gebhart/patrepeval huggingface dataset:
Epigenetic Silencing of miR-490-3p Reactivates the Chromatin Remodeler SMARCD1 to Promote Helicobacter pylori –Induced Gastric Carcinogenesis (2014)

Chromatin remodeling has emerged as a hallmark of gastric cancer, but the regulation of chromatin regulators other than genetic change is unknown. Helicobacter pylori causes epigenetic dysregulation to promote gastric carcinogenesis, but the roles and functions of microRNAs (miRNA) in this multistage cascade are not fully explored. In this study, miRNA expression in preneoplastic and neoplastic lesions in murine stomachs induced by H. pylori and N-methyl-N-nitrosourea (MNU) was profiled by miRNA expression array. miR-490-3p exhibited progressive downregulation in gastritis, intestinal metaplasia, and adenocarcinoma during H. pylori and MNU-induced gastric carcinogenesis. Significant downregulation of miR-490-3p was confirmed in human gastric cancer tissues in which its regulatory region was found to be hypermethylated. miR-490-3p exerted growth- and metastasis-suppressive effects on gastric cancer cells through directly targeting SMARCD1, a SWItch/Sucrose NonFermentable (SWI/SNF) chromatin remodeling complex subunit. Knockdown of SMARCD1 significantly attenuated the protumorigenic effects of miR-490-3p inhibitor, whereas enforced expression of SMARCD1 promoted in vitro and in vivo oncogenic phenotypes of gastric cancer cells. SMARCD1 was markedly upregulated in gastric cancer in which its high expression was associated with shortened patients' survival independent of TNM staging. In conclusion, hypermethylation-mediated silencing of miR-490-3p reactivates SMARCD1 to confer malignant phenotypes, mechanistically linking H. pylori, chromatin remodeling, and gastric carcinogenesis.
Multiuser receiver for PUCCH signaling with transmit diversity (2011)

This paper deals with a transmit diversity scheme to be applied in multiple-antenna signaling over the physical uplink control channel (PUCCH) of 3GPP LTE-Advanced (Release 10). Taking into account the signaling structure of this system, we show that received signal at the base station can be modeled using a tensor decomposition with constraints imposed on the control symbol matrix. By exploiting the proposed tensor model and its known structure, a receiver for joint multiuser channel estimation and detection is presented. The receiver is based on a semi-blind algorithm, by using known reference control symbols at the first iteration, and then proceeding with a data-aided channel and symbol estimation in subsequent iterations. Numerical results from Monte Carlo simulations are provided for performance assessment.
Ultrasound-guided HIFU neurolysis of peripheral nerves to treat spasticity and pain (2005)

Spasticity, a major complication of disorders of the central nervous system (CNS) signified by uncontrollable muscle contractions, is difficult to treat effectively. We report on the use of ultrasound image-guided high-intensity focused ultrasound (HIFU) to target and suppress the function of the sciatic nerve of rabbits in vivo as a possible treatment of spasticity and pain. The image-guided HIFU device included a 3.2 MHz spherically curved transducer (focal dimensions of 5.1 mm/spl times/0.76 mm) integrated with an intraoperative imaging probe (CL10-5, Philips HDI-1000), such that the HIFU focus was within the image plane. The sciatic nerve was imaged in cross-section and identified between two muscle planes, and the HIFU treatment was directed to the nerve and monitored in real time. In situ focal acoustic intensity of 1480-1850 W/cm/sup 2/ was applied using a scanning method (scan rate of 0.5-0.6 mm/s). The force response of the plantarflexion muscles in the rabbit foot to electrical stimulation of the sciatic nerve was measured both before and after HIFU treatment using a force gauge perpendicularly coupled to the metatarsal joint of the rabbit foot. The force response was approximately 0.55 N before HIFU treatment, and complete suppression of this force was achieved after HIFU treatment, indicating complete conduction block. HIFU treatment time of 36/spl plusmn/14 s (mean /spl plusmn/ standard deviation) was effective in achieving complete conduction block in 100% of the 22 nerves treated (11 rabbits). Gross examination showed blanching of the nerves at the HIFU treatment site and lesion volumes of 2.8/spl plusmn/1.4 cm/sup 2/ encompassing the nerves. Histologic results indicated axonal demyelination and necrosis of Schwann cells as probable mechanisms of nerve block. With accurate localization and targeting of peripheral nerves using ultrasound imaging, HIFU could become a promising tool for the suppression of spasticity and pain.
50‐3: Formation of Source and Drain Regions in Top‐Gate Self‐Aligned Oxide Semiconductor Field‐Effect Transistor (2018)

Formation of source and drain regions in a top‐gate self‐aligned field‐effect transistor and its mechanism were examined. A stack structure of silicon nitride and an oxide semiconductor (OS) is effective, and hydrogen trapped in oxygen vacancies in the OS and the presence of metallic indium at the interface are important.
Establishing Effective Simulation Protocols for β- and α/β-Peptides. II. Molecular Mechanical (MM) Model for a Cyclic β-Residue (2008)

All-atom molecular mechanical (MM) force field parameters are developed for a cyclic beta-amino acid, amino-cyclo-pentane-carboxylic acid (ACPC), using a multi-objective evolutionary algorithm. The MM model is benchmarked using several short, ACPC-containing alpha/beta-peptides in water and methanol with SCC-DFTB (self consistent charge-density functional tight binding)/MM simulations as the reference. Satisfactory agreements are found between the MM and SCC-DFTB/MM results regarding the distribution of key dihedral angles for the tetra-alpha/beta-peptide in water. For the octa-alpha/beta-peptide in methanol, the MM and SCC-DFTB/MM simulations predict the 11- and 14/15-helical form as the more stable conformation, respectively; however, the two helical forms are very close in energy (2-4 kcal/mol) at both theoretical levels, which is also the conclusion from recent NMR experiments. As the first application, the MM model is applied to an alpha/beta-pentadeca-peptide in water with both explicit and implicit solvent models. The stability of the peptide is sensitive to the starting configuration in the explicit solvent simulations due to their limited length ( approximately 10-40 ns). Multiple ( approximately 20 x 20 ns) implicit solvent simulations consistently show that the 14/15-helix is the predominant conformation of this peptide, although substantially different conformations are also accessible. The calculated nuclear Overhauser effect (NOE) values averaged over different trajectories are consistent with experimental data, which emphasizes the importance of considering conformational heterogeneity in such comparisons for highly dynamical peptides.
Immuno-PET and Immuno-SPECT of Rheumatoid Arthritis with Radiolabeled Anti–Fibroblast Activation Protein Antibody Correlates with Severity of Arthritis (2015)

SPECT/CT imaging with the anti-FAP antibody (111)In-28H1 specifically visualized arthritic joints with high resolution, and tracer accumulation correlated with the severity of the inflammation in murine experimental arthritis. Background uptake of the radiolabeled antibody was low, resulting in excellent image quality. (89)Zr-28H1 was less favorable for RA imaging because of an elevated bone uptake of (89)Zr. Future studies will focus on the potential role of 28H1 as a tool to monitor therapy response early on.
Multiple-Access Network Information-Flow and Correction Codes (2011)

This work considers the multiple-access multicast error-correction scenario over a packetized network with <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">z</i> malicious edge adversaries. The network has min-cut <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">m</i> and packets of length <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">l</i> , and each sink demands all information from the set of sources <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">S</i> . The capacity region is characterized for both a “side-channel” model (where sources and sinks share some random bits that are secret from the adversary) and an “omniscient” adversarial model (where no limitations on the adversary's knowledge are assumed). In the “side-channel” adversarial model, the use of a secret channel allows higher rates to be achieved compared to the “omniscient” adversarial model, and a polynomial-complexity capacity-achieving code is provided. For the “omniscient” adversarial model, two capacity-achieving constructions are given: the first is based on random subspace code design and has complexity exponential in <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">lm</i> , while the second uses a novel multiple-field-extension technique and has O(lm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">|S|</sup> ) complexity, which is polynomial in the network size. Our code constructions are “end-to-end” in that all nodes except the sources and sinks are oblivious to the adversaries and may simply implement predesigned linear network codes (random or otherwise). Also, the sources act independently without knowledge of the data from other sources.
BSFC Investigation Using Variable Valve Timing in a Heavy Duty Diesel Engine (2009)

&lt;div class="htmlview paragraph"&gt;Variable valve actuation in heavy duty diesel engines is not well documented, because of diesel engine feature, such as, unthrottled air handling, which gives little room to improve pumping loss; a very high compression ratio, which makes the clearance between the piston and valve small at the top dead center. In order to avoid strike the piston while maximizing the valve movement scope, different strategies are adopted in this paper: (1) While exhaust valve closing is fixed, exhaust valve opening is changed; (2) While exhaust valve closing is fixed, late exhaust valve opening: (3) While inlet valve opening is fixed, inlet valve closing is changed; (4) Delayed Inlet valve and exhaust valve openings and closings; (5) Changing exhaust valve timing; (6) changing inlet valve timing; (7) Changing both inlet and exhaust timing, will be used. In order to see how much fuel efficiency could be improved in addition to EGR (Exhaust Gas Recirculation) and VGT (Variable Geometry Turbo-charger), EGR and VGT are fully controlled in a closed-loop. This paper examines fuel consumption improvement at different speeds and torques. Finally we could see 6% BSFC benefit could be achieved at some map points. The reason of this benefit is that fixed valve lift engine makes a compromise between high speed engine performance and low speed fuel economy and variable valve timing optimizes valve timing at each engine torque and speed. This paper will also investigate the issues regarding late inlet valve closing, which has been addressed in [&lt;span class="xref"&gt;4&lt;/span&gt;] and [&lt;span class="xref"&gt;7&lt;/span&gt;]. This paper will investigate late inlet valve closing in a different angle and different view point.&lt;/div&gt;
Measurements of plastic localization in polycrystalline materials in relation to 3D microstructure (2019)

International audience
TESTING OF STATE ROADSIDE SAFETY SYSTEMS. VOLUME III: APPENDIX B - CRASH TESTING AND EVALUATION OF A GUARDRAIL SYSTEM FOR LOW-FILL CULVERT (1996)

The purpose of this study is to crash test and evaluate new or modified roadside safety hardware and, where necessary, redesign the devices to improve their impact performance. The three major areas addressed in this study are the impact performance of bridge railings, transitions from guardrails to bridge railings, and end treatments for guardrails and median barriers. This report presents the results of three crash tests conducted on long-span nested W-beam guardrail designs for use over culverts. The first test (test no. 471470-2) was on a 3.81-m (12 ft-6 in) span design. The second test (test no. 471470-4) was on a 5.72-m (18 ft-9 in) span with a W-beam rail section on the rear of the guardrail. The third test (test no. 471470-5) was also on a 5.72-m (18 ft-9 in) span, but without a W-beam rail section on the rear of the guardrail. All three crash tests corresponded to NCHRP Report 230 test designation 10, involving a 2043-kg (4500-lb) passenger car impacting the guardrail at a nominal impact speed and angle of 96.5 km/h (60 mi/h) and 25 degrees. All three nested W-beam guardrail designs performed satisfactorily in the crash tests and met all evaluation criteria set forth in NCHRP Report 230. This volume is the third in a series of 14 volumes for the final report.
Tumor aerobic glycolysis: new insights into therapeutic strategies with targeted delivery (2014)

Targeting the glycolysis pathway is a tactical approach for cancer therapy. However, the current nonspecific therapeutic strategies have several drawbacks such as poor bioavailability, unfavorable pharmacokinetic profile and associated nonspecific toxicity, thereby limiting preclinical investigation. In recent years, nanoparticle systems have received recognition for the delivery of therapeutic agents directly to the tumor tissue. Thus, it is envisaged that this strategy can be expanded for the delivery of current glycolytic inhibitors specifically to tumor tissues providing improved anticancer activity.
Accuracy of a modeling algorithm to optimize perfusion MRI detection of glioma recurrence. (2010)

2081 Background: This study establishes Perfusion MRI (pMRI) correlation with tissue microvasculature and accuracy to predict histopathologic diagnosis of tumor recurrence or post-treatment radiation effect (PTRE), in recurrent high-grade glioma (HGG). Methods: We recruited previously treated (including chemo-radiation therapy) HGG patients undergoing surgical re-resection of new enhancing lesions on surveillance MRI. Preoperatively, we acquired pMRI and contrast-enhanced stereotactic T1-weighted (T1W) MRI data sets. Intraoperatively, we recorded stereotactic locations of multiple biopsies based on T1W data sets that guided surgery. We coregistered pMRI and T1W data sets to calculate localized relative cerebral blood volume (rCBV) (IB Neuro, Imaging Biometrics, LLC) for each specimen location. For each specimen, we performed 1) H&E staining to diagnose tumor or PTRE; and 2) CD-34 staining to highlight tissue vessels and calculate total microvessel area (MVA), normalized to total slide specimen area (μ m2) (Axiovision Automeasure 3.4, Carl Zeiss). We calculated Pearson correlations for rCBV and MVA and created a Receive Operator Characteristic (ROC) curve to determine rCBV accuracy to distinguish tumor from PTRE. A neuroradiologist performed all coregistration and pMRI calculations, and a neuropathologist reviewed all tissue specimens, without knowledge of corresponding data. Results: From 10 subjects, we collected 31 tissue specimens, each diagnosed as tumor (n = 18) or PTRE (n = 13). The rCBV values showed high correlation with total vessel area (MVA) (r = 0.61, p = 0.0003) and predicted histopathologic diagnosis with high accuracy (AUC = 0.92). Conclusions: These preliminary results show the promise of perfusion MRI to non-invasively estimate tissue microvessel density and distinguish tumor recurrence from treatment effects. The current study is ongoing to confirm results in a larger patient population. Author Disclosure Employment or Leadership Position Consultant or Advisory Role Stock Ownership Honoraria Research Funding Expert Testimony Other Remuneration Imaging Biometrics, LLC Imaging Biometrics, LLC Imaging Biometrics, LLC Arizona Biomedical Research Commission, Barrow Neurological Foundation
A Method for Semantically Enhancing the Service Discovery Capabilities of UDDI. (2003)

The promise of dynamic selection of business services and automatic integration of applications written to Web Services standards is yet to be realized. This is partially attributable to the lack of semantics in the current Web Service standards. While efforts to develop markup languages , such as DAML-S, for semantic Web Services are a step in the right direction, more work needs to be done to investigate their applicability in an industry setting. In this work, we expand on previous work done on combining the semantic web with UDDI [Paolucci 2002-2], by presenting a method to improve the effectiveness of service discovery in UDDI, an industry initiated Web Service directory. Our contributions are three fold: First, we present an extension to the UDDI inquiry API specification to enable requesters to specify the required capabilities of a service. Second, we enhance the service discovery of UDDI by performing semantic matching and automatic service composition using planning algorithms . Third, we propose to present these service compositions in a business process execution language called BPEL4WS, an industry standard, to enable automatic execution of the services that are composed. We believe that our approach presents a viable method for significantly enhancing the automatic service discovery and execution of Web Services.
Zoom Into Dusty Plasma Instabilities (2012)

In a krypton plasma, the growth of dust particles can strongly affect the plasma characteristics by inducing many types of instabilities. These unstable phenomena are studied by analyzing their frequency evolution as a function of time and by emphasizing the appearance of plasma spheroids. Different phases are evidenced due to a detailed analysis of the form and the frequency of the discharge current. Concerning the plasma spheroids, interesting motions in the plasma bulk are evidenced.
Threats to 5G Group-based Authentication (2016)

The fifth generation wireless system (5G) is expected to handle an unpredictable number of heterogeneous connected devices and to guarantee at least the same level of security provided by the contemporary wireless standards, including the Authentication and Key Agreement (AKA) protocol. The current AKA protocol has not been designed to efficiently support a very large number of devices. Hence, a new group-based AKA protocol is expected to be one of the security enhancement introduced in 5G. In this paper, we advance the group-based AKA threat model, reflecting previously neglected security risks. The threat model presented in the paper paves the way for the design of more secure protocols.
Feasibility studies of source and mask optimization (2009)

In low-k1 lithography, it is difficult to keep pattern fidelity and contrast for all features in one layer. Source mask optimization (SMO) software provide solutions to keep pattern fidelity and contrast for the selected critical patterns. We have developed SMO software, and study the efficiency of the software. In this paper, we show, SMO software is effective for current 45 nm node SRAM cell layers (Active, Gate and Metal). In addition, SMO is also effective for cutting lithography technology. Cutting lithography is expected to apply 22 nm half pitch process and beyond.
Fine Cone-shaped Bumps for Three-dimensional LSI Package—An Optimization of Thermocompression Bonding Process (2018)

Fine cone-shaped bumps (6 m) were fabricated by a nanoparticle deposition method, where the nanoparticles were deposited onto hole patterns defined in a photoresist. In this work, the goal is to minimize the flip-chip bonding force of LSI chips targeted for three-dimensional (3D) packages while optimizing the bonding strength. In particular, the effects of temperature on the bump compressive stress and shear strength were investigated in detail. From the results, it was found that the crystal grain size of cone-shaped gold bumps increases significantly at 150 , which in turn affects the mechanical properties of the bump. We also clarified the optimum connection conditions to simultaneously realize a low bonding force and an improved bonding strength by bonding at 200 C.
Synthesis of an ultralarge pore titanium silicate isomorphous to MCM-41 and its application as a catalyst for selective oxidation of hydrocarbons (1994)

An ultralarge pore titanium silicate with MCM-41 structure has been prepared by direct hydrothermal synthesis; this material gives rise to useful catalysts for the selective oxidation of small and large organic compounds.
Accelerated Conjugate Gradient for Second-Order Blind Signal Separation (2022)

This paper proposes a new adaptive algorithm for the second-order blind signal separation (BSS) problem with convolutive mixtures by utilising a combination of an accelerated gradient and a conjugate gradient method. For each iteration of the adaptive algorithm, the search point and the search direction are obtained based on the current and the previous iterations. The algorithm efficiently calculates the step size for the accelerated conjugate gradient algorithm in each iteration. Simulation results show that the proposed accelerated conjugate gradient algorithm with optimal step size converges faster than the accelerated descent algorithm and the steepest descent algorithm with optimal step size while having lower computational complexity. In particular, the number of iterations required for convergence of the accelerated conjugate gradient algorithm is significantly lower than the accelerated descent algorithm and the steepest descent algorithm. In addition, the proposed system achieves improvement in terms of the signal to interference ratio and signal to noise ratio for the dominant speech outputs.
Orbito-frontal Cortex is Necessary for Temporal Context Memory (2009)

Lesion and neuroimaging studies suggest that orbito-frontal cortex (OFC) supports temporal aspects of episodic memory. However, it is unclear whether OFC contributes to the encoding and/or retrieval of temporal context and whether it is selective for temporal relative to nontemporal (spatial) context memory. We addressed this issue with two complimentary studies: functional magnetic resonance imaging to measure OFC activity associated with successful temporal and spatial context memory during encoding and retrieval in healthy young participants, and a neuropsychological investigation to measure changes in spatial and temporal context memory in OFC lesion patients. Imaging results revealed that OFC contributed to encoding and retrieval of associations between objects and their temporal but not their spatial contexts. Consistent with this, OFC patients exhibited impairments in temporal but not spatial source memory accuracy. These results suggest that OFC plays a critical role in the formation and subsequent retrieval of temporal context.
Flow Phenomena in Chemical Vapor Deposition of Thin Films (1991)

The deposition of thin inorganic films from precursors in the gas phase onto a solid substrate is a key element in a wide range of technological applications, including the fabrication of microelectronic circuits, optical and magnetic recording media, optical devices, and high-performance culling and grinding tools. The deposited films range in thickness from a few nanometers, as in the active layer of a quantum-well optical device, to tens of microns for wear-resistant coatings. The thin films must be pro­ duced with controllable properties (e.g. purity, composition, thickness, adhesion, crystalline structure, and surface morphology). In addition, the deposition cannot have a significant impact on the microstructures already existing in the substrate. The tolerance limits on the properties of the films vary with the application, but stringent demands are characteristic in electronic and optical materials processing. In such applications, the requirements increase with the level of integration, the decrease in device