gebhart/patrepeval huggingface dataset:
Abstract 1088: Defining bone metastatic potential of Abi1 CRISPR prostate cancer cell lines (2018)

Abstract Prostate cancer is the second most common cancer in American men, and it is the third leading cause of cancer-related deaths in American men. Distant stage and metastatic disease is often treated with androgen-deprivation therapy (ADT); however, this treatment ultimately fails, leading to castration-resistant prostate cancer (CRPC). This further emphasizes the need for better therapeutic targets. Our work focuses on understanding the role of the Abi1 gene in prostate cancer tumor progression. Our current in vitro data demonstrate an invasive phenotype with our CRISPR-mediated Abi1 knockout (KO) cell lines. In total, using CRISPR-mediated technology we have generated four Abi1 gene KO cell lines, PC-3, DU145, LnCaP, and RWPE-1. Importantly, the androgen-dependent cell line, LNCaP, demonstrated upregulation of Abi1 to the androgen receptor stimulation and the opposite response to the receptor inhibition upon treatment with enzalutamide. These data indicated that low Abi1 level could be induced by ADT therapies and are consistent with our previous observation of low Abi1/WAVE complex in prostate tumor samples. To learn more about this mechanism, we set out to investigate the role of Abi1 in castrated mice. The overall goal of the experiment is to compare the ability of cells lacking the Abi1 gene to engraft in bone under androgen deprivation condition and compare it to the control cells and examine any change in the engraftment phenotype. It is hoped that this research will lead to better understanding of the Abi1/WAVE complex role in CRPC. Supported by NCI R01 CA16101. Citation Format: Alexander Nappi, Dawn Post, Disharee Das, Ishita Joshi, Megan Oest, Gennady Bratslavsky, Leszek Kotula. Defining bone metastatic potential of Abi1 CRISPR prostate cancer cell lines [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 1088.
Rad-hard embedded computers for nuclear robotics (2002)

For requirement of nuclear industries, it is necessary to use robots with embedded rad hard electronics and high level safety. The computer developed for French research program SYROCO is presented in this paper.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Design of Novel Relaxase Substrates Based on Rolling Circle Replicases for Bioconjugation to DNA Nanostructures (2016)

During bacterial conjugation and rolling circle replication, HUH endonucleases, respectively known as relaxases and replicases, form a covalent bond with ssDNA when they cleave their target sequence (nic site). Both protein families show structural similarity but limited amino acid identity. Moreover, the organization of the inverted repeat (IR) and the loop that shape the nic site differs in both proteins. Arguably, replicases cleave their target site more efficiently, while relaxases exert more biochemical control over the process. Here we show that engineering a relaxase target by mimicking the replicase target, results in enhanced formation of protein-DNA covalent complexes. Three widely different relaxases, which belong to MOBF, MOBQ and MOBP families, can properly cleave DNA sequences with permuted target sequences. Collaterally, the secondary structure that the permuted targets acquired within a supercoiled plasmid DNA resulted in poor conjugation frequencies underlying the importance of relaxase accessory proteins in conjugative DNA processing. Our results reveal that relaxase and replicase targets can be interchangeable in vitro. The new Rep substrates provide new bioconjugation tools for the design of sophisticated DNA-protein nanostructures.
Cross-Linked Polyacid Matrices for Oral Drug Delivery (1991)

Concentrated solutions of many therapeutic agents can be imbibed into a crosslinked polyacid powder. After removal of the solvent, the drug-polymer matrix may be administered orally. The polyacid swells minimally under gastric conditions - retaining the drug - and then is highly swollen by the basic intestinal medium, allowing the drug to be dissolved away from the matrix. These matrices, with insulin as a model agent, have been characterized by, in vitro release curves, drug-polymer interaction studies and in vivo animal studies. 13C REDOR NMR experiments were also run to define the dispersion of the agents in the polyacid resin.
Direct tandem mass spectrometric analysis of amino acids in dried blood spots without chemical derivatization for neonatal screening (2003)

Neonatal screening performed by electrospray tandem mass spectrometry is a powerful technique in clinical diagnostics. In the present paper an alternative to the widely accepted method involving butylation has been developed. In the new method butylation is not required, and multiple reaction monitoring (MRM) was used instead of constant neutral loss scanning. The method was optimized for detection of 23 L-amino acids in their native form. Quantitation was based on isotope-labeled internal standards, calibration curves were linear from 0 to 500 micromol/L, and detection limits were in the range 2-42 micrmol/L. The utility of the present technique is illustrated in the case of one neonate suffering from citrullinaemia.
Bidirectional N-acetylglucosamine transfer mediated by -1,4-N-acetylglucosaminyltransferase III (2008)

beta-1,4-N-Acetylglucosaminyltransferase III (GnT-III) catalyzes the formation of the bisecting GlcNAc and plays a regulatory role in the biosynthesis of the N-linked oligosaccharide. In this study, we examined whether the glycosyl transfer catalyzed by GnT-III is reversible, and, in addition, investigated the equilibrium of the GnT-III-catalyzed reaction. Incubation of the agalactosyl-bisected biantennary oligosaccharide with GnT-III in the presence of the sufficiently high concentration of uridine diphosphate (UDP) resulted in conversion of the bisected oligosaccharide into the nonbisected one. This reaction was accompanied by the stoichiometric formation of UDP-GlcNAc, which appeared to result from the transfer of GlcNAc from the oligosaccharide to UDP. Thus, these results indicate that GnT-III is capable of perceivably catalyzing the reverse reaction in vitro, as found in some glycosyltransferases. When the equilibrium of the reaction was kinetically analyzed, it was found that the state of the equilibrium is greatly displaced toward the formation of the bisecting GlcNAc. In terms of free energy change, as estimated, the reaction by GnT-III can be comparable to the hydrolysis of ATP. Although GnT-III catalyzes bidirectional transfer of GlcNAc between the oligosaccharide and UDP, the removal of the bisecting GlcNAc is unlikely in vivo, due to the displacement of the equilibrium. It is known that equilibria of certain glycosyltransferase reactions are not biased as greatly as the case of GnT-III, and thus it seems likely that there are a variety of equilibrium states in glycosyltransferase reactions. In living cells, the assembly of oligosaccharides could be regulated by not only rate control but also equilibrium control.
Dipole Emission in Two-Dimensional Photonic Band Structures (1995)

For non-conducting passive two-dimensional dielectric periodic structures, the wave equation with a source term J (x,y,t) for an electric dipole can be written as, where J (x,y,t)= J (x,y)J(t)= I 0 Ω d δ x−x 0 y−y 0 θ (t)e − i Ω t . The dyadic Green's function G ¯x,y,t;x ′ ,y ′ ,t ′ satisfies, G ¯x,y,t;x ′ ,y ′ ,t ′ can be constructed with the eigen solutions of the homogeneous wave equation, The eigen solutions of (4) with properly normalized eigenvectors can be readily obtained by the plane wave method.
Patch procedure: modified transvaginal fascia lata sling for recurrent or severe stress urinary incontinence. (1990)

Ten patients with either recurrent or severe stress urinary incontinence were treated with a new procedure, using a patch of fascia lata to support the bladder base and the urethra. Nine of the ten patients are objectively continent of urine 1-2 years postoperatively. When pre- and postoperative urodynamics were compared, we noted significant increases in urethral closure pressure, functional urethral length, and abdominal pressure transmission to the proximal urethra. Intraoperative and postoperative morbidity was minimal. The procedure is easily performed and requires no more expertise than does a transvaginal needle bladder neck suspension.
Homology of mycoplasma plasmid pADB201 and staphylococcal plasmid pE194 (1989)

The complete nucleotide sequence of pADB201, a 1.7-kilobase cryptic plasmid from Mycoplasma mycoides subsp. mycoides, is reported. The sequence contains a single large open reading frame capable of coding for a polypeptide of up to 198 codons long. The sequence of the putative polypeptide shows significant similarity to that of the repF gene product of staphylococcal plasmid pE194.
HCMV: persistence in the population: potential transplacental transmission (2007)

Human cytomegalovirus (CMV) is a ubiquitous virus that causes asymptomatic infections in healthy individuals (for review see Pass, 2001). Because breast feeding (Stagno et al., 1980), exposure to young children (Pass et al., 1987) and sexual contact (Fowler and Pass, 1991) are major risk factors for infection, most adults are seropositive. Diverse organs and specialized cells, including polarized epithelial cells (Tugizov et al., 1996) and endothelial cells (Fish et al., 1998; Maidji et al., 2002), are susceptible to CMV infection. CMV establishes latent infection in granulocyte-macrophage progenitors (Kondo et al., 1996) and reactivates upon cellular differentiation (Hahn et al., 1998; Soderberg-Naucler et al., 1997). Congenital CMV infection is estimated to affect 1 to 3% of infants in the United States annually and remains an important public health problem causing significant morbidity and mortality (for review see Britt, 1999).
High performance three-phase power factor correction circuits (2002)

This paper reviews progress in topology, control and design aspects in three-phase power factor correction techniques. Different switching rectifier topologies are presented for various applications. Representative soft switching schemes, including zero-voltage and zero-current switched PWM techniques, are investigated. Merits and limitations of these techniques are discussed and illustrated by experimental results obtained on prototype converters. Control and input filter design issues are also discussed.
Mapping of T‐cell epitopes of Phl p 5: evidence for crossreacting and non‐crossreacting T‐cell epitopes within Phl p 5 isoallergens (1998)

Phl p 5, a major grass pollen allergen, contains several T-cell epitopes. Some epitope regions were recognized by several patients. Epitope recognition pattern could not be correlated with special HLA class II haplotypes. T-cell stimulating isoepitopes were found at corresponding regions of Phl p 5a and Phl p 5b isoforms.
A Scene-based Augmented Reality Framework for Exhibits (2023)

&lt;p&gt;This paper presents a novel augmented reality (AR) framework specifically targeting scene-based exhibits. Unlike traditional AR libraries that rely on specific image targets, the proposed framework utilizes a bag-of-words model for scene recognition, which enables recognition and subsequent launch of AR experiences under challenging environments. Moreover, the proposed framework utilizes relocalization capabilities of the popular ORB-SLAM algorithm to track the user’s movement after recognition of a particular exhibit. We demonstrate the efficacy of the proposed framework through a complete mobile app designed for a local museum, where artifacts are enhanced through AR.&lt;/p&gt;
Intrusion Response Decision-making Method Based on Reinforcement Learning (2018)

Aimed at the poor adaptability of intrusion response decision nowadays, this paper proposes an adaptive intrusion response decision method based on reinforcement learning. Based on reinforcement learning, propose an attack pattern matching layer to optimize the learning effect. Based on Softmax, the defense strategies selection method is designed to solve the exploration-utilization problem. Based on the voting mechanism, a multi-response purpose strategy evaluation method is designed. Based on the above, an adaptive intrusion response decision-making algorithm based on reinforcement learning is proposed. The simulation results show that the algorithm has good adaptability, and can make targeted responses to different abilities attackers.
Fumonisin B1 from the fungus Fusarium moniliforme causes contact toxicity in plants: evidence from studies with biosynthetically labeled toxin. (1999)

Fumonisin B1 (FB1) is the most abundant of a series of sphingosine analog mycotoxins produced by the fungus Fusarium moniliforme, a ubiquitous contaminant of stored corn (maize) worldwide. FB1 exhibits a variety of biological activities including phytotoxicity, which is of particular interest for its potential role as a virulence factor to facilitate invasion of plant tissues by the fungus. Droplets of FB1 solution applied to the leaf surface of jimsonweed, black nightshade, and susceptible tomatoes caused necrosis, growth inhibition, and death. With Arabidopsis thaliana grown on agar plates, an IC50 (concentration causing half maximal phytotoxicity) of less than 1 ppm was observed. [3H]FB1 was prepared by biosynthetic incorporation of commercially-available radiolabeled presumptive precursors into the toxin in rice medium solid cultures of F. moniliforme JW#1. The labeled toxin produced by incorporation of [9,10(-3)H]palmitate induced phytotoxic symptoms identical to unlabeled material, indicating it had full biological activity. The area of necrosis on treated leaves was similar in light and dark treated plants. Using liquid scintillation counting to quantify radioactivity in excised plant parts, over 95% of the [3H]FB1 radioactivity applied to leaves of light or dark-treated plants was recovered from the treated leaf. When [3H]FB1 was applied to a wound site on target plants, severe damage occurred at the site of FB1 application and in tissue above the site. These results indicate that FB1 applied to intact surfaces of target plants exhibits primarily contact activity. Translocation of FB1 is limited, occurring only when FB1 is applied to a wound site, and it results in damage to tissue above the point of application, indicating that FB1 is xylem mobile.
Fairness Assessment of the Adaptive Token Bank Fair Queuing Scheduling Algorithm (2008)

Adaptive token bank fair queuing (ATBFQ) algorithm has been proposed as a cross-layer scheduling technique for 4G wireless systems recently. This algorithm takes higher layer quality of service (QoS) attributes such as priorities, interflow fairness, and delay constraints into account. By selecting the user terminals (UTs) in a certain prioritized manner derived from QoS attributes, the performance of the UTs, suffering from high interference and/or shadowing in particular, can be improved. The ATBFQ algorithm has been tested in a multicell environment in the presence of intercell interference by comparing with reference Score Based (SB) and Round Robin (RR) algorithms. In this paper, we further analyze ATBFQ primarily with regard to fairness along with other performance metrics accessed in a more elaborate system considering varying interference and loading conditions. Furthermore, an adaptive method for the allocation of resources is proposed for ATBFQ parameter selection, and is shown to have better performance in various loading conditions. It is observed from simulation results that ATBFQ with adaptive parameter selection outperforms the reference schemes in terms of queuing delay and UT throughput for different network loading cases.
A Review on the Dynamic Control of Parallel Kinematic Machines: Theory and Experiments (2009)

In this article, we review the dynamic control of parallel kinematic machines. It is shown that the classical control strategies from serial robotics generally used for parallel kinematic machine have to be rethought. Indeed, it is first shown that the joint space control is not relevant for these mechanisms for several reasons such as mechanical behavior or computational efficiency. Consequently, Cartesian space control should be preferred over joint space control. Nevertheless, some modifications to the well-known Cartesian space control strategies of serial robotics are proposed to make them perfectly suited to parallel kinematic machines, particularly a solution using an exteroceptive measure of the end-effector pose. The expected improvement in terms of accuracy, stability and robustness are discussed. A comparison between the main presented strategies is finally performed both in simulation and experiments.
A 14-bit 200MS/s low-power pipelined flash-SAR ADC (2015)

This paper presents a 14-bit 200MS/s low-power pipelined flash-SAR ADC. A 5-bit front-end without a dedicated sample-and-hold amplifier (SHA) is adopted in the first stage. A 10-bit flash-SAR ADC which is composed of a 3.5-bit flash ADC and a 7-bit asynchronous SAR ADC is used as the second stage, eliminating the need for more pipeline stages. To achieve high performance with power-efficiency, correlated level-shifting (CLS), range-scaling and capacitor sharing techniques are employed. The ADC is designed using a 65nm general purpose (GP) CMOS technology. Post-layout transient simulation results with noise demonstrate that the ADC achieves a SNDR of 71dB and a SFDR of 82dB with an input frequency of 93.19MHz at 200MS/s. The ADC core consumes 25.8mW at a 1.2V supply voltage.
The size and height to which jet drops are ejected from bursting bubbles in seawater (1989)

The oft‐quoted 1‐to‐10 rule, that the diameter of the top jet drop is about one‐tenth that of a bubble bursting in seawater, holds for bubbles of &lt;500 μm diameter at about room temperature. The diameter of the second jet drop is about 8% larger than that of the top drop. Some of the lower drops are larger and some are smaller than the top drop. Both drop size and ejection height decrease with decreasing water temperature. Jet drops are produced from bubbles estimated to be as small as 10 μm in diameter.
ChemInform Abstract: CHIRAL ANALYSIS OF THE REACTION STAGES IN THE EDMAN METHOD FOR SEQUENCING PEPTIDES (1985)

Abstract Aus L‐Phenylalanin (I) wird durch Nitrierung, Einführung der Schutzgruppe und Reduktion die Aminosäure (II) erhalten, die nach ihrer Methylierung ohne Racemisiemng mit "Ihiophosgen zum L‐Isothioeyano‐phenylalanin (III) reagiert.
Excellent Fog‐Droplets Collector via Integrative Janus Membrane and Conical Spine with Micro/Nanostructures (2018)

Inspired by a cactus spine and trichomes integrated fog collection system, a strategy is presented to design a micro/nanostructured conical spine and Janus membrane integrative system (MNCS+JM). In this strategy, the surface of conical spine can be covered with rough micro and nanostructure (MNCS), so that the tiny fog-droplets can be captured, coalesced, and transported. Janus membrane (JM) with inside hydrophobic surface and outside hydrophilic surface is further used to control the water collection in process of droplet transport when the Janus membrane is vertically placed with different positions on the MNCS, thus MNCS+JM propel the droplet continuously for transport-coalescence-transport in a circle of droplet transport and collection. It is demonstrated that a higher fog collection rate can be achieved effectively, which is attributed to a cooperation effect between the Laplace pressure in difference and the released surface energy in droplet coalescence, in addition to wettability force of superhydrophobic-hydrophilic difference in the Janus membrane. This strategy of MNCS+JM offers an insight into the surface of materials to control the droplet transport for water collection in efficiency, which is significant to be extended into the realms of applications such as high-efficiency water collection systems, microfluidics devices, and others.
DYNAMIC WALKING STABILITY IN HEMIPARETIC CHRONIC STROKE SUBJECTS. (2005)

Purpose/Hypothesis: The goal of this study was to identify key characteristics of ground reaction forces exhibited during gait that could be used to quantitatively evaluate stability during ambulation. The most common way to measure stability during ambulation in stroke patients is through force platform data analysis (Karlsson and Frykberg, 2000) and clinical tests performed by health professionals such as the Berg Balance Test (Berg et al., 1995). These tests give a numerical score based on an individual's ability to complete a set of tasks yet focus on static posture and limited dynamic stability that are limited by their subjectiveness. Number of Subjects: Eight individuals with hemiparesis resulting from a CVA no less than one year prior to the onset of the study and eight healthy age-matched control subjects participated in the study. Materials/Methods: Each subject walked on a split belt instrumented treadmill (ADAL3D-F/COP/Mz, TECMACHINE) outfitted with force sensors under each belt (Kistler, Winterthur, Switzerland), which allows for the calculation of ground reaction forces and center of pressure (COP) under each foot. Each subject walked on the treadmill at five different speeds: their normal over-ground self-selected walking speed (SS), ± 10% SS and ± 25% SS. Data was collected at each of the five speeds for two periods of 30-seconds. The Fugl-Myer (Fugl-Meyer et al., 1975) lower extremity scale was used to assess each stroke subject's motor function while the Berg Balance test was completed to give a known clinical measure of stability. Repeated measures ANOVA calculations were used to compare ground reaction forces in each direction and variability in COP data while Pearson correlation coefficients were used to determine whether there are relationships between the gait metrics measured in this study and Berg Balance and Fugl-Meyer clinical scales. Results: Both propulsion and braking forces were significantly smaller in the stroke subjects than in the control subjects in both the affected and unaffected legs (p < 0.05). Interestingly, in the medial-lateral plane, there were no differences between controls and the affected lower limb of stroke subjects yet there were significant differences between controls and the unaffected leg at all speeds (p < 0.05). A similar trend emerged for variability measures of COP where there were no differences between control subjects and the affected stroke lower limb yet there were significant differences for the unaffected leg, particularly at heel strike and mid-stance. There were no correlations with these measure and commonly used clinical scales of postural stability (Berg Balance) and motor function (Fugl-Meyer). Conclusions: Results from this study indicate that stroke subjects exhibit a wider variety of spatial patterns in both their ground reaction force and COP trajectories than do healthy individuals. Clinical Relevance: These results suggest that kinetic analysis of hemiparetic gait may be useful to incorporate into future assessments of dynamic stability.
Experimental Investigation of Detection and Location of a Target in three-Layered Media Using the TR–RTM Mixed Method (2019)

The problem of target detection and localization in two-layered media can be solved by time reversal and reverse time migration mixed method. This paper is extended from two-layer layered medium to three-layered media. Due to the interference of two interfacial reflection signals, three-layered media is more difficult to detect than two-layer media. The single prominent mountain like acoustic field distribution is obtained around the target. For interface reflected signal, it is a disordered and inhomogeneous acoustic field distribution with a smaller amplitude. The position of summit is the just position of the target, thus achieving the detection and positioning of the target.