gebhart/patrepeval huggingface dataset:
Fervidobacterium riparium sp. nov., a thermophilic anaerobic cellulolytic bacterium isolated from a hot spring (2010)

A novel obligately anaerobic, extremely thermophilic, organotrophic bacterium, strain 1445t(T), was isolated from a hot spring on Kunashir Island (Kuril Islands, Russia). Cells were motile rods (0.4-0.5 × 1.0-3.0 µm). The temperature range for growth at pH 7.8 was 46-80 °C, with optimum growth at 65 °C. The pH range for growth at 65 °C was pH 5.7-9.0, with optimum growth at pH 7.8. Growth was not observed at or below 40 °C, at or above 84 °C, at or below pH 5.4 or at or above pH 9.5. The isolate degraded a wide range of substrates including starch, cellulose and cellulose derivatives. Elemental sulfur stimulated growth, but sodium sulfate, sulfite and thiosulfate did not. DNA G+C content was 31 mol%. Phylogenetic analysis of 16S rRNA gene sequences showed that strain 1445t(T) belonged to the genus Fervidobacterium. 16S rRNA gene sequence similarities with strains of other species of the genus Fervidobacterium were 94.9-98.3 %; the type strain of Fervidobacterium gondwanense was the closest relative of strain 1445t(T). DNA-DNA hybridization of strain 1445t(T) and F. gondwanense AB39(T) revealed a relatedness value of 20 %. Based on phylogenetic data and physiological properties of the isolate, a novel species, designated Fervidobacterium riparium sp. nov., is proposed with strain 1445t(T) ( = DSM 21630(T) = VKM B-2549(T)) as the type strain.
Capacity Bounds for Communication Systems with Quantization and Spectral Constraints (2020)

Low-resolution digital-to-analog and analog-to-digital converters (DACs and ADCs) have attracted considerable attention in efforts to reduce power consumption in millimeter wave (mmWave) and massive MIMO systems. This paper presents an information-theoretic analysis with capacity bounds for classes of linear transceivers with quantization. The transmitter modulates symbols via a unitary transform followed by a DAC and the receiver employs an ADC followed by the inverse unitary transform. If the unitary transform is set to an FFT matrix, the model naturally captures filtering and spectral constraints which are essential to model in any practical transceiver. In particular, this model allows studying the impact of quantization on out-of-band emission constraints. In the limit of a large random unitary transform, it is shown that the effect of quantization can be precisely described via an additive Gaussian noise model. This model in turn leads to simple and intuitive expressions for the power spectrum of the transmitted signal and a lower bound to the capacity with quantization. Comparison with non-quantized capacity and a capacity upper bound that does not make linearity assumptions suggests that while low resolution quantization has minimal impact on the achievable rate at typical parameters in 5G systems today, satisfying out-of-band emissions are potentially much more of a challenge.
Large scale content analysis engine (2009)

The evolution of IP video systems has resulted in unprecedented access to a wide range of video material for consumers via IPTV and Web delivery. Retrieval technologies help users find relevant content, but suffer from a paucity of reliable content descriptions. In this paper, we describe the large scale content analysis engine (CAE) which is designed to facilitate content based video retrieval, as well as a number of other applications such as content repurposing, video browsing, discovering content relationships, and fine-grained content personalization. A scalable system is presented to handle video from broadcast, enterprise and web sources for applications including IPTV and mobile video. Media processing includes shot boundary detection, automatic speech recognition, face detection, clustering of shots and faces, speaker segmentation, closed caption alignment, concept detection, and transcoding. Metadata ingest, augmentation and delivery using a standards-based approach enable the CAE to serve a range of content processing applications.
Therapeutic applications of anti-sense mechanisms for the treatment of cancer (2013)

Our understanding of the molecular pathways controlling tumor growth, survival, and metastasis has increased at a staggering pace over the last decades. Large-scale institutional efforts such as The Cancer Genome Atlas projects have identified previously unknown mutations with high frequencies in various cancers (1). These data, when combined with pathway analysis tools, point us towards genetic events most likely to be important “drivers” of cancer and to those that may be simply “passenger” mutations (2,3). In addition, the widespread availability of functional genomic tools, such as siRNA, shRNA vectors, and genetically engineered mouse models (GEM models), and anti-sense technology, has allowed individual laboratories to carefully evaluate the role of selected genes and pathways, defining their contributions to various aspects of tumorigenesis. Importantly, from these efforts, novel ideas about the fundamentals of the cancer process itself have recently emerged. These include the supporting role of non-tumor cells in the tumor micro-environment, the concept of cancer stem cells, epithelial-to-mesenchymal transitions, the various mechanisms that tumors employ to ensure immune evasion, the principle of oncogene addiction, and the increasingly interesting contribution of non-coding RNAs, to name only a few (4–7). These insights have given us hope that the recent migration of cancer treatment away from untargeted cytotoxic therapy to selective molecular-targeted therapies will ultimately be translated into novel life-saving cancer treatments.
Screening Scale Predicts Patients Successfully Receiving Long-term Implantable Left Ventricular Assist Devices (1995)

The RFSS is simple, easy to apply, and statistically valid. Physicians could use the scale as a starting point in discussing the suitability for LVAD implantation in a specific patient and as a basis for comparing patient outcomes.
Optical and physical properties of the LiSrAlF{sub 6}:Cr laser crystal (1993)

We have measured several of the physical and optical parameters of the LiSrAlF[sub 6]:Cr or Cr:LiSAF laser material that are important to its laser performance, including the thermomechanical properties, water durabilities and Auger upconversion constants. A thermomechanical figure-of-merit has been determined from measurements of the fracture toughness, expansion coefficient, thermal conductivity, Young's modulus, and heat capacity. Tests of water durability suggest that a neutral pH of 7 is optimum to minimize water dissolution. The Auger effect was found to be a significant factor at higher Cr concentration, where excited-state migration leads to an increase in the upconversion rate. 17 refs, 1 fig, 4 tabs.
Interphase gap as a means to reduce electrical stimulation thresholds for epiretinal prostheses (2014)

Incorporating interphase gaps can reduce the power consumption of epiretinal prostheses and increase the available dynamic range of phosphene size and brightness.
Probabilistic control design for continuous-time stochastic nonlinear systems: a PDF-shaping approach (2005)

For the purposes of industrial control, it is often desirable that process variables remain near a set operating point over the long term. This type of long term process performance can be concisely summarized by the stationary probability density function (PDF). In this work, feedback control laws are designed for continuous-time stochastic nonlinear processes so that the closed-loop system is indeed stationary with the PDF chosen in the control design.
Soft MIMO Detection at Fixed Complexity (2007)

This paper presents a new approach to soft demodulation for MIMO channels. The proposed method is an approximation to the exact a posteriori probability-per-bit computer. The main idea is to marginalize the posterior density for the received data exactly over the subset of the transmitted bits that are received with the lowest signal-to-noise-ratio, and then marginalize this density approximately over the remaining bits. Unlike the exact demodulator, whose complexity is huge due to the need for enumerating all possible combinations of transmitted constellation points, the proposed method has very low complexity. Additionally, its complexity is fixed, which makes it suitable for pipelined implementation. Numerical examples illustrate its performance on slow fading 4times4 and 6times6 complex MIMO channels.
Digital interface circuits using sigma-delta modulation for integrated micro-fluxgate magnetic sensors (1996)

This paper presents a high-resolution micro fluxgate magnetic sensor interface circuit based on 2nd-order sigma-delta modulation. The fluxgate sensing element is placed in the modulation loop. This technique allows us to realize pulse negative feedback in the magnetic flux domain, and the instability due to the use of a ferromagnetic core can be reduced. As one of the integrators, a continuous-time integrator is used, and that is also used for the multi-aliasing filter for phase sensitive detector output. The oversampling A/D conversion using 2nd-order sigma-delta modulation results in the high-precision detection of extremely weak magnetic field in the order of sub-nanotesla. The interface circuit chip is designed and evaluated by circuit simulation and behavior-level simulation.
Periostin Exon-21 Antibody Neutralization of Triple-Negative Breast Cancer Cell-Derived Periostin Regulates Tumor-Associated Macrophage Polarization and Angiogenesis (2021)

Periostin (Pn) is involved in multiple processes of cancer progression. Previously, we reported that Pn expression is correlated with mesenchymal tumor markers and poor prognosis in triple-negative breast cancer (TNBC). In the TNBC xenograft model, chemotherapy increased expression of a Pn alternative splicing variant (ASV) with exon 21, and administration of the neutralizing antibody against Pn with exon 21 (Pn-21 Ab) overcame chemoresistance with a reduction in the mesenchymal cancer cell fraction. In the present study, the role of Pn ASV with exon 21 in TNBC progression has been addressed. We first established a stable cell line carrying a fluorescence-based splicing reporter. Pn-positive TNBC has higher expression of genes related to tumor-associated macrophage (TAM) recruitment and ECM-receptor interaction than Pn-negative cells. In a xenograft model, only Pn-positive cells initiated tumor formation, and the Pn-21 Ab suppressed tumor cell growth, accompanied by decreased M2 TAM polarization and the number of tumor vessels. These data suggest that cancer cell-derived Pn ASV educates TAMs and regulates angiogenesis, which in turn establishes a microenvironmental niche that is supportive of TNBC.
Use of 64Copper Measurements to Diagnose Canine Copper Toxicosis (1992)

Inherited canine copper toxicosis is a serious problem in Bedlington terriers and West Highland White terriers, and may also be a problem in other less-studied breeds. Affected dogs become ill at midlife with progressive and ultimately fatal liver disease. Treatments for removal of copper and prevention of copper accumulation are available, but are most effective if begun before the dog becomes ill. Until recently diagnosis has not been available until the dog is 1 year of age, and then only by an invasive liver biopsy with determination of liver copper concentration. The authors studied the use of 64copper for early diagnosis of canine copper toxicosis. Two procedures were evaluated. The first involved measuring the concentration of 64copper in blood 24 hours after oral administration of the radioisotope. At this time, 64copper was associated primarily with ceruloplasmin secreted into the blood by the liver. This procedure is useful in the diagnosis of the human counterpart, Wilson's disease. However, the authors found it to be nondiscriminatory between affected and unaffected dogs. In contrast, the second procedure, which involved measuring 64copper excreted in stool during 48 hours after an intravenous dose of radioisotope, yielded results that differentiated most affected and unaffected dogs.
Methods for Simultaneous Robot-World-Hand–Eye Calibration: A Comparative Study (2019)

In this paper, we propose two novel methods for robot-world-hand–eye calibration and provide a comparative analysis against six state-of-the-art methods. We examine the calibration problem from two alternative geometrical interpretations, called ‘hand–eye’ and ‘robot-world-hand–eye’, respectively. The study analyses the effects of specifying the objective function as pose error or reprojection error minimization problem. We provide three real and three simulated datasets with rendered images as part of the study. In addition, we propose a robotic arm error modeling approach to be used along with the simulated datasets for generating a realistic response. The tests on simulated data are performed in both ideal cases and with pseudo-realistic robotic arm pose and visual noise. Our methods show significant improvement and robustness on many metrics in various scenarios compared to state-of-the-art methods.
Chiral Thiahelicene-Based Alkyl Phosphine–Borane Complexes: Synthesis, X-ray Characterization, and Theoretical and Experimental Investigations of Optical Properties (2015)

Chiral helical-based phosphanes are challenging and promising ligands, with a great potential for the generation of both organic and organometallic catalysts. We report here the preparation of novel chiral thiahelicene-based alkyl phosphanes, isolated and characterized as air-stable borane adducts, and the investigation of their experimental and theoretical (chir)optical properties. X-ray characterization of a mono- and a disubstituted derivative as a racemic mixture has been performed, which confirms the influence of the number and nature of substituents on the flexibility of the helix. In addition, the absolute configuration inferred from CD spectra of the two enantiomers of a diborane complex has been established from X-ray analysis. State-of-the-art quantum chemical calculations of vibrationally resolved spectra allow, for the first time, for an unambiguous assignment of the experimentally observed peaks in linear absorption and circular dichroism spectra to excited electronic states of this class of thiahelicene phosphorus derivatives.
ALD based nanostructured zinc oxide coated antiviral silk fabric (2022)

The COVID-19 pandemic has underscored the importance of research and development in maintaining public health. Facing unprecedented challenges, the scientific community developed antiviral drugs, virucides, and vaccines to combat the infection within the past two years. However, an ever-increasing list of highly infectious SARS-CoV-2 variants (gamma, delta, omicron, and now ba.2 stealth) has exacerbated the problem: again raising the issues of infection prevention strategies and the efficacy of personal protective equipment (PPE). Against this backdrop, we report an antimicrobial fabric for PPE applications. We have fabricated a nanofibrous silk-PEO material using electrospinning followed by zinc oxide thin film deposition by employing the atomic layer deposition technique. The composite fabric has shown 85% more antibacterial activity than the control fabric and was found to possess substantial superoxide dismutase-mimetic activity. The composite was further subjected to antiviral testing using two different respiratory tract viruses: coronavirus (OC43: enveloped) and rhinovirus (RV14: non-enveloped). We report a 95% reduction in infectious virus for both OC43 and RV14 from an initial load of ∼1 × 10<sup>5</sup> (sample size: 6 mm dia. disk), after 1 h of white light illumination. Furthermore, with 2 h of illumination, ∼99% reduction in viral infectivity was observed for RV14. High activity in a relatively small area of fabric (3.5 × 10<sup>3</sup> viral units per mm<sup>2</sup>) makes this antiviral fabric ideal for application in masks/PPE, with an enhanced ability to prevent antimicrobial infection overall.
Flexible and Transparent Dielectric Film with a High Dielectric Constant Using Chemical Vapor Deposition-Grown Graphene Interlayer (2013)

We have devised a dielectric film with a chemical vapor deposited graphene interlayer and studied the effect of the graphene interlayer on the dielectric performance. The highly transparent and flexible film was a polymer/graphene/polymer 'sandwich-structure' fabricated by a one-step transfer method that had a dielectric constant of 51, with a dielectric loss of 0.05 at 1 kHz. The graphene interlayer in the film forms a space charge layer, i.e., an accumulation of polarized charge carriers near the graphene, resulting in an induced space charge polarization and enhanced dielectric constant. The characteristic of the space charge layer for the graphene dielectric film, the sheet resistance of the graphene interlayer, was adjusted through thermal annealing that caused partial oxidation. The dielectric film with higher sheet resistance due to the oxidized graphene interlayer had a significantly lower dielectric constant compared to that with the graphene with lower interlayer sheet resistance. Oxidizing the graphene interlayer yields a smaller and thinner space charge density in the dielectric film, ultimately leading to decreased capacitance. Considering the simplicity of the fabrication process and high dielectric performance, as well as the high transparency and flexibility, this film is promising for applications in plastic electronics.
Suppressing Degradation in QLEDs via Doping ZnO Electron Transport Layer by Halides (2023)

Abstract Recent findings show that electron transport layers (ETLs) significantly influence the electroluminescence (EL) lifetime of quantum‐dot light‐emitting diodes (QLEDs). In this work, it is found that using halide dopants in the ZnO ETL significantly enhances device EL lifetime. Electrical, photoluminescence, and photoelectron spectroscopy measurements on QLEDs and specially designed devices are used for elucidating the root causes of the lifetime enhancement. Results show that charge transfer occurs at the ZnO/QDs interface in QLEDs, producing positively charged states in ZnO, subsequently leading to luminance loss, a mechanism that contributes to EL loss. Furthermore, XPS studies show that electrical stress of QLEDs leads to an increase in the concentration of ZnO species with higher oxidative states and that a correlation between the magnitude of EL loss and the concentration of these species exists. The use of halide dopants is found to reduce this interfacial charge transfer and the formation of the ZnO species with higher oxidative states, possibly due to the dopants role in acting as hole scavengers that trap and efficiently neutralize holes in ZnO. The findings underscore the significant role that managing positive charges in ZnO plays in EL lifetime and provide an effective strategy for achieving highly stable QLED.
A remarkable adaptive paradigm of heart performance and protection emerges in response to marked cardiac-specific overexpression of ADCY8 (2022)

Adult (3 month) mice with cardiac-specific overexpression of adenylyl cyclase (AC) type VIII (TG<sup>AC8</sup>) adapt to an increased cAMP-induced cardiac workload (~30% increases in heart rate, ejection fraction and cardiac output) for up to a year without signs of heart failure or excessive mortality. Here, we show classical cardiac hypertrophy markers were absent in TG<sup>AC8</sup>, and that total left ventricular (LV) mass was not increased: a reduced LV cavity volume in TG<sup>AC8</sup> was encased by thicker LV walls harboring an increased number of small cardiac myocytes, and a network of small interstitial proliferative non-cardiac myocytes compared to wild type (WT) littermates; Protein synthesis, proteosome activity, and autophagy were enhanced in TG<sup>AC8</sup> vs WT, and Nrf-2, Hsp90α, and ACC2 protein levels were increased. Despite increased energy demands in vivo LV ATP and phosphocreatine levels in TG<sup>AC8</sup> did not differ from WT. Unbiased omics analyses identified more than 2,000 transcripts and proteins, comprising a broad array of biological processes across multiple cellular compartments, which differed by genotype; compared to WT, in TG<sup>AC8</sup> there was a shift from fatty acid oxidation to aerobic glycolysis in the context of increased utilization of the pentose phosphate shunt and nucleotide synthesis. Thus, marked overexpression of AC8 engages complex, coordinate adaptation "circuity" that has evolved in mammalian cells to defend against stress that threatens health or life (elements of which have already been shown to be central to cardiac ischemic pre-conditioning and exercise endurance cardiac conditioning) that may be of biological significance to allow for proper healing in disease states such as infarction or failure of the heart.
Improving Patient Safety Through Team Training (2018)

A summary is not available for this content so a preview has been provided. Please use the Get access link above for information on how to access this content.
D4.3 Report on the control system design (2022)

This document is the deliverable D4.3 of the project POLYPHEM. It is planned in the framework of the Work Package 4 (System integration and overall plant design). The report presents the principles of the design of the control system of the plant, the management of the various operation modes including emergency situations, and the interactions between the different controllers.
Synthesis and Biological Properties of the Four Optical Isomers of 5-o-Carboranyl-2′,3′-didehydro-2′,3′-dideoxyuridine (1998)

The four isomers of the 5-o-carboranyl-2',3'-didehydro-2',3'-dideoxyuridine (d4CU) were synthesized and their antiviral activity and cytotoxicity in normal and cancer human cells determined. Coupling of silylated 5-o-carboranyluracil with the protected D/L 2,3-dideoxy-2-phenylselenenylribosylacetates provided after oxidative elimination and deprotection, the desired compounds. The presence of the electron deficient 5-o-carboranyl moiety on uracil influenced the yield of the various isomers. In general, the compounds demonstrated weak anti-human immunodeficiency virus activity in primary human lymphocytes. No marked difference in the biological profile was noted for the various optical isomers, suggesting that the high lipophilicity of these nucleosides imparted by the carboranyl moiety overrides stereochemical considerations in the 2',3'-didehydro-2',3'-dideoxyaglycon moiety.
Immobilization of bone morphogenetic protein 2 on bioactive titanium/hydroxyapatite surfaces for multifaceted osteogenetic effect (2009)

Immobilization of bone morphogenetic protein 2 on bioactive titanium/hydroxyapatite surfaces for multifaceted osteogenetic effect
Malware Makeover: Breaking ML-based Static Analysis by Modifying Executable Bytes (2021)

Motivated by the transformative impact of deep neural networks (DNNs) in various domains, researchers and anti-virus vendors have proposed DNNs for malware detection from raw bytes that do not require manual feature engineering. In this work, we propose an attack that interweaves binary-diversification techniques and optimization frameworks to mislead such DNNs while preserving the functionality of binaries. Unlike prior attacks, ours manipulates instructions that are a functional part of the binary, which makes it particularly challenging to defend against. We evaluated our attack against three DNNs in white- and black-box settings, and found that it often achieved success rates near 100%. Moreover, we found that our attack can fool some commercial anti-viruses, in certain cases with a success rate of 85%. We explored several defenses, both new and old, and identified some that can foil over 80% of our evasion attempts. However, these defenses may still be susceptible to evasion by attacks, and so we advocate for augmenting malware-detection systems with methods that do not rely on machine learning.