gebhart/patrepeval huggingface dataset:
Efficacy of telaprevir‐based therapy for difficult‐to‐treat patients with genotype 2 chronic hepatitis <scp>C</scp> in <scp>J</scp>apan (2014)

Telaprevir, in combination with PEG IFN/RBV, provided a high SVR rate for genotype 2 HCV, difficult-to-treat patients who had not achieved SVR during prior IFN-based treatment. The eRVR had a strong influence on the cure rate of telaprevir-based therapy. In addition, the continuation of telaprevir-based treatment for up to 24 weeks was a significant predictor of SVR.
Sinusoidal modeling for piano tones (2013)

In sinusoidal modeling, a musical sound is represented by a sum of time-varying sinusoidals. Here, we propose a sinusoidal model specifically designed for piano tones and develop an iterative method to estimate the parameters of the model. Our model assumes the following: (1) the input signals are isolated piano tones, and (2) there may be more than one instances of the same pitch. We also have designed a spectral pick-peaking method to estimate the number of partials and the partial frequencies of piano tones. Experiments on real piano signals show that our model gives high modeling quality and yields better quality in modeling than those reported in the previous work.
Towards automated dementia diagnosis based upon speech (2017)

The clinical diagnosis of Alzheimer’s disease and other dementias is very challenging, especially in the early stages. Our hypothesis is that any disease that effects particular brain regions involved in speech production and processing will also leave detectable finger prints in the speech. The goal of this work is an easy-to-use, non-invasive, inexpensive diagnostic test for dementia that can easily be applied in a clinician’s office or even at home. Experimental evidence suggests that strong discrimination between subjects with a diagnosis of probable Alzheimer’s versus matched normal controls can be achieved with a combination of acoustic features from speech, linguistic features extracted from a transcription of the speech, and results of a mini mental state exam. Progress is reported toward a fully automatic speech recognition system tuned for the speech-to-text aspect of this application. In addition to using state-of-the- art automatic speech recognition techniques such as Deep Learning, recurrent neural networks are used to predict the punctuation in transcribed speech, which is later used for extracting linguistic features. This fully automated system for 73 speakers is combined with 140 manually transcribed speech samples and used for experimental testing of a system for automated detection of Alzheimer’s from speech.
Electronically tunable silicon photonic delay lines (2011)

Electronically tunable optical true-time delay lines are proposed. The devices utilize the combination of apodised gratings and the free-carrier plasma effect to tune the enhanced delay of silicon waveguides at a fixed wavelength. Three variations of the proposed scheme are studied and compared. The compact and integrable devices can achieve tuning ranges as high as ~660 ps with a loss of < 2.2 dB when operated in the reflection mode of the gratings. A delay of ~40 ps with a loss of < 10 dB and an estimated operation bit rate of ~20 Gb/s can be achieved.
Repeated administration of the NSAID meloxicam alters the plasma and urine lipidome (2019)

Non-steroidal anti-inflammatories (NSAIDs), such as meloxicam, are the mainstay for treating painful and inflammatory conditions in animals and humans; however, the repeated administration of NSAIDs can cause adverse effects, limiting the long-term administration of these drugs to some patients. The primary aim of this study was to determine the effects of repeated meloxicam administration on the feline plasma and urine lipidome. Cats (n = 12) were treated subcutaneously with either saline solution or 0.3 mg/kg body weight of meloxicam daily for up to 31 days. Plasma and urine lipidome were determined by LC-MS before the first treatment and at 4, 9 and 13 and 17 days after the first administration of meloxicam. The repeated administration of meloxicam altered the feline plasma and urine lipidome as demonstrated by multivariate statistical analysis. The intensities of 94 out of 195 plasma lipids were altered by the repeated administration of meloxicam to cats (p < 0.05). Furthermore, we identified 12 lipids in plasma and 10 lipids in urine that could serve as biomarker candidates for discriminating animals receiving NSAIDs from healthy controls. Expanding our understanding about the effects of NSAIDs in the body could lead to the discovery of mechanism(s) associated with intolerance to NSAIDs.
Stereotactic Injection of MicroRNA-expressing Lentiviruses to the Mouse Hippocampus CA1 Region and Assessment of the Behavioral Outcome (2013)

MicroRNAs (miRNAs) are small regulatory single-stranded RNA molecules around 22 nucleotides long that may each target numerous mRNA transcripts and dim an entire gene expression pathway by inducing destruction and/or inhibiting translation of these targets. Several miRNAs play key roles in maintaining neuronal structure and function and in higher-level brain functions, and methods are sought for manipulating their levels for exploring these functions. Here, we present a direct in vivo method for examining the cognitive consequences of enforced miRNAs excess in mice by stereotactic injection of miRNA-encoding virus particles. Specifically, the current protocol involves injection into the hippocampal CA1 region, which contributes to mammalian memory consolidation, learning, and stress responses, and offers a convenient injection site. The coordinates are measured according to the mouse bregma and virus perfusion is digitally controlled and kept very slow. After injection, the surgery wound is sealed and the animals recover. Lentiviruses encoding silencers of the corresponding mRNA targets serve to implicate the specific miRNA/target interaction responsible for the observed effect, with naïve mice, mice injected with saline and mice injected with "empty" lentivirus vectors as controls. One month post-injection, the animals are examined in the Morris Water Maze (MWM) for assessing their navigation learning and memory abilities. The MWM is a round tank filled with colored water with a small platform submerged 1 cm below the water surface. Steady visual cues around the tank allow for spatial navigation (sound and the earth's magnetic field may also assist the animals in navigating). Video camera monitoring enables measuring the route of swim and the time to find and amount the platform. The mouse is first taught that mounting the hidden platform offers an escape from the enforced swimming; it is then tested for using this escape and finally, the platform is removed and probe tests examine if the mouse remembers its previous location. Repeated tests over several consecutive days highlight improved performance of tested mice at shorter latencies to find and mount the platform, and as more direct routes to reach the platform or its location. Failure to show such improvement represents impaired learning and memory and/or anxiety, which may then be tested specifically (e.g. in the elevated plus maze). This approach enables validation of specific miRNAs and target transcripts in the studied cognitive and/or stress-related processes.
Error and Correction in Capacitance–Voltage Measurement Due to the Presence of Source and Drain (2007)

MOS capacitor with highly leaky gate dielectric requires source and drain to support the inversion charges. This transistor-like capacitor for capacitance-voltage ( -) measurement has become popular due to the need of accurately measuring inversion capacitance. The source and drain overlap capacitance is an unavoidable error and must be quantified. Although it is possible to measure the overlap capacitance directly, conventional method is not reliable due to high leakage. Here, we show that this error can be corrected in the new time-domain-reflectometry - measurement method introduced recently for highly leaky capacitors.
Non-exact present value relations (1996)

One of the most cornmonly used and, at the same time. rejected models in finance and macroeconomics is the exact present value model (PVM), where a variable Yt is expressed as the expected value at time t of the sum of discounted future values of another variable Xt. This paper generalizes the PVM by making it non-exact (NEPVM) in a simple way, allowing us to study situations with time varying discount factors, transitory deviations from the exact PVM, as well as situations with correlated market returns. The proposed NEPVM satisfies all the equilibrium conditions the exact PVM does, but at the same time it is more robust in the sense that rejections produced by the standard volatility and cross-equation restriction tests are not enough to reject the NEPVM. The paper presents the new variance bounds and cross-equation restrictions implied by the NEPVM and it shows how to test them. This paper also shows how to discriminate between the exact PVM and the NEPVM by testing for a deeper level of cointegration: multicointegration. The paper finished by analyzing empirically the cases of stock prices and dividens. short-and long-term interest rates and farmland prices. Although the exact PVM is rejected in the first two examples, as the literature has largely reported, we are unable to reject the NEPVM. This fact, together with the theoretical results contained in the paper, suggests that the pro po sed NEPVM could be compatible with sorne of the empirical findings in the literature.
Strong Coupling between Optomechanical Resonators (2009)

We demonstrate strong coupling between two stacked micro-optomechanical silicon nitride disks. The induced frequency splitting almost spans a full free-spectral range. Mechanical oscillations excited by repulsive/attractive gradient forces modulate the coupling modulation at several MHz.
Fabrication of Nanopillars on Nanocrystalline Diamond Membranes for the Incorporation of Color Centers (2019)

A fabrication process of dense arrays of one‐dimensional diamond nanostructures (diamond nanopillars) integrated on nanocrystalline diamond (NCD) membranes is implemented with an etched‐through marker hole in the membrane in the center of the array. NCD films deposited on silicon substrates are used as starting material. The main fabrication steps consist of structuring the NCD film by electron beam lithography (EBL) applying aluminum as a hard mask and subsequent inductively coupled O 2 plasma reactive ion etching (ICP RIE), followed by structuring of the silicon substrate from the backside to open a NCD membrane. The developed fabrication procedure for nanostructured membranes can be transferred to monocrystalline diamond and implemented for deterministic single ion implantation into the nanopillars for generation of nitrogen‐vacancy (NV) or silicon‐vacancy (SiV) centers. For this purpose, the etched marker hole can be applied for alignment in the implantation process. Such diamond nanostructures with integrated color centers could play an important role in the development of novel quantum memory devices.
NifS-directed assembly of a transient [2Fe-2S] cluster within the NifU protein (2000)

The NifS and NifU proteins from Azotobacter vinelandii are required for the full activation of nitrogenase. NifS is a homodimeric cysteine desulfurase that supplies the inorganic sulfide necessary for formation of the Fe-S clusters contained within the nitrogenase component proteins. NifU has been suggested to complement NifS either by mobilizing the Fe necessary for nitrogenase Fe-S cluster formation or by providing an intermediate Fe-S cluster assembly site. As isolated, the homodimeric NifU protein contains one [2Fe-2S](2+, +) cluster per subunit, which is referred to as the permanent cluster. In this report, we show that NifU is able to interact with NifS and that a second, transient [2Fe-2S] cluster can be assembled within NifU in vitro when incubated in the presence of ferric ion, L-cysteine, and catalytic amounts of NifS. Approximately one transient [2Fe-2S] cluster is assembled per homodimer. The transient [2Fe-2S] cluster species is labile and rapidly released on reduction. We propose that transient [2Fe-2S] cluster units are formed on NifU and then released to supply the inorganic iron and sulfur necessary for maturation of the nitrogenase component proteins. The role of the permanent [2Fe-2S] clusters contained within NifU is not yet known, but they could have a redox function involving either the formation or release of transient [2Fe-2S] cluster units assembled on NifU. Because homologs to both NifU and NifS, respectively designated IscU and IscS, are found in non-nitrogen fixing organisms, it is possible that the function of NifU proposed here could represent a general mechanism for the maturation of Fe-S cluster-containing proteins.
Preserving dynamic range by advanced color histogram matching in stereo vision (2012)

Recently, big advances have been made in developing stereo assistance systems for the production of stereoscopic movies. This paper handles the problem of possible unmatched colors between two stereo views. Based on an approach for multi-view coding efficiency, we present an advanced cumulative histogram matching method for narrow baseline stereo vision. In general results from basic cumulative histogram matching suffers from quantization errors in low dynamic range images. But also wrong colors might be introduced. To avoid such visible errors, we identify depopulated histogram ranges in color matched images. In detected ranges we adjust the mapping function by a constant value which leads to a linearized gradation curve, preserving the dynamic range of the image. Finally, we obtain an artifact free color matched image. Our approach can be applied as a pre- or a post-processing step.
Re: Robot-Assisted Laparoscopic Donor Nephrectomy vs Standard Laparoscopic Donor Nephrectomy: A Prospective Randomized Comparative Study (2016)

No AccessJournal of UrologyAdult Urology1 Aug 2016Re: Robot-Assisted Laparoscopic Donor Nephrectomy vs Standard Laparoscopic Donor Nephrectomy: A Prospective Randomized Comparative Study Jeffrey A. CadedduMD Jeffrey A. CadedduJeffrey A. Cadeddu More articles by this author View All Author Informationhttps://doi.org/10.1016/j.juro.2016.03.157AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Re: Robot-Assisted Laparoscopic Donor Nephrectomy vs Standard Laparoscopic Donor Nephrectomy: A Prospective Randomized Comparative Study." The Journal of Urology, 196(2), pp. 505–506 © 2016 by American Urological Association Education and Research, Inc.FiguresReferencesRelatedDetails Volume 196Issue 2August 2016Page: 505-506 Advertisement Copyright & Permissions© 2016 by American Urological Association Education and Research, Inc.MetricsAuthor Information Jeffrey A. Cadeddu More articles by this author Expand All Advertisement PDF downloadLoading ...
A Fully Integrated 660 MHz Low-Swing Energy-Recycling DC–DC Converter (2009)

A fully integrated 0.18 mum DC-DC buck converter using a low-swing ldquostacked driverrdquo configuration is reported in this paper. A high switching frequency of 660 MHz reduces filter components to fit on chip, but this suffers from high switching losses. These losses are reduced using: 1) low-swing drivers; 2) supply stacking; and 3) introducing a charge transfer path to deliver excess charge from the positive metal-oxide semiconductor drive chain to the load, thereby recycling the charge. The working prototype circuit converts 2.2 to 0.75-1.0 V at 40-55 mA. Design and simulation of an improved circuit is also included that further improves the efficiency by enhancing the charge recycling path, providing automated zero voltage switching (ZVS) operation, and synchronizing the half-swing gating signals.
Telephone versus In-Person Clinical and Health Status Assessment Interviews in Patients with Bipolar Disorder (1997)

We evaluated the correspondence between in-person- and telephone interview-derived data on affective symptoms, health-related quality of life, disability days, and medication compliance in patients with bipolar disorder. Twenty-eight outpatients with DSM-III-R-documented bipolar disorder were randomly assigned to an initial in-person or telephone interview. An average of 4.0 days later, they were reassessed by the other interview method. Results indicate good to excellent agreement between telephone and in-person interviews on measures of mania (intraclass correlation coefficient (ICC) = 0.92) and depression symptoms (ICC = 0.90), suicide risk (kappa = 0.80), and alcohol use (kappa = 0.61), scores on the Medical Outcomes Study 36-item Short-Form Health Survey (ICCs = 0.66-0.92), and medication compliance (ICCs = 0.50-0.66). Measures of bed disability days (ICC = 0.34) and restricted activity days (ICC = 0.66) showed less agreement. Telephone interviews are feasible and reliable for collecting data on psychiatric and other health-related outcomes in bipolar disorder patients.
Supplementaty data from Cytotoxic T Cells and Granzyme B Associated with Improved Colorectal Cancer Survival in a Prospective Cohort of Older Women (2023)

&lt;p&gt;Supplementary Figure 1. Receiver operator curve (ROC) plots in the logistic regression model (Model 2) for all-cause (B) and CRC-death (A) within 5 years after diagnosis (adjusted for age of diagnosis, BMI, smoking status, stage and grade at diagnosis). AUC=area under the ROC curve. Supplementary Table 1. Characteristics of women diagnosed with CRC across tumor composite scores for cytotoxic T lymphocytes (CTL) and granzymeB (GZMB)a. Supplementary Table 2. Tumor stromal and epithelial cytotoxic T lymphocytes (CTL) scoresa and risk of all-cause and CRC-specific death in the CRC patients, IWHS, 1986-2011. Supplementary Table 3. Tumor stromal and epithelial granzyme B (GZMB) scores and risk of all-cause and CRC-specific death the CRC patients, IWHS, 1986-2011. Supplementary Table 4. Tumor composite scores for cytotoxic T lymphocytes (CTL) and granzyme B (GZMB) for all-cause and CRC-specific death in the CRC patients followed for 5 years, IWHS, 1986-2011.&lt;/p&gt;
De novo design of modular peptide-binding proteins by superhelical matching (2023)

General approaches for designing sequence-specific peptide-binding proteins would have wide utility in proteomics and synthetic biology. However, designing peptide-binding proteins is challenging, as most peptides do not have defined structures in isolation, and hydrogen bonds must be made to the buried polar groups in the peptide backbone<sup>1-3</sup>. Here, inspired by natural and re-engineered protein-peptide systems<sup>4-11</sup>, we set out to design proteins made out of repeating units that bind peptides with repeating sequences, with a one-to-one correspondence between the repeat units of the protein and those of the peptide. We use geometric hashing to identify protein backbones and peptide-docking arrangements that are compatible with bidentate hydrogen bonds between the side chains of the protein and the peptide backbone<sup>12</sup>. The remainder of the protein sequence is then optimized for folding and peptide binding. We design repeat proteins to bind to six different tripeptide-repeat sequences in polyproline II conformations. The proteins are hyperstable and bind to four to six tandem repeats of their tripeptide targets with nanomolar to picomolar affinities in vitro and in living cells. Crystal structures reveal repeating interactions between protein and peptide interactions as designed, including ladders of hydrogen bonds from protein side chains to peptide backbones. By redesigning the binding interfaces of individual repeat units, specificity can be achieved for non-repeating peptide sequences and for disordered regions of native proteins.
In Situ Synthesis of SERS-Active Au@POM Nanostructures in a Microfluidic Device for Real-Time Detection of Water Pollutants (2020)

We present a simple, versatile, and low-cost approach for the preparation of surface-enhanced Raman spectroscopy (SERS)-active regions within a microfluidic channel 50 cm in length. The approach involves the UV-light-driven formation of polyoxometalate-decorated gold nanostructures, Au@POM (POM: H<sub>3</sub>PW<sub>12</sub>O<sub>40</sub> (PW) and H<sub>3</sub>PMo<sub>12</sub>O<sub>40</sub> (PMo)), that self-assemble in situ on the surface of the polydimethylsiloxane (PDMS) microchannels without any extra functionalization procedure. The fabricated LoCs were characterized by scanning electron microscopy (SEM), UV-vis, Raman, X-ray diffraction (XRD), and X-ray photoelectron spectroscopy (XPS) techniques. The SERS activity of the resulting Au@POM-coated lab-on-a-chip (LoC) devices was evaluated in both static and flow conditions using rhodamine R6G. The SERS response of Au@PW-based LoCs was found to be superior to Au@PMo counterparts and outstanding when compared to reported data on metal@POM nanocomposites. We demonstrate the potentialities of both Au@POM-coated LoCs as analytical platforms for real-time detection of the organophosphorous pesticide paraoxon-methyl at 10<sup>-6</sup> M concentration level.
ChemInform Abstract: Comparison of Free Energy Changes for Nitrogen Inversion and Electron Loss. Part 2. 8‐Azabicyclo(3.2.1)octyl and 7‐Azabicyclo(2.2.1)heptyl Systems. (1988)

Abstract Formal potentials for one‐ and two‐electron oxidation (cyclovoltammetry) of (Ib), (IIIa) and (IIIb) are compared with those of related compounds such as (IIa), the N,N‐dimethyl derivative of (VIII) (obtained in low yield by reductive methylation), and (Ia); (Ib) and (IIIb) are especially hard to oxidize.
Waste forms based on Cs-loaded silicotitanates (1995)

Silicotitanate ion exchange materials are being considered for removal of radioactive Cs and Sr from tank wastes at the Hanford site. The phase evolution as a function of heat treatment temperature for several sol gel derived compositions within the Cs{sub 2}O-SiO{sub 2}-TiO{sub 2} system was investigated, in order to determine if an adequate waste form can be achieved by direct thermal conversion. The Cs leach rates and Cs loss during heat treatment of select materials were measured. Some compositions which contain large amounts of Ti melt to form a glass with reasonably low aqueous leach rates. A new Cs-silicotitanate material with a structure isomorphous to pollucite was discovered. This material forms at low temperatures (700--800 C) where Cs volatility is negligible. The silicotitanate-pollucite exhibits extremely low leach rates (1.42 g/m{sup 2}day ) at 90 C, and has been identified as a promising waste form for Cs containment.