gebhart/patrepeval huggingface dataset:
Apoptin gene optimization in Escherichia coli (2019)

Apoptin is intensively studied for its potential as a therapeutic protein for cancer treatment since it is capable of inducing apoptosis specifically in cancer cells. Production of apoptin gene on a larger scale is important for the further application, and currently being studied by researchers around the world. In this research, chicken anemia virus apoptin optimized genetically for expression in Escherichia coli and modified using (His)6 tag, (Arg)8 tag, and HlyA tag intended for purification needs, penetration enhancement, and secretion from bacterial host to the growth media. Removal of (His)6 tag and HlyA tag were designed using a specific thrombin proteolytic site, while (Arg)8 tag was preserved. The gene designed, optimized and constructed in vector pET9a, then analyzed using Agarose Electrophoresis and Sequencing. The DNA sequencing result shows that the designed gene has successfully constructed.
Climacteric symptoms in postoperative patients among endometrial cancer, cervical cancer, and ovarian cancer: a cross-sectional study (2022)

The climacteric symptoms were less severe in patients with endometrial or ovarian cancer with longer time elapsed since surgery but not in those with cervical cancer. Patients with cervical cancer may require more prompt interventions, including symptomatic treatment and longer follow-up period, than those with endometrial or ovarian cancer.
Comparison of the intracellular pathways of transferrin recycling and vesicular stomatitis virus membrane glycoprotein exocytosis by ultrastructural double-label cytochemistry. (1987)

Transferrin is taken up by receptor-mediated endocytosis into intracellular vesicles and tubules, and then recycles rapidly to the plasma membrane (diacytosis). We applied double-label cytochemistry to study whether the recycling structures containing transferrin fuse with the intracellular membranous structures that deliver newly synthesized membrane glycoproteins from the ER to the plasma membrane (exocytosis) or whether they remain independent. KB and Vero cells were infected with the temperature-sensitive transport mutant 0-45 of vesicular stomatitis virus (VSV). Temperature-regulated exocytosis of membrane glycoprotein "G" occurred simultaneously with diacytosis of transferrin. The exocytic "G" protein, as detected by immunoperoxidase electron microscopy, passed through the cisternal Golgi stacks and vacuolar, tubular, vesicular, and pit-like structures of the Golgi system. A transferrin-ferritin conjugate used in ultrastructural double-label experiments was detected in diacytic vesicles and tubules that accumulated in the proximal (trans-reticular) Golgi area of the cell. The ferritin-labeled vesicles/tubules were often close to and intermixed with the VSV-"G" containing membranous structures, but in most cases at early times (15-20 min) the transferrin and VSV-"G" containing vesicular structures remained distinct. At later times (30-45 min), the two labels were occasionally found in the same structures. These results indicate that rapid recycling of endocytosed materials and exocytosis of membrane glycoproteins to the cell surface usually occur in distinct vesicles, possibly along the same general morphologic exit pathway.
A genome-wide haploid genetic screen for essential factors in vaccinia virus infection identifies TMED10 as regulator of macropinocytosis (2018)

Vaccinia virus is a promising viral vaccine and gene delivery candidate, and has historically been used as a model to study poxvirus-host cell interactions. We employed a genome-wide insertional mutagenesis approach in human haploid cells to identify host factors crucial for vaccinia virus infection. A library of mutagenized HAP1 cells was exposed to Modified Vaccinia Virus Ankara (MVA). Deep-sequencing analysis of virus-resistant cells identified host factors involved in heparan sulfate synthesis, Golgi organization, and vesicular protein trafficking. We validated EXT1, TM9SF2 and TMED10 TMP21/p23/p24δ) as important host factors for vaccinia virus infection. The critical role of EXT1 in heparan sulfate synthesis and vaccinia virus infection was confirmed. TM9SF2 was validated as a player mediating heparan sulfate expression, explaining its contribution to vaccinia virus infection. In addition, TMED10 was found to be crucial for virus-induced plasma membrane blebbing and phosphatidylserine-induced macropinocytosis, suggesting that TMED10 regulates actin cytoskeleton remodelling necessary for virus infection.
Performance optimization for on-chip sensors to detect recycled ICs (2015)

IC recycling has become a grave problem in today's globalized semiconductor industry, with potential impact to critical infrastructures. In order to mitigate this problem, various Design-for-Anti-Counterfeit (DfAC) measures have been recently proposed. In this paper, we look at DfAC strategies based on recycling sensors, most notably the ones based on a pair of ring oscillators, which rely on integrated circuit aging phenomena to detect usage of ICs in the field. We introduce a novel optimization technique that generalizes to most recycling sensors suggested so far in literature and gives manufacturers exact control over parameters that determine sensor performance, such as yield, misprediction and area overhead. A detailed analysis of various factors affecting recycling sensor performance is presented and an optimization problem is formulated and verified using simulations, in order to demonstrate the accuracy of the approach.
Self-Sensitized Photooxygenation of 3,4-Dialkoxyfurans to Vitamin C or Its Derivatives (2001)

Self-sensitized photooxygenation of 3,4-dialkoxyfurans 3a-d with molecular oxygen and UV- or sunlight at room temperature gave vitamin C derivatives 2a-d in good to excellent yields. Furan 3c, having photodegradable protecting groups, was also photooxygenated to give L-ascorbic acid (1) in a "one-pot" reaction. Furthermore, a novel photolytic transformation was developed for deuteration of furan 3b at the C-2 position with D(2)O to give furan 3d in 95% yield. Toxicity of furans 3a-c and butenolides 2a-c against human embryonic cell, murine embryo fibroblasts, normal fibroblasts, HeLa, and Vero cell lines in the presence of oxygen and indirect solar light was found to be much less than those of the antipsoriasis drugs anthralin and 8-methoxypsoralen.
Wnt5a Signals through DVL1 to Repress Ribosomal DNA Transcription by RNA Polymerase I (2016)

Ribosome biogenesis is essential for cell growth and proliferation and is commonly elevated in cancer. Accordingly, numerous oncogene and tumor suppressor signaling pathways target rRNA synthesis. In breast cancer, non-canonical Wnt signaling by Wnt5a has been reported to antagonize tumor growth. Here, we show that Wnt5a rapidly represses rDNA gene transcription in breast cancer cells and generates a chromatin state with reduced transcription of rDNA by RNA polymerase I (Pol I). These effects were specifically dependent on Dishevelled1 (DVL1), which accumulates in nucleolar organizer regions (NORs) and binds to rDNA regions of the chromosome. Upon DVL1 binding, the Pol I transcription activator and deacetylase Sirtuin 7 (SIRT7) releases from rDNA loci, concomitant with disassembly of Pol I transcription machinery at the rDNA promoter. These findings reveal that Wnt5a signals through DVL1 to suppress rRNA transcription. This provides a novel mechanism for how Wnt5a exerts tumor suppressive effects and why disruption of Wnt5a signaling enhances mammary tumor growth in vivo.
132 Effects of Valbenazine on Depression and Suicidality in Adults With Tardive Dyskinesia: Pooled Results of 3 Double-Blind, Placebo-Controlled Trials (2018)

Abstract Study Objectives Valbenazine (INGREZZA; VBZ) is a novel and highly selective vesicular monoamine transporter 2 (VMAT2) inhibitor that is approved for the treatment of tardive dyskinesia (TD) in adults. The randomized, double-blind, placebo (PBO)-controlled trials of VBZ evaluated the treatment of TD in patients with a primary psychiatric diagnosis (schizophrenia/schizoaffective disorder or mood disorder) while on concomitant psychiatric medications to manage these disorders. Since treatment-emergent depression and suicidal ideation/behavior are important clinical concerns in psychiatric patient populations, data from these trials were analyzed to assess the effectsof once-daily VBZ on depression and suicidality. Methods Data were pooled from three 6-week trials: KINECT (NCT01688037), KINECT 2 (NCT01733121), KINECT 3 (NCT02274558). Outcome data were analyzed in the safety population by pooled VBZ doses (40 mg, 80 mg) and PBO. Outcomes of interest included: treatment-emergent adverse events (TEAEs) related to depression or suicidality; mean score change from baseline to Week 6 in the Calgary Depression Scale for Schizophrenia (CDSS, for participants with schizophrenia/schizoaffective disorder) or the Montgomery-Åsberg Depression Rating Scale (MADRS, for participants with mood disorder); and, worsening from baseline in Columbia-Suicide Severity Rating Scale (C-SSRS) suicidal ideation scores. All outcomes were analyzed descriptively. Results There were 400 total participants in the pooled safety population; 286 participants had schizophrenia/schizoaffective disorder (40 mg, n=82; 80 mg, n=70; PBO, n=134) and 114 had a mood disorder (40 mg, n=28; 80 mg, n=42; PBO, n=44). Over one-third of participants had a lifetime history of suicidal ideation or behavior (40 mg, 45%; 80 mg, 39%; PBO, 37%). Few participants had a depression- or suicide-related TEAE, with no apparent differences between VBZ and PBO: suicidal ideation (40 mg, 3.6%; 80 mg, 0.9%; PBO, 2.2%); depression (40 mg, 0%; 80 mg, 1.8%; PBO, 1.1%); depressive symptom (40 mg, 0.9%; 80 mg, 0%; PBO, 0.6%); suicide attempt (40 mg, 0%; 80 mg, 0.9%; PBO, 0%). Mean changes from baseline to Week 6 in depression scale scores were generally small and similar across treatment groups: CDSS total score (40 mg, -0.5; 80 mg, -0.6; PBO, -0.3); MADRS total score (40 mg, -0.2; 80 mg, -1.7; PBO, 0.6). Few participants had a shift from no suicidal ideation at baseline (C-SSRS score=0) to any suicidal ideation during treatment (C-SSRS score=1-5): 40 mg, 3.9% (4/103); 80 mg, 0.9% (1/111); PBO, 2.9% (5/174). Conclusion Data from 3 double-blind, placebo-controlled trials indicate that once-daily VBZ treatment was not associated with a worsening in depression-related symptoms or an increased risk of suicidal ideation or behavior. Funding Acknowledgements This study was funded by Neurocrine Biosciences, Inc.
Ballistocardiogram as Proximal Timing Reference for Pulse Transit Time Measurement: Potential for Cuffless Blood Pressure Monitoring (2015)

PTT with BCG as proximal timing reference has potential to enable convenient and ubiquitous cuffless BP monitoring.
Addition of High Molecular Weight Hyaluronic Acid to Fibroblast-Like Stromal Cells Modulates Endogenous Hyaluronic Acid Metabolism and Enhances Proteolytic Processing and Secretion of Versican (2020)

We have examined the effect of exogenous linear chain high molecular weight hyaluronic acid (HMW HA) on endogenously synthesized hyaluronic acid (HA) and associated binding proteins in primary cultures of fibroblast-like stromal cells that were obtained by collagenase digestion of the murine peripatellar fat pad. The cultures were expanded in DMEM that was supplemented with fetal bovine serum and basic fibroblast growth factor (bFGF) then exposed to macrophage-colony-stimulating factor (MCSF) to induce macrophage properties, before activation of inflammatory pathways using <i>E. coli</i> lipopolysaccharide (LPS). Under all culture conditions, a significant amount of endogenously synthesized HA localized in LAMP1-positive lysosomal vesicles. However, this intracellular pool was depleted after the addition of exogenous HMW HA and was accompanied by enhanced proteolytic processing and secretion of de novo synthesized versican, much of which was associated with endosomal compartments. No changes were detected in synthesis, secretion, or proteolytic processing of aggrecan or lubricin (PRG4). The addition of HMW HA also modulated a range of LPS-affected genes in the TLR signaling and phagocytosis pathways, as well as endogenous HA metabolism genes, such as <i>Has1</i>, <i>Hyal1</i>, <i>Hyal2,</i> and <i>Tmem2</i>. However, there was no evidence for association of endogenous or exogenous HMW HA with cell surface CD44, TLR2 or TLR4 protein, suggesting that its physiochemical effects on pericelluar pH and/or ionic strength might be the primary modulators of signal transduction and vesicular trafficking by this cell type. We discuss the implications of these findings in terms of a potential in vivo effect of therapeutically applied HMW HA on the modification of osteoarthritis-related joint pathologies, such as pro-inflammatory and degradative responses of multipotent mesenchymal cells residing in the synovial membrane, the underlying adipose tissue, and the articular cartilage surface.
Dragon kill points (2008)

One of the major reasons for playing Massive Multiplayer Online Role Playing Games (MMORPGs) is the possibility to show off your abilities to other players. The more rare your equipment is, the higher is the show off value of your character. And because rare items are hard to find cooperation between several players is often required. This introduces a conflict between the players, and a way to distribute loot is necessary.
Diastereoselective Arylithium Addition to an α-Trifluoromethyl Imine. Practical Synthesis of a Potent Cathepsin K Inhibitor (2006)

A practical, chromatography-free synthesis of potent cathepsin K inhibitor 1 is described. The addition of 4-bromophenyllithium to an alpha-trifluoromethylimine derived from commercially available (S)-leucinol was accomplished in a highly diastereoselective manner (97.6% de, 91% yield). Subsequent Suzuki cross-coupling afforded biaryl 7. Oxidation of the alcohol and sulfide functionalities led to the formation of carboxylic acid 8. Crystallization of 7 and acid 8 as its dicyclohexylamine salt gave excellent impurity rejection. The final amide coupling with commercially available aminoacetonitrile hydrochloride afforded 1 in excellent purity (99.6A% by HPLC, 100% de, <3 ppm Pd, W, Cr).
Optical Microscopy via Spectral Modifications of a Nanoantenna (2005)

The existing optical microscopes form an image by collecting photons emitted from an object. Here we report on the experimental realization of microscopy without the need for direct optical communication with the sample. To achieve this, we have scanned a single gold nanoparticle acting as a nanoantenna in the near field of a sample and have studied the modification of its intrinsic radiative properties by monitoring its plasmon spectrum.
Towards automatic provisioning and validation of Ethernet services over transport networks (2011)

This paper presents a system for automating and integrating the provisioning and validation of Ethernet point-to-point connectivity services over transport networks. The provisioning is based on standard control plane functionality. The service performance is validated using the BART tool for measuring capacity, extended to provide Ethernet measurement capabilities. We report on preliminary results from a proof-of-concept system implemented in a virtualized testbed.
Multi-stage Acoustophoretic Separation of Particles from Blood (2013)

Surgical procedures often utilize a cardiopulmonary bypass machine in order to maintain the function of the human circulatory system. Unfortunately, the procedure is often associated with complications such as cognitive decline. These complications are thought to be related to the lipid microemboli formed during cardiotomy suction, which circulate in the system and block blood vessels in the brain. A single-stage acoustophoresis device was recently developed to separate lipids and red blood cells from whole blood, with the eventual goal to remove the lipid microemboli. In this work, a multi-stage acoustophoretic separation device is being developed in order to improve the efficiency of the current system.
Aspirin Versus Placebo in Pregnancies at High Risk for Preterm Preeclampsia (2018)

( N Engl J Med . 2017;377(7):613–622) Professional associations recommend the prophylactic use of low-dose aspirin (60 to 80 mg d) in pregnant women who are considered to be at high risk for preeclampsia. However, some studies suggest that aspirin started after 16 weeks of gestation does not have a significant benefit, and there remain major challenges in identifying women at high risk for this condition.
Peeling force measurement of particles from surfaces and its visualization (2016)

In various manufacturing process, particle contamination is one of the critical problems. A wet cleaning is widely used, but it is difficult to evaluate the cleaning performance. In this study, first we have tried to make high adhesion force samples which can evaluate particle removal rate of wet cleaning like PVA brush scrubbing or droplets impacts. Second, we measured its removal force directly by using self-sensitive cantilever. We have already measured the removal force in the air. We tried to measure also in the water in this study. As a result, the peeling forces in both air and water were about 102 μN. We estimated that this is because the influences of humidity like liquid bridge force are very small compared with adhesion force. Finally, using this sample, we demonstrated the cleaning performance of PVA brush scrubbing. We could quantitatively evaluate wet cleaning by using particle removal rate.
Wafer-scale integration of systolic arrays (1982)

This paper describes and analyzes several algorithms for constructing systolic array networks from cells on a silicon wafer. Some of the cells may be defective, and thus the networks must be configured to avoid them. We adopt a probabilistic model of cell failure, and attempt to construct networks whose maximum wire length is minimal Although the algorithms presented are designed principally for application to the wafer-scale integration of one and two-dimensional systolic arrays, they can also be used to construct networks in well studied models of geometric complexity. Some of the algorithms are of considerable practical interest.
2C32 Grasping Strategy of Industrial Robot with Pneumatic Robot Arm(The 12th International Conference on Motion and Vibration Control) (2014)

Japan faces a huge population decrease, which is especially alarming for labor issues in industrial fields, where factory automation is one solution. In fact, robots are already working in factories. However, the tasks they can perform are limited and cannot be changed easily because they depend on the surrounding environment. Most factory robots are only controlled by sequence control. To solve this problem, we developed a pneumatic robot arm driven by pneumatic actuators and constructed a wrist controller with no gravity. In this research, we propose a grasping strategy to pick up and place objects in industrial fields. We evaluated the dynamic characteristics of our wrist where various objects were grasped by the five -fingers of our robot arm. Based on this result, we constructed a wrist controller based on gravity. However, since we assume that the mass of an object is known, we also identified an object's mass using the change of the wrist angle after grasping it. As a result, PID control can be performed based on mass. By considering the wrist's movable region, we also got the robot's posture with which we obtained a restriction condition. By performing our specified task, we verified the validity of our proposed grasping strategy.
DNA sequence preferences for an intercalating porphyin compound revealed by footprinting (1987)

The DNA sequence preferences of the compound meso-tetra-(4-N-methyl(pyridyl) porphyrin and its nickel complex have been investigated by means of footprinting experiments on several DNA fragments, using DNAase I and micrococcal nuclease as footprinting agents. A complex pattern of both AT and GC-protected sites was found. Ligand-induced long-range conformational changes were inferred in several instances to be related to the observed large-scale blockages of enzymatic cutting.
Correlates and Covariates of Type 2 Diabetes in an African American Population in the Washington DC Area (2022)

In the United States, type 2 diabetes mellitus (T2DM) disproportionately affects the African American (AA) community, which has not been systematically included in molecular studies of underlying mechanisms. As part of a gene expression study, we recruited cases with T2DM and matched, unaffected controls at an urban hospital in Washington, DC, with a majority AA population. Here we describe the profile of socio-demographic, behavioral, and health-related associations of the study population. Self-reported data were collected from cases with T2DM (N=77) and age- and gender-matched controls (N=80), ages 45-65 years. Logistic regression was used to calculate odds ratios (OR) and 95% confidence intervals (CI). As expected, obesity, hypertension, and cardiovascular disease were more prevalent in cases than controls. Tobacco smoking and working alongside other tobacco smokers were also associated with T2DM. After adjusting for covariates, current tobacco smoking remained statistically associated with the disease (OR per half pack of cigarettes 1.43, 95% CI 1.04-1.95; <i>p</i>-value 0.027). HbA1c levels were elevated in T2DM cases who smoked more than a pack of cigarettes daily. These associations highlight the comorbid burdens of T2DM in an AA urban community setting and identify tobacco control as an unmet need for future prevention and control efforts.
Improving Sequence-to-Sequence Semantic Parser for Task Oriented Dialog (2020)

Task Oriented Parsing (TOP) attempts to map utterances to compositional requests, including multiple intents and their slots. Previous work focus on a tree-based hierarchical meaning representation, and applying constituency parsing techniques to address TOP. In this paper, we propose a new format of meaning representation that is more compact and amenable to sequence-to-sequence (seq-to-seq) models. A simple copy-augmented seq-to-seq parser is built and evaluated over a public TOP dataset, resulting in 3.44% improvement over prior best seq-to-seq parser (exact match accuracy), which is also comparable to constituency parsers’ performance.
Theoretical Study on Data Transfer Rate of Near-Field Photochromic Memory (1999)

The data transfer rate of near-field photochromic memory was theoretically studied. The data transfer rate for the medium with the sensitivity ε B =10 4 and φ BA =0.1 in the recording process was about 1 kilo bps (bits per second) at the light power density of 10 2 W/cm 2 , but it increased to over 1 Mbps at 10 5 W/cm 2 . Fluorescence and reflectance detection readout methods of a near-field photochromic optical memory were also theoretically studied. The data transfer rate at the light power of 10 -6 W in the readout process was around 1–10 Mbps. When the average reflectance is high, there is a benefit of using a fluorescence detection method for obtaining a high data transfer rate.
ChemInform Abstract: Mixed Opioidic Agonists/Antagonists and Partial Agonists (2002)

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.
A 20ns-write 45ns-read and 1014-cycle endurance memory module composed of 60nm crystalline oxide semiconductor transistors (2018)

Development of LSI targeting artificial intelligence (AI) has accelerated, some chips have been used and are commercially available in a number of applications. LSI capable of performing arithmetic operation for deep learning, etc., at low power and high speed is crucial for achieving more sophisticated AI. Power consumption is increasing significantly owing particularly to the practical use of AI, and power reduction techniques are urgently necessary.