gebhart/patrepeval huggingface dataset:
The Reviewer's Assistant: Recommending Topics to Writers by Association Rule Mining and Case-base Reasoning (2012)

The 23rd Irish Conference on Artificial Intelligence and Cognitive Science (AICS 2012), Dublin City University, Dublin, Ireland, 17-19 September, 2012
Use of a novel fractional CO2 laser for the treatment of genitourinary syndrome of menopause: 1-year outcomes (2017)

Based on study data up to 1 year, the fractional CO2 laser may be an effective and safe treatment for women suffering from symptoms of GSM, although additional studies with larger populations and placebo control is needed to confirm these results.
A 16-element 77&amp;#x2013;81-GHz phased array for automotive radars with &amp;#x00B1;50&amp;#x00B0; beam-scanning capabilities (2013)

This paper presents the first 16-element 77–81 GHz phased array receiver for automotive radars. The silicon phased array chip is packaged using very low-cost techniques, and is attached to a 16-element linear microstrip antenna array. The packaging is designed to result in < −28 dB coupling between the channels even with wirebonds. The measured patterns show scanning to ±50 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">o</sup> and agree well with simulations. The 16-element phased array receiver has been implemented with a transmitter and shows detailed images of targets and scenes in outdoor driving scenarios.
Retinoid receptor‐mediated signaling in motor neurons and its implications for amyotrophic lateral sclerosis (2010)

Amyotrophic lateral sclerosis (ALS) is defined by progressive degeneration and death of upper and lower motor neurons. Recent work indicates retinoid signaling may contribute to the disease process. Nuclear retinoic acid receptors (RARs) are ligand‐activated transcription factors activated by all‐ trans retinoic acid (ATRA); they mediate gene expression by forming heterodimers with retinoid X receptors (RXRs). We investigated the effects of RAR‐mediated signaling on motor neuron survival, morphology and downstream gene expression. Motor neuron‐enriched cultures established from embryonic day 14 rats were treated with pan‐agonists, pan‐antagonists and isotype‐specific agents. Toxicity studies were performed in the presence or absence of either hydrogen peroxide (to model oxidative stress/injury) or glutamate (to model excitotoxicity). In the presence of ATRA, the number of branch points/cell was decreased in motor neurons. RARalpha was localized to proximal and distal processes; RARbeta was localized to the cell body and nucleus. When ATRA was administered in the presence of toxin, motor neuron cell death was delayed. Signaling through RARs appears to maintain long neurites with less branching and delays toxin‐induced cell death. As we have observed increased nuclear RARbeta in sporadic ALS patients, downstream genes modulated by RARbeta are currently being characterized. Research Support: NIH grant ES013469 (RB); NIH T32 EB001026 (CK); NIH T32 05 TL1 RR024155‐02 (CK)
Investigation of Unsteady Flow Field in Vaned Diffuser of a Transonic Centrifugal Compressor (2006)

Transonic centrifugal compressors are used with high-load turbochargers and turboshaft engines. These compressors usually have a vaned diffuser to increase the efficiency and the pressure ratio. To improve the performance of such a centrifugal compressor, it is required to optimize not only the impeller but also the diffuser. However the flow field of the diffuser is quite complex and unsteady because of the impeller located upstream. Although some research on vaned diffusers has been published, the diffuser flow is strongly dependent on the particular impeller exit flow, and some of the flow physics remain to be elucidated. In the research reported here, detailed flow measurements within a vaned diffuser were conducted using a particle image velocimetery (PIV). The vaned diffuser was designed with high subsonic inlet conditions marked by an inlet Mach number of 0.95 for the transonic compressor. As a result, a complex three-dimensional flow with distortion between the shroud and the hub was observed. Also, unsteady flow accompanying the inflow of the impeller wake was confirmed. Steady computational flow analysis was performed and compared with the experimental results.
Structured multi-view modeling by tabular notation (2014)

The growth of software complexity and high degree of dependencies between functionalities motivates the use of models during requirements engineering. Hence, readability and comprehensibility of currently requirements specification techniques should be increased. Additionally, multi-view modeling and tabular expression are widely accepted techniques in requirements documentation. We present a tool that allows structured multi-view modeling of the behavior of the system by means of tabular notation. Our tool provides various table patterns to support different behavior views, which leverage the advantages of tabular specification, e.g., unambiguous, precise, and easier to read, analyses and communicate. Our aim is to reduce the complexity in the development of software systems.
The networked vehicle 1.0 (2011)

The electric car revolution is back in gear and ready to plug into the mass market.
Coupled finite element/boundary element method for semiconductor quantum devices with exposed surfaces (1994)

We present a study of the boundary conditions for the potential at exposed semiconductor surfaces in split-gate structures, which views the exposed surface as the interface between the semiconductor and air. A two-dimensional numerical algorithm is presented for the coupling between the nonlinear Poisson equation in the semiconductor (finite element method) and Laplace’s equation in the dielectric (boundary element method). The utility of the coupling method is demonstrated by simulating the potential distribution in an n-type AlGaAs/GaAs split-gate quantum wire structure within a semiclassical Thomas–Fermi charge model. We also present a comparison of our technique to more conventional Dirichlet and Neumann boundary conditions.
Data from Tumor Intrinsic Subtype Is Reflected in Cancer-Adjacent Tissue (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Introduction:&lt;/b&gt; Overall survival of early-stage breast cancer patients is similar for those who undergo breast-conserving therapy (BCT) and mastectomy; however, 10% to 15% of women undergoing BCT suffer ipsilateral breast tumor recurrence. The risk of recurrence may vary with breast cancer subtype. Understanding the gene expression of the cancer-adjacent tissue and the stromal response to specific tumor subtypes is important for developing clinical strategies to reduce recurrence risk.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Methods:&lt;/b&gt; We utilized two independent datasets to study gene expression data in cancer-adjacent tissue from invasive breast cancer patients. Complementary &lt;i&gt;in vitro&lt;/i&gt; cocultures were used to study cell–cell communication between fibroblasts and specific breast cancer subtypes.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; Our results suggest that intrinsic tumor subtypes are reflected in histologically normal cancer-adjacent tissue. Gene expression of cancer-adjacent tissues shows that triple-negative (Claudin-low or basal-like) tumors exhibit increased expression of genes involved in inflammation and immune response. Although such changes could reflect distinct immune populations present in the microenvironment, altered immune response gene expression was also observed in cocultures in the absence of immune cell infiltrates, emphasizing that these inflammatory mediators are secreted by breast-specific cells. In addition, although triple-negative breast cancers are associated with upregulated immune response genes, luminal breast cancers are more commonly associated with estrogen-response pathways in adjacent tissues.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusions:&lt;/b&gt; Specific characteristics of breast cancers are reflected in the surrounding histologically normal tissue. This commonality between tumor and cancer-adjacent tissue may underlie second primaries and local recurrences.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Impact:&lt;/b&gt; Biomarkers derived from cancer-adjacent tissue may be helpful in defining personalized surgical strategies or in predicting recurrence risk. &lt;i&gt;Cancer Epidemiol Biomarkers Prev; 24(2); 406–14. ©2014 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
A Novel Fiber-Optic Confocal Laser Caliper Approach for Non-Contact Optical Characterization of Silk Fibroin Thin Films Created by Riboflavin Photo-Crosslinking (2021)

Silk fibroin with its attractive combination of advanced properties is promising for regenerative treatments of corneal disorders. Novel photonics approach is used to characterize the thickness and refractive index of silk fibroin thin films photo-crosslinked with a natural photosensitizer Riboflavin.
A 0.3-to-1.2GHz tunable 4&lt;sup&gt;th&lt;/sup&gt;-order switched g&lt;inf&gt;m&lt;/inf&gt;-C bandpass filter with &amp;#x003E;55dB ultimate rejection and out-of-band IIP3 of &amp;#x002B;29dBm (2012)

The trend towards reconfigurable receivers requires on-chip flexible filters that can replace dedicated, bulky and non-tunable filters (e.g., SAW and BAW [1]). Although BAW filters are compatible with silicon processes, their center frequency is sensitive to thickness variation of the piezoelectric material and the achievable tuneability is limited [1]. Other techniques to make RF on-chip band-pass filters (BPFs) include Q-enhancement, g <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">m</sub> -C and N-path. Q-enhancement approach has several disadvantages such as large area due to inductors which do not obey process scaling, limited tuneability and poor dynamic range [2]. Main drawbacks of g <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">m</sub> -C filters are the tradeoff between power consumption, quality factor, center frequency and dynamic range and the need for tuning circuitry [3]. Recently there has been renewed interest in the translational impedance conversion of N-path filters [4-6]. Due to the “transparency” of the passive mixer, baseband impedance is translated to frequencies around the clock frequency f <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">lo</sub> [7]. The interesting features of these filters are their direct tuneability with f <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">lo</sub> , higher quality factor compared to on-chip CMOS LC filters [2], high linearity and graceful scaling with process.
Statistical analysis of ADCs and clinical biomarkers in detecting acute renal transplant rejection (2017)

Preliminary findings suggest that ADC provides improved detection of AR than lab values alone. At least two non-zero gradient strengths should be used for optimal results. Advances in knowledge: This paper investigated possible correlations between image-based and clinical biomarkers, and the fusion of both with respect to biopsy diagnosis of AR.
Softer Zwitterionic Nanogels for Longer Circulation and Lower Splenic Accumulation (2012)

Zwitterionic nanogels of varying stiffness were prepared by tuning their cross-linking densities and reactant contents. In vivo studies of these nanogels show that softer nanogels pass through physiological barriers, especially the splenic filtration, more easily than their stiffer counterparts, consequently leading to longer circulation half-life and lower splenic accumulation. Results from this work emphasize the role of stiffness in designing long-circulating nanoparticles.
Adnexal Mass during Pregnancy: A Review (2015)

Adnexal masses in pregnancy occur infrequently and depending on whether the surgery was performed emergently or electively, via laparoscopy or laparotomy, the outcomes will vary.
L-Arginine Supplementation and Metabolism in Asthma (2011)

L-Arginine, the amino acid substrate for nitric oxide synthase, has been tested as a therapeutic intervention in a variety of chronic diseases and is commonly used as a nutritional supplement. In this study, we hypothesized that a subset of moderate to severe persistent asthma patients would benefit from supplementation with L-arginine by transiently increasing nitric oxide levels, resulting in bronchodilation and a reduction in inflammation. The pilot study consisted of a 3 month randomized, double-blind, placebo-controlled trial of L-arginine (0.05 g/kg twice daily) in patients with moderate to severe asthma. We measured spirometry, exhaled breath nitric oxide, serum arginine metabolites, questionnaire scores, daily medication use and PEFR with the primary endpoint being the number of minor exacerbations at three months. Interim analysis of the 20 subjects showed no difference in the number of exacerbations, exhaled nitric oxide levels or lung function between groups, though participants in the L-arginine group had higher serum L-arginine at day 60 (2.0 ± 0.6 × 10−3 vs. 1.1 ± 0.2 × 10−3 µmol/L, p &lt; 0.05), ornithine at day 30 (2.4 ± 0.9 vs. 1.2 ± 0.3 µmol/L serum, p &lt; 0.05) and ADMA at day 30 (6.0 ± 1.5 × 10−1 vs. 2.6 ± 0.6 × 10−1 µmol/L serum, p &lt; 0.05) on average compared to the placebo group. The study was terminated prematurely. Supplementing asthma subjects with L-arginine increases plasma levels; whether subgroups might benefit from such supplementation requires further study.
THEM6‐mediated reprogramming of lipid metabolism supports treatment resistance in prostate cancer (2022)

Despite the clinical benefit of androgen-deprivation therapy (ADT), the majority of patients with advanced prostate cancer (PCa) ultimately develop lethal castration-resistant prostate cancer (CRPC). In this study, we identified thioesterase superfamily member 6 (THEM6) as a marker of ADT resistance in PCa. THEM6 deletion reduces in vivo tumour growth and restores castration sensitivity in orthograft models of CRPC. Mechanistically, we show that the ER membrane-associated protein THEM6 regulates intracellular levels of ether lipids and is essential to trigger the induction of the ER stress response (UPR). Consequently, THEM6 loss in CRPC cells significantly alters ER function, reducing de novo sterol biosynthesis and preventing lipid-mediated activation of ATF4. Finally, we demonstrate that high THEM6 expression is associated with poor survival and correlates with high levels of UPR activation in PCa patients. Altogether, our results highlight THEM6 as a novel driver of therapy resistance in PCa as well as a promising target for the treatment of CRPC.
3D Ultrasound Tumor Segmentation and Fusion with CT for Stereotactic Radiation Therapy Planning of Retinoblastoma (2011)

Keywords: Ultrasound segmentation ; Image fusion ; Radiation therapy planning ; LTS5 ; CIBM-SPC Note: Oral Presentation Reference EPFL-TALK-164314 URL: http://www.isrscongress.org/site/-Editorial,1648- Record created on 2011-03-18, modified on 2017-05-10
One-Day Bayesian Cloning of Type 1 Diabetes Subjects: Toward a Single-Day UVA/Padova Type 1 Diabetes Simulator (2016)

The proposed method, applied to the increasing number of long-term artificial pancreas studies, will allow to describe week/month variability, thus further refining the simulator.
An effective freezing/thawing method for human pluripotent stem cells cultured in chemically-defined and feeder-free conditions. (2015)

Culturing human Pluripotent Stem Cells (hPSC)s in chemically defined medium and feeder-free condition can facilitate metabolome and proteome analysis of culturing cells and medium, and reduce regulatory concerns for clinical application of cells. And in addition, if hPSC are passaged and cryopreserved in single cells it also facilitates quality control of cells at single cell level. Here we report a robust single cell freezing and thawing method of hPSCs cultured in chemically-defined medium TeSR(TM)-E8(TM) and on cost-effective recombinant human Vitronectin-N (rhVTN-N)-coated dish. Cells are dissociated into single cells with recombinant TrypLE(TM) Select and 0.5 mM EDTA/PBS (3:1 solution) in the presence of Rock inhibitor and cryopreserved with chemically defined CryoStem(TM). Approximately 60% of cells were viable after dissociation. Aggrewell(TM) 400 was used to form cell clumps of 500 cells after thaw in the presence of Rock inhibitor and cells were cultured for two days with TeSR-E8. Cells clumps were then seeded on rhVTN-N-coated dish and cultured with TeSR-E8 for two days prior to the first passage after thawing. Number of viable cells at the first passage increased around 10 times of that just before freezing. This robust single cell freezing method for hPSCs cultured in chemically defined medium will facilitate quality control of cultured cells at single cell level before cryopreservation and consequently assure the quality of cells in frozen vials for further manipulation after thawing.
Software Verification for Weak Memory via Program Transformation (2012)

Despite multiprocessors implementing weak memory models, verification methods often assume Sequential Consistency (SC), thus may miss bugs due to weak memory. We propose a sound transformation of the program to verify, enabling SC tools to perform verification w.r.t. weak memory. We present experiments for a broad variety of models (from x86/TSO to Power/ARM) and a vast range of verification tools, quantify the additional cost of the transformation and highlight the cases when we can drastically reduce it. Our benchmarks include work-queue management code from PostgreSQL.
Peroxisome Proliferator-Activated Receptors: The Nutritionally Controlled Molecular Networks that Integrate Inflammation, Immunity and Metabolism (2005)

PPARs are receptors for a highly diverse set of natural lipid molecules of nutritional or endogenous origin. While PPARs are involved in the regulation of metabolic, immune and inflammatory processes, no studies are available that integrate the metabolic and immunomodulatory properties of these receptors. Due to the therapeutic significance of selective agonists, the scientific understanding of PPARs biology derives primarily from experiments that utilized synthetic ligands. However, PPARs have existed in nature for millions of years prior to the development of synthetic ligands. This observation further supports the importance of endogenous/nutritional ligands as regulators of PPAR function. Therefore, the predominantly drug-based investigative approach may not reflect the actual physiological function of PPARs. The goal of this review article is to provide an integrative vision on the role of PPAR α, β/δ and γ, in the interface between metabolic and immunoinflammatory diseases. We will also discuss the differences and similarities between the effects of synthetic and natural PPAR agonists, and examine the actions of the three isoforms both separately and as a part of interconnected nuclear receptor networks. Finally, we will discuss the possible role of adipose tissue as an organ of innate immunity and the link between visceral adipose tissue accumulation and chronic, low-grade inflammatory responses. The better understanding of adipose tissue as an immunoendocrine organ may facilitate the development of novel PPAR-based interventions against metabolic and immune disorders.
Digital Watermark Perturbation for Adversarial Examples to Fool Deep Neural Networks (2021)

In this paper we propose an attack method to embed digital watermarking invisibly into a clean example to generate an adversarial example to interfere with the classification of deep learning models. Specifically, we propose an optimization algorithm called Non-Dominated Sorting Genetic Algorithm with Particle Swarm Optimization (NSGA-PSO) to generate adversarial digital watermarking in the black-box attack mode with a few queries from the models to be attacked. Extensive experiments on ImageNet and CIFAR-10 datasets demonstrate that our method can efficiently generate adversarial examples with higher attack success rates than existing black-box attack methods. Furthermore, showing satisfactory transferability across different network models and greater robustness against image transformation defense methods.
One-Pot Microwave-Assisted Synthesis of 3,4-Disubstituted 2-Quinolinones (2013)

An improved one-pot synthesis of 3,4-disubstituted 2-quinolinones is described. The condensation of substituted 2-aminobenzophenone (or 2-aminophenyl alkyl ketone) with acid chlorides was carried out in the presence of triethylamine (or NaH) under microwave reaction conditions (150oC, 200 psi). The reactions were completed within minutes to produce 2-quinolinones in moderate to excellent yields and good purities. [Supplementary materials are available for this article. Go to the publisher's online edition of <i>Synthetic Communications</i>® for the following free supplemental resource(s): Full experimental and spectral details.]
Nonlinear optical imaging of lyotropic cholesteric liquid crystals (2010)

We use nonlinear optical microscopy combining Second Harmonic Generation (SHG) microscopy and Two-Photon Excited Fluorescence (2PEF) signals to characterize collagen lyotropic liquid crystals. We show that SHG signals provide highly contrasted images of the three-dimensional texture of cholesteric patterns with submicrometer lateral resolution. Moreover, simultaneous recording of the 2PEF signal enables in situ quantitative mapping of the molecular concentration and its correlation with the observed textures. We apply this technique to the characterization of biomimetic textures obtained in concentrated collagen liquid solutions. We successfully image biologically relevant organizations that are similar to the collagen organization found as a stabilized state in compact bones.
Compiler-instrumented, dynamic secret-redaction of legacy processes for attacker deception (2015)

An enhanced dynamic taint-tracking semantics is pre-sented and implemented, facilitating fast and precise run-time secret redaction from legacy processes, such as those compiled from C/C++. The enhanced semantics reduce the annotation burden imposed upon developers seeking to add secret-redaction capabilities to legacy code, while curtailing over-tainting and label creep. An implementation for LLVM’s DataFlow Sani-tizer automatically instruments taint-tracking and secret-redaction support into annotated C/C++ programs at compile-time, yielding programs that can self-censor their address spaces in response to emerging cyber-attacks. The technology is applied to produce the first information flow-based honey-patching architecture for the Apache web server. Rather than merely blocking intrusions, the modified server deceptively diverts attacker connections to secret-sanitized process clones that monitor attacker activities and disinform adversaries with honey-data. 1