Bicoid, like Gal4p, can bind to nucleosomal sites in SWI+ and swi1Delta yeast and in the absence of replication. Our results indicate that some feature of the intracellular environment other than DNA replication or the SWI-SNF complex permits factor access to nucleosomal sites.
Surimi : some observations on trawler production (1986)

Published January 1986. Facts and recommendations in this publication may no longer be valid. Please look for up-to-date information in the OSU Extension Catalog: http://extension.oregonstate.edu/catalog
Phase I Dose Escalation Study of Telatinib, a Tyrosine Kinase Inhibitor of Vascular Endothelial Growth Factor Receptor 2 and 3, Platelet-Derived Growth Factor Receptor β, and c-Kit, in Patients With Advanced or Metastatic Solid Tumors (2009)

Telatinib was safe and well tolerated up to 1,500 mg twice daily. Based on pharmacodynamic and pharmacokinetic end points, telatinib 900 mg twice daily is the recommended dose for subsequent phase II studies.
Ueber Knochenplombirung<sup>1</sup>) (1893)

Drug Prescribing for Patients with Chronic Kidney Disease in General Practice: a Cross-Sectional Study
Quantization Noise Suppression in Digitally Segmented Amplifiers (2008)

In this paper, we consider the problem of out-of-band quantization noise suppression in the general family of direct digital-to-RF (DDRF) conversion circuits, where the RF carrier is amplitude modulated by a quantized representation of the baseband signal. Hence, it is desired to minimize the out-of-band quantization noise in order to meet stringent requirements such as receive-band noise levels in frequency-division duplex transceivers. In this paper, we address the problem of out-of-band quantization noise by introducing a novel signal-processing solution, which we refer to as ldquosegmented filtering (SF).rdquo We assess the capability of the proposed SF solution by means of performance analysis and results that have been obtained via circuit-level computer simulations as well as laboratory measurements. Our proposed approach has demonstrated the ability to preserve the required signal quality and power amplifier (PA) efficiency while providing more than 35-dB attenuation of the quantization noise, thus eliminating the need for substantial post-PA passband RF filtering.
Digital Backward Propagation: A Technique to Compensate Fiber Dispersion and Non-Linear Impairments (2011)

Recent numerical and experimental studies have shown that coherent optical QPSK (CO-QPSK) is the promising candidate for next-generation 100Gbit/s Ethernet (100 GbE) Coherent detection is considered efficient along with digital signal processing (DSP) to compensate many linear effects in fiber propagation i.e. chromatic dispersion (CD) and polarization-mode dispersion (PMD) and also offers low required optical signal-to-noise ratio (OSNR). Despite of fiber dispersion and non-linearities which are the major limiting factors, as illustrated in Fig. As a result of which compensation of dispersion and non-linearities (NL), i.e. self-phase modulation (SPM), cross-phase modulation (XPM) and four-wave mixing (FWM), is a point of high interest these days. Various methods of compensating fiber transmission impairments have been proposed in recent era by implementing all-optical signal processing. It is demonstrated that the fiber dispersion can be compensated by using the mid-link spectral inversion method (MLSI) MLSI method is based on the principle of optical phase conjugation (OPC). In a system based on MLSI, no in-line dispersion compensation is needed. Instead in the middle of the link, an optical phase conjugator inverts the frequency spectrum and phase of the distorted signals caused by chromatic dispersion. As the signals propagate to the end of the link, the accumulated spectral phase distortions are reverted back to the value at the beginning of the link if perfect symmetry of the link is assured. In Another all-optical method to compensate fiber transmission impairments is proposed in In this technique the incoming signal is split asymmetrically at the fiber coupler Digital Backward Propagation: A Technique to Compensate Fiber Dispersion and Non-Linear Impairments 2 www.intechopen.com
The impact on CT dose of the variability in tube current modulation technology: a theoretical investigation (2014)

Body CT scans are routinely performed using tube-current-modulation (TCM) technology. There is notable variability across CT manufacturers in terms of how TCM technology is implemented. Some manufacturers aim to provide uniform image noise across body regions and patient sizes, whereas others aim to provide lower noise for smaller patients. The purpose of this study was to conduct a theoretical investigation to understand how manufacturer-dependent TCM scheme affects organ dose, and to develop a generic approach for assessing organ dose across TCM schemes. The adult reference female extended cardiac-torso (XCAT) phantom was used for this study. A ray-tracing method was developed to calculate the attenuation of the phantom for a given projection angle based on phantom anatomy, CT system geometry, x-ray energy spectrum, and bowtie filter filtration. The tube current (mA) for a given projection angle was then calculated as a log-linear function of the attenuation along that projection. The slope of this function, termed modulation control strength, α, was varied from 0 to 1 to emulate the variability in TCM technology. Using a validated Monte Carlo program, organ dose was simulated for five α values (α = 0, 0.25, 0.5, 0.75, and 1) in the absence and presence of a realistic system mA limit. Organ dose was further normalized by volume-weighted CT dose index (CTDIvol) to obtain conversion factors (h factors) that are relatively independent of system specifics and scan parameters. For both chest and abdomen-pelvis scans and for 24 radiosensitive organs, organ dose conversion factors varied with α, following second-order polynomial equations. This result suggested the need for α-specific organ dose conversion factors (i.e., conversion factors specific to the modulation scheme used). On the other hand, across the full range of α values, organ dose in a TCM scan could be derived from the conversion factors established for a fixed-mA scan (hFIXED). This was possible by multiplying hFIXED by a revised definition of CTDIvol that accounts for two factors: (a) the tube currents at the location of an organ and (b) the variation in organ volume along the longitudinal direction. This α-generic approach represents an approximation. The error associated with this approximation was evaluated using the α-specific organ dose (i.e., the organ dose obtained by using α-specific mA profiles as inputs into the Monte Carlo simulation) as the reference standard. When the mA profiles were constrained by a realistic system limit, this α-generic approach had errors of less than ~20% for the full range of α values. This was the case for 24 radiosensitive organs in both chest and abdomen-pelvis CT scans with the exception of thyroid in the chest scan and bladder in the abdomen-pelvis scan. For these two organs, the errors were less than ~40%. The results of this theoretical study suggested that knowing the mA modulation profile and the fixed-mA conversion factors, organ dose may be estimated for a TCM scan independent of the specific modulation scheme applied.
Characterization of a Real-time Confocal Scanning Optical Microscope (1989)

The suitability of the Real-time Confocal Scanning Optical Microscope (RSOM) for semiconductor process metrology had not previously been examined. Recent improvements in the RSOM have enabled us to make precise measurements on weakly reflecting sub-micron geometries. Data will be presented to demonstrate the lateral and depth resolution of the improved microscope, which will be compared to theoretically predicted results. Preliminary data from critical dimension measurements of photoresist on silicon, and photoresist on silicon dioxide wafers, for linewidths in the range of 0.7 to 2.6μm will also be presented.
Structural analysis and solution of systems of algebraic design equations (1984)

Abstract A new method for expressing the structure of a system of equations is developed using a type of occurrence matrix entitled the functionality matrix . The functionality matrix indicates not only the occurrence of variables in equations but also the functional form in which they occur. Since the difficulty of solving an equation for a variable is related to its functional form, analysis of the functionality matrix provides explicit information on the difficulty of solution of the solution of the equation. A methodology for the solution of design problems by digital computers is described. This methodology operates on the functionality matrix which describes the set of design equations. Algorithms using this methodology interact and guide the designer in an efficient selection of design variables and redundant equations. Once design variables and redundant equations are selected, a computational method is presented for ordering and solving the equations.
Automatically tuning antenna system for software-defined and cognitive radio (2006)

This dissertation discusses the approach and benefits of implementing an automatic antenna tuning unit (ATU) for the further development of software defined and cognitive radio. The focus of the topic of this dissertation is to simplify radio frequency (RF) front-end design for multi-band, multi-mode radios by using reconfigurable antennas as a frequency-agile selective component and develop appropriate analog and mixed-signal control circuitry as well as algorithms to allow these antennas to be reconfigured on demand by the radio's baseband processor. 
Electrically small antennas (ESAs) are utilized as tunable filters as well as radiating elements to simplify the RF front-end design, which has the potential to lower the cost of next generation commercial and military radios while simultaneously enhancing performance. The automatic tunability of the frequency selective antenna is achieved by a closed-loop ATU. In implementing the ATU, impedance synthesizers, i.e., tunable matching networks, are developed to match a more or less arbitrary load to a convenient impedance value, usually 50 Ω. To generate feedback data that can be used to optimize the impedance synthesizer, the incident and reflected powers at the input to the impedance synthesizer are measured using a power sensor block comprising directional coupler, power detector diodes, and analog-to-digital converters (ADCs). In order to validate the design of the ATU, a hardware implementation of the ATU prototype has been demonstrated to verify narrowband automatic tuning ability of the ATU under constantly changing environment conditions.
Effects of Heparin and Enoxaparin on APP Processing and Aβ Production in Primary Cortical Neurons from Tg2576 Mice (2011)

The data indicate that heparin and enoxaparin decrease APP processing via both α- and β-secretase pathways. The possibility that GAGs may be beneficial for the treatment of AD needs further study.
Further Evaluation of Aortic Valve Homografts Sterilized by Electron-Beam Energy (1969)

Clinical results with the use of irradiated aortic valve homografts in 45 patients are reported. These valves have functioned satisfactorily up to 2 years. Forty-four per cent of the surviving patients developed a murmur suggestive of a degree of aortic valvular insufficiency. One required re-operation, and all others remain in excellent compensation. Emphasis is placed on the precise surgical technique of implantation and the proper selection of graft size, as well as the technique of preservation of the graft in obtaining a satisfactory hemodynamic result.
A Fairness-aware Incentive Scheme for Federated Learning (2020)

In federated learning (FL), data owners "share" their local data in a privacy preserving manner in order to build a federated model, which in turn, can be used to generate revenues for the participants. However, in FL involving business participants, they might incur significant costs if several competitors join the same federation. Furthermore, the training and commercialization of the models will take time, resulting in delays before the federation accumulates enough budget to pay back the participants. The issues of costs and temporary mismatch between contributions and rewards have not been addressed by existing payoff-sharing schemes. In this paper, we propose the Federated Learning Incentivizer (FLI) payoff-sharing scheme. The scheme dynamically divides a given budget in a context-aware manner among data owners in a federation by jointly maximizing the collective utility while minimizing the inequality among the data owners, in terms of the payoff gained by them and the waiting time for receiving payoff. Extensive experimental comparisons with five state-of-the-art payoff-sharing schemes show that FLI is the most attractive to high quality data owners and achieves the highest expected revenue for a data federation.
The gastrointestinal tract and HIV pathogenesis (2010)

Gastrointestinal dysfunction has been recognised as a major manifestation of the human immunodeficiency virus (HIV) infection usually presenting as diarrhoea which may or may not be due to the presence of an opportunistic infection of the GIT. Contrary to earlier assumptions, there is now substantial evidence to demonstrate that there are significant changes in the gut in the acute phase of HIV infection; the most significant of these being the substantial loss of the CD4+ T-cells in the GIT. Delays in the initiation of HAART (that is, once the CD4+ T-cell count drops below 200 cells/uL), is associated with a greater severity of HIV-associated GIT enteropathy, and poor clinical outcome.
만성B형간염의 치료 전략 (2014)

Recent advance in understanding the natural course of HBV infection and the use of anti-viral agents (peginterferon, lamivudine, adefovir, telbivudine, entecavir and tenofovir), it is possible to enable the sustained viral suppression and to prevent the progression of chronic liver disease and the development of hepatocellular carcinoma. Herein, I``d like to discuss the strategy for treatment of chronic hepatitis B.
TU‐A‐BRA‐10: Real‐Time Markerless Tumor Tracking with MV Imaging and a Dynamic Multi‐Leaf Collimator (DMLC) (2012)

Purpose: The implementation of a real‐time adaptive therapy system. Automatic soft tissue localization (STiL) is used to drive DMLC adaptation maintaining the position of the dynamic treatment aperture relative to the tumor location during the entire breathing cycle. The STiL component utilizes electronic portal images and operates without the need for fiducial markers. The proposed system has the potential to improve treatment accuracy, dose conformity and sparing of healthy tissue. Methods: The system is implemented and tested on a clinical linear accelerator featuring an electronic portal imaging device (EPID) and a DMLC control system. EPID images are continuously acquired at a frame rate of 12.86 Hz. The STiL component processes the images in real‐time, sending its output ‐ the current tumor position ‐ to the DMLC component, which moves the aperture to that position. Image transfer, tumor position calculation and DMLC motion introduce a time lag between tumor position at acquisition time and at the time the treatment aperture reaches this position. We analyze this latency with a dynamic chest phantom driving a 1D sinusoidal motion (20mm superior‐inferior motion range and 4.5s period). We estimate the resulting average geometric systematic error in a clinical setting by driving the phantom with several patient traces (recorded from fiducial tracking during lung SBRT). Results: The individual geometric errors of the StiL and the DMLC component are each smaller than 1 mm. The overall system latency was found to be 210 ms. The average rms‐error of 11 patients traces (172 beams) was found to be (1.8 ± 0.8) mm with this latency. Conclusions: We have implemented a real‐time adaptive therapy system integrating automatic soft tissue tumor localization with DMLC adaptation of the treatment aperture. The functionality of the combined system was tested successfully and the systemic latency and resulting rms error measured. Varian Medical Systems Inc., NCI grant CA93626
Blue-green laser diodes on ZnSe substrates (1995)

II-VI heterostructures composed of ZnMgSSe/ZnSe/ZnCdSe layers have been grown by molecular beam epitaxy on conducting ZnSe substrates and fabricated into blue and green laser diodes. These are the first laser diodes ever prepared on ZnSe. Pulsed laser emission from devices with no facet coatings has been obtained from 77 K to near room temperature. CW laser emission was also observed at 77 K.
A novel SC/MMSE turbo equalization for multicarrier systems with insufficient cyclic prefix (2008)

In this paper, we propose a multipath division SC/MMSE turbo equalizer for multicarrier systems with insufficient cyclic prefix (CP). In the proposed scheme, the received paths, which include paths that exceed the length of the CP, are divided into several blocks. Therefore, inter-symbol interference and inter-carrier interference, which are caused by large delayed paths, can be mitigated by making the paths in each block shorter than or equal to the CP length through multipath division. Moreover, path diversity gain can be obtained when paths in each block are combined by the MMSE filter. Therefore, this proposed turbo equalization can realize the reduction of both ISI and ICI with low complexity. In order to evaluate the effectiveness of the proposed scheme, we perform computer simulation. The simulation results show that the proposed scheme can drastically improve PER characteristics.
CD55 Deficiency, Early-Onset Protein-Losing Enteropathy, and Thrombosis (2017)

CD55 deficiency with hyperactivation of complement, angiopathic thrombosis, and protein-losing enteropathy (the CHAPLE syndrome) is caused by abnormal complement activation due to biallelic loss-of-function mutations in CD55. (Funded by the National Institute of Allergy and Infectious Diseases and others.).
CRISPR/Cas9-based genetic correction for recessive dystrophic epidermolysis bullosa (2016)

Recessive dystrophic epidermolysis bullosa (RDEB) is a severe disorder caused by mutations to the <i>COL7A1</i> gene that deactivate production of a structural protein essential for skin integrity. Haematopoietic cell transplantation can ameliorate some of the symptoms; however, significant side effects from the allogeneic transplant procedure can occur and unresponsive areas of blistering persist. Therefore, we employed genome editing in patient-derived cells to create an autologous platform for multilineage engineering of therapeutic cell types. The clustered regularly interspaced palindromic repeats (CRISPR)/Cas9 system facilitated correction of an RDEB-causing <i>COL7A1</i> mutation in primary fibroblasts that were then used to derive induced pluripotent stem cells (iPSCs). The resulting iPSCs were subsequently re-differentiated into keratinocytes, mesenchymal stem cells (MSCs) and haematopoietic progenitor cells using defined differentiation strategies. Gene-corrected keratinocytes exhibited characteristic epithelial morphology and expressed keratinocyte-specific genes and transcription factors. iPSC-derived MSCs exhibited a spindle morphology and expression of CD73, CD90 and CD105 with the ability to undergo adipogenic, chondrogenic and osteogenic differentiation <i>in vitro</i> in a manner indistinguishable from bone marrow-derived MSCs. Finally, we used a vascular induction strategy to generate potent definitive haematopoietic progenitors capable of multilineage differentiation in methylcellulose-based assays. In totality, we have shown that CRISPR/Cas9 is an adaptable gene-editing strategy that can be coupled with iPSC technology to produce multiple gene-corrected autologous cell types with therapeutic potential for RDEB.
Exploration of Thiaheterocyclic <i>H</i> Hdac6 Inhibitors as Potential Antiplasmodial Agents (2017)

Four hHDAC6 inhibitors showed submicromolar potency against both a chloroquine-sensitive and a chloroquine-resistant strain of Plasmodium falciparum with high selectivity indices, pointing to the relevance of exploring hHDAC6 inhibitors as potential new antiplasmodial agents.
Efficient Allocation Algorithms for FLASH File Systems (2005)

Embedded systems have been developing rapidly, and flash memory technology has become an essential building block because of its shock-resistance, low power consumption, and non-volatile nature. Since flash memory is a write-once and bulk-erase medium, an intelligent allocation algorithm is essential to providing applications efficient storage service. In this paper, we propose three allocation algorithms - a first come first serve (FCFS) method, a first re-arrival first serve (FRFS) method, and an online first re-arrival first serve (OFRFS) method. Both FCFS and OFRFS are online allocation mechanisms which make allocation decision as the requests arrive. The FRFS method, which serves as an offline mechanism, is developed as the standard of performance comparison. The capability of the proposed mechanisms is demonstrated by a series of experiments and simulations. The experimental results indicate that FRFS provide superior performance when the data access pattern is analyzed in advance, and the online OFRFS method provides good performance by run-time estimation of access patterns.
Model-based recognition and localization from tactile data (2005)

This paper discusses how local measurements of three-dimensional positions and surface normals recorded by a set of tactile sensors may be used to identify and locate objects, from among a set of known objects. The objects are modeled as polyhedra having up to six degrees of freedom relative to the sensors. We show that inconsistent hypotheses about pairings between sensed points and object surfaces can be discarded efficiently by using local constraints on: distances between faces, angles between face normals, and angles (relative to the surface normals) of vectors between sensed points. We show by simulation that the number of hypotheses consistent with these constraints is small. We also show how to recover the position and orientation of the object from the sense data.