gebhart/patrepeval huggingface dataset:
Targeting of nucleic acid junctions: addressing to a branch point an oligodeoxynucleotide conjugated with an intercalator (1998)

It is possible to enhance targeting of a DNA stem flank domain with a complementary DNA when it is conjugated with diphenyl ether at the branch point. The nucleoside 2'-deoxy-5-methyl- N 4-(4-phenoxyphenyl)cytidine (5) was synthesized from thymidineby tritylation, acetylation, amination via 2,4, 6-trimethylbenzenesulfonyl activation and subsequent de-protection. When a three-way junction is formed with a bulged nucleoside 5 at the branch point, the thermal melting temperature was increased by 9 degreesC when compared with wild-type DNA. When hybridizing to one of the flanks at a stem allowing coaxial stacking to the stem, modification at the branch point resulted in DeltaTm= 5.8 degreesC. For targeting to RNA the results were more ambiguous. RNase H activity was observed in some cases when an intercalating aromatic ring was addressed at the branch point. RNase H activity was observed even for a short 7mer ODN.
Role of DNA Repair Factor Xeroderma Pigmentosum Protein Group C in Response to Replication Stress As Revealed by DNA Fragile Site Affinity Chromatography and Quantitative Proteomics (2016)

Replication stress (RS) fuels genomic instability and cancer development and may contribute to aging, raising the need to identify factors involved in cellular responses to such stress. Here, we present a strategy for identification of factors affecting the maintenance of common fragile sites (CFSs), which are genomic loci that are particularly sensitive to RS and suffer from increased breakage and rearrangements in tumors. A DNA probe designed to match the high flexibility island sequence typical for the commonly expressed CFS (FRA16D) was used as specific DNA affinity bait. Proteins significantly enriched at the FRA16D fragment under normal and replication stress conditions were identified using stable isotope labeling of amino acids in cell culture-based quantitative mass spectrometry. The identified proteins interacting with the FRA16D fragment included some known CFS stabilizers, thereby validating this screening approach. Among the hits from our screen so far not implicated in CFS maintenance, we chose Xeroderma pigmentosum protein group C (XPC) for further characterization. XPC is a key factor in the DNA repair pathway known as global genomic nucleotide excision repair (GG-NER), a mechanism whose several components were enriched at the FRA16D fragment in our screen. Functional experiments revealed defective checkpoint signaling and escape of DNA replication intermediates into mitosis and the next generation of XPC-depleted cells exposed to RS. Overall, our results provide insights into an unexpected biological role of XPC in response to replication stress and document the power of proteomics-based screening strategies to elucidate mechanisms of pathophysiological significance.
Data from Genome-Wide Impact of Androgen Receptor Trapped clone-27 Loss on Androgen-Regulated Transcription in Prostate Cancer Cells (2023)

&lt;div&gt;Abstract&lt;p&gt;The androgen receptor (AR) directs diverse biological processes through interaction with coregulators such as AR trapped clone-27 (ART-27). Our results show that ART-27 is recruited to AR-binding sites by chromatin immunoprecipitation analysis. In addition, the effect of ART-27 on genome-wide transcription was examined. The studies indicate that loss of ART-27 enhances expression of many androgen-regulated genes, suggesting that ART-27 inhibits gene expression. Surprisingly, classes of genes that are up-regulated upon ART-27 depletion include regulators of DNA damage checkpoint and cell cycle progression, suggesting that ART-27 functions to keep expression levels of these genes low. Consistent with this idea, stable reduction of ART-27 by short-hairpin RNA enhances LNCaP cell proliferation compared with control cells. The effect of ART-27 loss was also examined in response to the antiandrogen bicalutamide. Unexpectedly, cells treated with ART-27 siRNA no longer exhibited gene repression in response to bicalutamide. To examine ART-27 loss in prostate cancer progression, immunohistochemistry was conducted on a tissue array containing samples from primary tumors of individuals who were clinically followed and later shown to have either recurrent or nonrecurrent disease. Comparison of ART-27 and AR staining indicated that nuclear ART-27 expression was lost in the majority of AR-positive recurrent prostate cancers. Our studies show that reduction of ART-27 protein levels in prostate cancer may facilitate antiandrogen-resistant disease. [Cancer Res 2009;69(7):3140–7]&lt;/p&gt;&lt;/div&gt;
Brief Report: Hepatitis B Infection or Reactivation After Switch to 2-Drug Antiretroviral Therapy: A Case Series, Literature Review, and Management Discussion (2023)

Two-drug ART switch may pose risk of HBV infection or reactivation. We propose careful patient selection and monitoring through the following: (1) assessment of HBV serologies before switch and periodically thereafter, (2) vaccination and confirmation of immunity before switch, (3) risk stratification and counseling about HBV reactivation for those with core antibody, (4) preemptive HBV DNA monitoring for those at the risk of reactivation, (5) continuation of HBV-active prophylaxis when above measures are not feasible, and (6) continuation of HBV-active therapy and surveillance for chronic HBV infection.
Cardioprotective function of cardiac macrophages (2014)

The heart is composed of several cell types including cardiomyocytes, cardiac fibroblasts, endothelial, and smooth muscle cells. In addition to these major cell types, cardiac macrophages are also present in small numbers under physiological conditions. Recently, the resident macrophage is considered to have vital functions in the maintenance of tissues and homeostasis in many organs, including brain, liver, adipose tissue, lymphatic tissue, and intestinal tract. However, detailed functions of the cardiac resident macrophage are not fully understood. Although the removal of debris arising from damaged cardiomyocytes and pro-inflammatory effects after heart injuries are conventional tasks of cardiac macrophages (classically activated macrophage or M1 macrophage), novel functions like anti-inflammatory roles, adaptive response, and tissue maintenance have also been reported in recent years. Macrophages that possess these novel functions are generally so-called M2 macrophages, which are alternatively activated and show anti-inflammatory phenotype under pathological conditions. In this review, we focus on the cardioprotective function of the cardiac macrophage and discuss in light of unveiled fundamental functions of macrophages that have been also found in other organs.
"Spaghetti" design for gravitational wave superconducting antenna (2014)

A new concept for detectors of gravitational wave radiation is discussed. Estimates suggest that strain sensitivity essentially better than that of the existing devices can be achieved in the wide frequency range. Such sensitivity could be obtained with devices about one meter long. Suggested device consists of multi-billion bimetallic superconducting wires ("spaghettis") and requires cryogenic operational temperatures (~0.3K in the case considered).
Kinetic Analysis of Enterococcus faecium <scp>l</scp> , <scp>d</scp> -Transpeptidase Inactivation by Carbapenems (2012)

Bypass of classical penicillin-binding proteins by the L,D-transpeptidase of Enterococcus faecium (Ldt(fm)) leads to high-level ampicillin resistance in E. faecium mutants, whereas carbapenems remain the lone highly active β-lactams. Kinetics of Ldt(fm) inactivation was determined for four commercial carbapenems and a derivative obtained by introducing a minimal ethyl group at position 2. We show that the bulky side chains of commercial carbapenems have both positive and negative effects in preventing hydrolysis of the acyl enzyme and impairing drug binding.
Making the Leap from Research Laboratory to Clinic: Challenges and Opportunities for Next-Generation Sequencing in Infectious Disease Diagnostics (2015)

Next-generation DNA sequencing (NGS) has progressed enormously over the past decade, transforming genomic analysis and opening up many new opportunities for applications in clinical microbiology laboratories. The impact of NGS on microbiology has been revolutionary, with new microbial genomic sequences being generated daily, leading to the development of large databases of genomes and gene sequences. The ability to analyze microbial communities without culturing organisms has created the ever-growing field of metagenomics and microbiome analysis and has generated significant new insights into the relation between host and microbe. The medical literature contains many examples of how this new technology can be used for infectious disease diagnostics and pathogen analysis. The implementation of NGS in medical practice has been a slow process due to various challenges such as clinical trials, lack of applicable regulatory guidelines, and the adaptation of the technology to the clinical environment. In April 2015, the American Academy of Microbiology (AAM) convened a colloquium to begin to define these issues, and in this document, we present some of the concepts that were generated from these discussions.
miRNA‐Specific Unlocking of Drug‐Loaded Metal–Organic Framework Nanoparticles: Targeted Cytotoxicity toward Cancer Cells (2019)

UiO-68 metal-organic framework nanoparticles (NMOFs) are loaded with a doxorubicin drug (fluorescent dye analogs) and locked by means of structurally engineered duplex nucleic acid structures, where one strand is covalently linked to the NMOFs and the second strand is hybridized with the anchor strand. Besides the complementarity of the second strand to the anchor sequence, it includes the complementary sequence to the microRNAs (miRNA)-21 or miRNA-221 that is specific miRNA biomarker for MCF-7 breast cancer cells or OVCAR-3 ovarian cancer cells. In the presence of the respective miRNA biomarkers, the miRNA-induced displacement of the strand associated with the anchor strand proceeds, resulting in the release of DNA/miRNA duplexes. The released duplexes are, however, engineered to be digested in the presence of exonuclease III, Exo III, a process that recycles the miRNAs and provides the autonomous amplified unlocking of the NMOFs and the release of the doxorubicin load (or the fluorescent dye analogs) even at low concentrations of miRNA. Preliminary cell experiments reveal that the respective NMOFs are unlocked by the miRNA-21 or miRNA-221, resulting in selective cytotoxicity toward MCF-7 breast cancer cells or OVCAR-3 ovarian cancer cells.
Natural Deep Eutectic Solvents as Performance Additives for Peroxygenase Catalysis (2019)

Abstract Natural deep eutectic solvents (NADES) are proposed as alternative solvents for peroxygenase‐catalysed oxyfunctionalization reactions. Choline chloride‐based NADES are of particular interest as they can serve as solvent, enzyme‐stabiliser and sacrificial electron donor for the in situ H 2 O 2 generation. This report provides the first proof‐of‐concept and basic characterisation of this new reaction system. Highly promising turnover numbers for the biocatalysts of up to 200,000 have been achieved.
A 4-spot time-of-flight anemometer for small centrifugal compressor velocity measurements (1992)

The application of laser anemometry techniques in turbomachinery facilities is a challenging dilemma requiring an anemometer system with special qualities. Here, we describe the use of a novel laser anemometry technique applied to a small 4.5 kg/s, 4:1 pressure ratio centrifugal compressor. Sample velocity profiles across the blade pitch are presented for a single location along the rotor. The results of the intra-blade passage velocity measurements will ultimately be used to verify CFD 3-D viscous code predictions.
Research on generation of endoscopy inspection support image focused on focus information (2017)

The technology of medical devices is making progress day by day. However, user skill to used such devices are still required. There is a similar problem in endoscopic examination, and from the shallow depth of field of endoscope, the user skill and experience are required to focus on a target surface. In this paper, we propose stable endoscopic image creation algorithm to solve above problems. The effectiveness and limitation of proposed algorithm were confirmed through the several experiments.
National trends and disparities in the incidence of hepatocellular carcinoma, 1998-2003. (2008)

We document rising incidence rates of hepatocellular carcinoma in the United States during a time when the overall incidence of cancer has stabilized. Efforts to collect representative etiologic data on new hepatocellular carcinoma cases are needed to enable better characterization of trends and to guide the planning and evaluation of prevention programs.
Childhood Graves’ Disease—Remission Rate and Risk Factorse (1998)

We read with great interest the paper by Ross et al. (1), concerning the absence of GH effects on cognitive function in girls with Turner's syndrome. In our opinion, the statement that these results are in agreement with most of the previous studies that found no apparent GH treatment effects on cognitive function in patients with GH deficiency (GHD) needs a fair degree of caution.
An insight into the neuroprotective and anti-neuroinflammatory effects and mechanisms of Moringa oleifera (2023)

Neurodegenerative diseases (NDs) are sporadic maladies that affect patients' lives with progressive neurological disabilities and reduced quality of life. Neuroinflammation and oxidative reaction are among the pivotal factors for neurodegenerative conditions, contributing to the progression of NDs, such as Parkinson's disease (PD), Alzheimer's disease (AD), multiple sclerosis (MS) and Huntington's disease (HD). Management of NDs is still less than optimum due to its wide range of causative factors and influences, such as lifestyle, genetic variants, and environmental aspects. The neuroprotective and anti-neuroinflammatory activities of <i>Moringa oleifera</i> have been documented in numerous studies due to its richness of phytochemicals with antioxidant and anti-inflammatory properties. This review highlights up-to-date research findings on the anti-neuroinflammatory and neuroprotective effects of <i>M. oleifera</i>, including mechanisms against NDs. The information was gathered from databases, which include Scopus, Science Direct, Ovid-MEDLINE, Springer, and Elsevier. Neuroprotective effects of <i>M. oleifera</i> were mainly assessed by using the crude extracts <i>in vitro</i> and <i>in vivo</i> experiments. Isolated compounds from <i>M. oleifera</i> such as moringin, astragalin, and isoquercitrin, and identified compounds of <i>M. oleifera</i> such as phenolic acids and flavonoids (chlorogenic acid, gallic acid, ferulic acid, caffeic acid, kaempferol, quercetin, myricetin, (-)-epicatechin, and isoquercitrin) have been reported to have neuropharmacological activities. Therefore, these compounds may potentially contribute to the neuroprotective and anti-neuroinflammatory effects. More in-depth studies using <i>in vivo</i> animal models of neurological-related disorders and extensive preclinical investigations, such as pharmacokinetics, toxicity, and bioavailability studies are necessary before clinical trials can be carried out to develop <i>M. oleifera</i> constituents into neuroprotective agents.
First synthesis and aggregation behaviour of periconjugated triazoliumfullerene (2013)

Triazoliumfullerene was first prepared by the [3+2] cycloaddition of in situ generated 1,3-diaza-2-azoniaallene with fullerene and was characterized by the dispersed positive charge over the fullerene sphere associated with periconjugation. This new type of amphiphilic fullerene tended to form vesicles and crystalline aggregates after the casting of THF or MeOH solutions.
A real-time sleeping position recognition system using IMU sensor motion data (2018)

The emergence of wearable miniature inertial measurement unit (IMU) sensors is a powerful enabler for lying motion data extraction. Consumer wearable sleep devices with inertial measurement capability are in the market with some having limited functions such as automatic sleep detection, awakening, determination of sleep position changes and sleep efficiency. In this study, an IMU sensor is used for capturing 3D motion data. A spectrogram based algorithm for feature extraction from the motion data is proposed and implemented. Using the generated spectrogram based features, the long term short memory (LSTM) recurrent neural network (RNN) model is used for recognition of sleeping positions. The test results show that an accuracy of 99.09% can be achieved in a supervised learning mode. A real-time feature extraction and recognition system is developed to implement the proposed algorithm.
&lt;title&gt;Ninety-four GHz InAlAs/InGaAs/InP HEMT low-noise down-converter&lt;/title&gt; (1991)

We have fabricated an integrated W-band downconverter using 0.15 micron T-gate lattice-matched InGaAs/InP High Electron Mobility Transistor. The two-stage MIC LNA demonstrated record performance with a minimum noise figure of 3.0 dB and 16.5 dB associated gain at 93 GHz. The active InP HEMT mixer showed 2.4 dB conversion gain and 7.3 dB noise figure at 94 GHz. This is the first reported active mixer conversion gain at W-band. The complete downconverter exhibited 3.6 dB noise figure and 17.8 dB conversion gain at the waveguide input. These state-of-the-art performances demonstrate that a complete W-band MMIC downconverter chip with extremely low noise figure and high conversion gain can be fabricated on the same wafer using the InP HEMT technology.
A 4D x-ray computer microtomography for high-temperature electrochemistry (2022)

High-temperature electrochemistry is widely used in many fields. However, real-time observations and an in-depth understanding of the inside evolution of this system from an experimental perspective remain limited because of harsh reaction conditions and multiphysics fields. Here, we tackled this challenge with a high-temperature electrolysis facility developed in-house. This facility permits in situ x-ray computer microtomography (μ-CT) for nondestructive and quantitative three-dimensional (3D) imaging. In an electrorefining system, the μ-CT probed the dynamic evolution of 3D morphology and components of electrodes (4D). Subsequently, this 4D process was visually presented via reconstructed images. The results monitor the efficiency of the process, explore the dynamic mechanisms, and even offer real-time optimization. This 4D analysis platform is notable for in-depth combinations of traditional electrochemistry with digital twin technologies owing to its multiscale visualization and high efficiency of data extraction.
NMR Solvent Relaxation in Studies of Multicomponent Polymer Adsorption (2002)

NMR spin−spin solvent relaxation measurements have been performed on a series of aqueous dispersions of silica with physisorbed poly(ethylene oxide) (PEO) and poly(vinyl pyrrolidone) (PVP). Enhancements in the specific relaxation rate constant as a result of polymer adsorption were observed. Measurements of the relaxation rate constant as a function of the concentrations of silica and polymer in the system have been used to determine the amount of polymer trains adsorbed at the particle surface, at saturation. Studies of PEO−PVP−silica dispersions have shown that preadsorbed PEO is completely displaced when the silica concentration is small enough to allow the added PVP to saturate the surface. When the concentration of silica is increased beyond this point, then PEO and PVP are able to coexist on the particle surface.
Pulling Forces at the Foot-Rest Influences Power Output Performance on a Kayak-Ergometer (2018)

The aim of this study was to determine the forces applied at the foot-rest during ergometer kayaking and their correlation to power, VO2peak and competition time. Ten competitive kayakers (7 men, 3 women) participated voluntarily in the study. Exercise capacity was measured as maximal oxygen consumption (VO2peak) and peak power during two and four minutes all-out exercise test on a kayak ergometer. External force sensors were attached to the wires connecting the paddle to the fan of the kayak ergometer. Foot-rests were built to enable measurements of pushing and pulling forces and to distinguish between the left and right foot. Paddle forces correlated significantly to power, VO2peak and on-water competition time at 500 meter but not at 1000 meter. Pulling forces on the foot-rests correlated significantly to power, VO2peak and competition time at 500 and 1000 meters, whereas no significant correlations were found for pushing forces on the foot-rest. No significant correlation was found between forces in the paddle and the foot-rest. To the best of our knowledge, we have for the first time demonstrated that pulling forces at the foot-rest influence kayaking performance.
ChemInform Abstract: Neutral, Single‐Component Nickel (II) Polyolefin Catalysts that Tolerate Heteroatoms (2000)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Game-based admission control for wireless systems (2008)

Much previous work has examined the wireless power control problem using tools from game theory, an economic concept which describes the behavior of interdependent but non-cooperative users. In this paper, we expand these ideas to the antecedent process of deciding which users may participate in the network, i.e. the admission control problem. In particular, we propose three distinct pricing schemes for influencing users as they make their participation decisions. We fully characterize the equilibria induced by each and then test their performance in a simulated, wireless environment. Our preliminary results show that these schemes have the potential to produce high quality outcomes in an incentive-compatible way.
Moments of Subsets of General Equiangular Tight Frames (2021)

This note outlines the steps for proving that the moments of a randomly-selected subset of a general ETF (complex, with aspect ratio $0