gebhart/patrepeval huggingface dataset:
Analysis of electromagnetic scattering from linear periodic arrays of perfectly conducting bodies using a cylindrical-current model (1991)

A novel solution is presented for the problem of three-dimensional scattering of a time-harmonic plane wave from a infinite periodic linear array of finite-size perfectly conducting bodies. A set of fictitious sources comprising periodic and properly modulated cylindrical electric current sheets of cross polarization is used to simulate the scattered field. The complex amplitudes of these fictitious sources are adjusted to render the tangential component of the electric field zero at a selected set of points on the surface of one of the scatterers. The suggested solution procedure is simple to implement and is applicable to linear periodic arrays composed of disjoint bodies of smooth, but otherwise arbitrary, shape. The accuracy of the method is demonstrated. It is shown that in the limiting case of widely spaced spherical scatterers the numerical solution agrees well with an approximate analytic solution.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
TALENs facilitate targeted genome editing in human cells with high specificity and low cytotoxicity (2014)

Designer nucleases have been successfully employed to modify the genomes of various model organisms and human cell types. While the specificity of zinc-finger nucleases (ZFNs) and RNA-guided endonucleases has been assessed to some extent, little data are available for transcription activator-like effector-based nucleases (TALENs). Here, we have engineered TALEN pairs targeting three human loci (CCR5, AAVS1 and IL2RG) and performed a detailed analysis of their activity, toxicity and specificity. The TALENs showed comparable activity to benchmark ZFNs, with allelic gene disruption frequencies of 15-30% in human cells. Notably, TALEN expression was overall marked by a low cytotoxicity and the absence of cell cycle aberrations. Bioinformatics-based analysis of designer nuclease specificity confirmed partly substantial off-target activity of ZFNs targeting CCR5 and AAVS1 at six known and five novel sites, respectively. In contrast, only marginal off-target cleavage activity was detected at four out of 49 predicted off-target sites for CCR5- and AAVS1-specific TALENs. The rational design of a CCR5-specific TALEN pair decreased off-target activity at the closely related CCR2 locus considerably, consistent with fewer genomic rearrangements between the two loci. In conclusion, our results link nuclease-associated toxicity to off-target cleavage activity and corroborate TALENs as a highly specific platform for future clinical translation.
Intraoperative Diagnosis and Surgical Procedure with Imprint Cytology for Small Pulmonary Adenocarcinoma (2020)

<b>Objectives</b>: For patients with multiple small-sized pulmonary cancers, a lobectomy can disrupt future therapeutic options for other lesions. It was recently reported that limited pulmonary resections were not inferior to lobectomy for the management of selected peripheral small-sized pulmonary adenocarcinomas. Patients with adenocarcinoma <i>in situ</i> or minimally invasive adenocarcinoma, as proposed by the International Association for the Study of Cancer classification, have been reported to have 100% survival after 5 years. However, that classification can be applied postoperatively. Since 2005, we have been intentionally performing limited pulmonary resection procedures for small-sized adenocarcinoma cases based on intraoperative imprint cytological diagnosis and our classification (Nakayama-Higashiyama's classification). <b>Materials and Methods</b>: A total of 120 consecutive cases were included in this study. Lung tumors were removed intraoperatively by wedge resection, and stump smear cytology was performed, from which the cases were classified into 5 groups based on our classification. When the tumor was classified as Group I or II, the operation was finished. When diagnosed as a more advanced classification, a lobectomy and lymph node dissection were additionally performed. <b>Results</b>: The 5-year survival rate for Group I and II was 100%, while those for Group III and IV-V were 95.8% and 94.4%, respectively. The 5-year disease-free survival rates for Group I and Group II were 100% and 97.1%, respectively, and for Group III and IV-V they were 100% and 94.1%, respectively. <b>Conclusion</b>: Use of cytological findings along with Nakayama-Higashiyama's classification for determining operation procedure is effective for treatment of patients with small-sized pulmonary adenocarcinoma.
Transcriptome analysis of human cholangiocytes exposed to carcinogenic 1,2-dichloropropane in the presence of macrophages in vitro (2022)

1,2-Dichloropropane (1,2-DCP), a synthetic organic solvent, has been implicated in causality of cholangiocarcinoma (bile duct cancer). 1,2-DCP-induced occupational cholangiocarcinoma show a different carcinogenic process compared to common cholangiocarcinoma, but its mechanism remains elusive. We reported previously that exposure of MMNK-1 cholangiocytes co-cultured with THP-1 macrophages, but not monocultured MMNK-1 cholangiocytes, to 1,2-DCP induced activation-induced cytidine deaminase (AID) expression, DNA damage and ROS production. The aim of this study was to identify relevant biological processes or target genes expressed in response to 1,2-DCP, using an in vitro system where cholangiocytes are co-cultured with macrophages. The co-cultured cells were exposed to 1,2-DCP at 0, 0.1 or 0.4 mM for 24 h, and then the cell lysates were assessed by transcriptome analysis. 1,2-DCP upregulated the expression of base excision repair genes in MMNK-1 cholangiocytes in the co-cultures, whereas it upregulated the expression of cell cycle-related genes in THP-1 macrophages. Activation of the base excision repair pathway might result from the previously observed DNA damage in MMNK-1 cholangiocytes co-cultured with THP-1 macrophages, although involvement of other mechanisms such as DNA replication, cell death or other types of DNA repair was not disproved. Cross talk interactions between cholangiocytes and macrophages leading to DNA damage in the cholangiocytes should be explored.
Laser isotope separation by selective excited state photochemistry. Progress report, June 1, 1975--February 29, 1976 (1976)

Progress has been made on the development of a low-temperature source for the generation of uranium atoms, and the use of laser-induced predissociation in Rb/sub 2/* for isotope separation. However, our main efforts have concentrated on understanding and improving the laser isotope separation of /sup 35/Cl and /sup 37/Cl by photochemical means. The gas-phase reaction ICl* with 1,2-dibromoethylene produces both cis-1-bromo-2-chloroethylene and cis-1,2-dichloroethylene stereospecifically. Selective excitation of I/sup 37/Cl with a tunable cw dye laser causes identical degrees of isotope enrichment in both products. By the use of an I/sup 35/Cl cell placed inside the cavity of the dye laser, the /sup 35/Cl:/sup 37/Cl ratio may be changed from 3:1 (natural abundance) to greater than 1:15. A competing pathway, cis-trans isomerization of starting material, also occurs and is the fastest reaction. The stereospecificity of the reaction and the relative rate of geometrical isomerization to substitution are the same when chlorine atoms, formed by the photodissociation of ICl or Cl/sub 2/, are scavenged by dibromoethylene. We conclude that, kinetically, ICl* acts as a free chlorine atom. That isotope separation is achieved by a free-radical scavenging mechanism is indeed remarkable and owes its success to the structure of the scavenger and the choice of initial conditions.
Fourier Transform Far‐Infrared (FT‐Far‐IR) Spectroscopy of Silver Atoms and Silver Clusters Entrapped in Zeolite NaY (1983)

Abstract The complete manuscript of this communication appears in: Angew. Chem. Suppl. 1983 , 1075. DOI: 10.1002/anie.198310750
Recenzja (2021)

Publikacja z okazji nadania Pani Jolancie Wadowskiej-Król godności Doktora Honoris Causa Uniwersytetu Śląskiego w Katowicach.
Actor-Critic Deep Reinforcement Learning for Energy Minimization in UAV-Aided Networks (2020)

In this paper, we investigate a user-timeslot scheduling problem for downlink unmanned aerial vehicle (UAV)-aided networks, where the UAV serves as an aerial base station. We formulate an optimization problem by jointly determining user scheduling and hovering time to minimize UAV's transmission and hovering energy. An offline algorithm is proposed to solve the problem based on the branch and bound method and the golden section search. However, executing the offline algorithm suffers from the exponential growth of computational time. Therefore, we apply a deep reinforcement learning (DRL) method to design an online algorithm with less computational time. To this end, we first reformulate the original user scheduling problem to a Markov decision process (MDP). Then, an actor-critic-based RL algorithm is developed to determine the scheduling policy under the guidance of two deep neural networks. Numerical results show the proposed online algorithm obtains a good tradeoff between performance gain and computational time.
Usage of Telematics for Battery and Vehicle State Monitoring (2011)

&lt;div class="section abstract"&gt;&lt;div class="htmlview paragraph"&gt;This paper presents Telematics Battery Monitoring (TBM). TBM is a multi-faceted approach of collecting and analyzing electric power and vehicle data used to ultimately determine battery state of charge (SOC) and battery state of health (SOH) in both pre- and post-sale environments. Traditional methods of battery SOC analysis include labor intensive processes such as going out to the site of individual vehicle(s), gaining access to the vehicle battery, and then after the vehicle electrical system obtains its quiescent current level, performing a battery voltage check. This time-consuming manual method can practically only cover a small percentage of the vehicle population. In using the vehicle communication capabilities of Telematics, electric power and vehicle data are downloaded, compiled, and post-processed using decision-making software tools. This allows for automation of the labor intensive manual data collection processes and makes possible for an extremely large number of vehicles to be included in the data analysis. The TBM capability includes audits of assembly plant processes, logistics, and dealership environments. It also involves diagnostics and prognostics of inadvertent loads, early detection of field issues, verification of software operation and calibrations, and battery life prediction. Telematics Battery Monitoring has many applications well beyond the battery and electric power system itself, a small set of which will also be discussed in this paper.&lt;/div&gt;&lt;/div&gt;
Nitrogen-doped poly spacer local oxidation (1997)

A novel isolation technique which consists of a modified local oxidation of silicon (LOCOS) process with a nitrogen-doped amorphous-Si spacer has been developed. Nitrogen doping of amorphous-Si reduces its oxide growth rate. This isolation process shows the least encroachment, smallest maximum stress, and a deeper field oxide recess as compared to standard LOCOS or poly spacer LOCOS. The oxidation of nitrogen-doped amorphous-Si also has been simulated by an equivalent stacked layer.
Conic Descent Redux for Memory-Efficient Optimization (2023)

Conic programming has well-documented merits in a gamut of signal processing and machine learning tasks. This contribution revisits a recently developed first-order conic descent (CD) solver, and advances it in three aspects: intuition, theory, and algorithmic implementation. It is found that CD can afford an intuitive geometric derivation that originates from the dual problem. This opens the door to novel algorithmic designs, with a momentum variant of CD, momentum conic descent (MOCO) exemplified. Diving deeper into the dual behavior CD and MOCO reveals: i) an analytically justified stopping criterion; and, ii) the potential to design preconditioners to speed up dual convergence. Lastly, to scale semidefinite programming (SDP) especially for low-rank solutions, a memory efficient MOCO variant is developed and numerically validated.
Using Generalized Second Price Auction for Congestion Pricing (2011)

To address network congestion issues, network providers are seeking to shape consumer's usage behavior through economic incentives such as a tiered pricing scheme and/or restrictions on unlimited data plans. Current pricing schemes, however, do not ad- dress the congestion problem directly: the prices differentiation is based on the data volume consumed by the user in a month whereas the congestion is a consequence of the availability of limited bandwidth resources (consumption speed). Furthermore, users subscribing to a costlier plan receive no real- time (higher bandwidth) priority. This paper pro- poses an alternate pricing plan for wireless networks based on Generalized Second Price (GSP) auctions with the aim of improving welfare. Our simulation- based analysis reveals that such a pricing scheme allows users with higher willingness to pay to secure higher throughput of service, without significantly sacrificing the overall system throughput or fairness.
Extended VTS for Noise-Robust Speech Recognition (2010)

Model compensation is a standard way of improving the robustness of speech recognition systems to noise. A number of popular schemes are based on vector Taylor series (VTS) compensation, which uses a linear approximation to represent the influence of noise on the clean speech. To compensate the dynamic parameters, the continuous time approximation is often used. This approximation uses a point estimate of the gradient, which fails to take into account that dynamic coefficients are a function of a number of consecutive static coefficients. In this paper, the accuracy of dynamic parameter compensation is improved by representing the dynamic features as a linear transformation of a window of static features. A modified version of VTS compensation is applied to the distribution of the window of static features and, importantly, their correlations. These compensated distributions are then transformed to distributions over standard static and dynamic features. With this improved approximation, it is also possible to obtain full-covariance corrupted speech distributions. This addresses the correlation changes that occur in noise. The proposed scheme outperformed the standard VTS scheme by 10% to 20% relative on a range of tasks.
Proposal of nine novel species of the genus Lysinimicrobium and emended description of the genus Lysinimicrobium (2015)

Thirteen novel Gram-stain-positive bacteria were isolated from various samples collected from mangrove forests in Japan, and their taxonomic positions were investigated by a polyphasic approach. Phylogenetic analyses based on 16S rRNA gene sequence comparisons showed that the 13 isolates formed a single clade with Lysinimicrobium mangrovi HI08-69T, with a similarity range of 97.6-99.5 %. The peptidoglycan of the isolates was of the A4α type with an interpeptide bridge comprising Ser-Glu and an l-Ser residue at position 1 of the peptide subunit. The predominant menaquinone was demethylmenaquinone DMK-9(H4) and the major fatty acid was anteiso-C15 : 0. These chemotaxonomic characteristics corresponded to those of the genus Lysinimicrobium. On the basis of the phenotypic and phylogenetic data, along with average nucleotide identity values among the isolates, we concluded that the 13 isolates should be assigned to the following nine novel species of the genus Lysinimicrobium: Lysinimicrobium aestuarii sp. nov. (type strain HI12-104T = NBRC 109392T = DSM 28144T), Lysinimicrobium flavum sp. nov. (type strain HI12-45T = NBRC 109391T = DSM 28150T), Lysinimicrobium gelatinilyticum sp. nov. (type strain HI12-44T = NBRC 109390T = DSM 28149T), Lysinimicrobium iriomotense sp. nov. (type strain HI12-143T = NBRC 109399T = DSM 28146T), Lysinimicrobium luteum sp. nov. (type strain HI12-123T = NBRC 109395T = DSM 28147T), Lysinimicrobium pelophilum sp. nov. (type strain HI12-111T = NBRC 109393T = DSM 28148T), Lysinimicrobium rhizosphaerae sp. nov. (type strain HI12-135T = NBRC 109397T = DSM 28152T), Lysinimicrobium soli sp. nov. (type strain HI12-122T = NBRC 109394T = DSM 28151T) and Lysinimicrobium subtropicum sp. nov. (type strain HI12-128T = NBRC 109396T = DSM 28145T). In addition, an emended description of the genus Lysinimicrobium is proposed.
Photofragment fluorescence polarization following photolysis of HgBr2 at 193 nm (1980)

When HgBr2 (2–45 mTorr) is photolyzed by the linearly polarized output of an ArF excimer laser (193 nm), the visible emission from the HgBr B 2Σ+ fragment is found to be linearly polarized. The degree of polarization is 11.9%±1.5%, in close agreement with the theoretical value of 14.3% predicted for a 1Σg+(1A1) →1B2(1Σu+) dissociative transition in HgBr2. The addition of inert gases depolarizes the HgBr* emission. A simple model, developed to calculate the average angle through which the angular momentum vector of the HgBr* fragment is tipped by each hard sphere collision, fits well the pressure dependence of the depolarization.
Saccharomyces cerevisiae cdc15 Mutants Arrested at a Late Stage in Anaphase Are Rescued by Xenopus cDNAs Encoding N -ras or a Protein with β-Transducin Repeats† (1993)

We have constructed a Xenopus oocyte cDNA library in a Saccharomyces cerevisiae expression vector and used this library to isolate genes that can function in yeast cells to suppress the temperature sensitive [corrected] defect of the cdc15 mutation. Two maternally expressed Xenopus cDNAs which fulfill these conditions have been isolated. One of these clones encodes Xenopus N-ras. In contrast to the yeast RAS genes, Xenopus N-ras rescues the cdc15 mutation. Moreover, overexpression of Xenopus N-ras in S. cerevisiae does not activate the RAS-cyclic AMP (cAMP) pathway; rather, it results in decreased levels of intracellular cAMP in both mutant cdc15 and wild-type cells. Furthermore, we show that lowering cAMP levels is sufficient to allow cells with a nonfunctional Cdc15 protein to complete the mitotic cycle. These results suggest that a key step of the cell cycle is dependent upon a phosphorylation event catalyzed by cAMP-dependent protein kinase. The second clone, beta TrCP (beta-transducin repeat-containing protein), encodes a protein of 518 amino acids that shows significant homology to the beta subunits of G proteins in its C-terminal half. In this region, beta Trcp is composed of seven beta-transducin repeats. beta TrCP is not a functional homolog of S. cerevisiae CDC20, a cell cycle gene that also contains beta-transducin repeats and suppresses the cdc15 mutation.
OneView: Enabling Collaboration Between Blind and Sighted Students (2015)

Collaborative activities, especially those that require sharing or referencing visual artifacts, can present a significant barrier to blind and visually impaired students in the classroom. We present our ongoing work on OneView, an application for tablet PCs that enables blind and sighted students to work collaboratively by integrating visual sketching tools with an accessible talking touch screen interface. In this paper, we describe a formative survey we conducted to understand accessibility challenges related to classroom collaboration, provide an overview of the OneView prototype, and describe a preliminary user study in which pairs of blind and sighted participants used OneView to collaboratively create diagrams.
Power allocation for in-band full-duplex self-backhauling (2017)

Ultra-dense cellular networks are emerging as one key characteristic of 5G wireless networks. In this context, frequency reuse is a fundamental technology enabler for efficient utilization of limited spectrum resources. In this paper, we investigate the in-band Full-Duplex (FD) self-backhauling architecture, in which Base Stations (BSs) operate on the same spectrum used by the users to access the network for backhauling purposes. In such a scenario, both cross-tier interference and self-interference due to the FD scheme at the BS should be taken into consideration. Apart from the frequency reuse, the network densification comes with the challenge of proper backhaul provisioning. In this paper, we propose a power allocation strategy for both the backhaul and access network such that the sum-rate is maximized and specifically tailored to tackle backhaul congestion.
Dynamic Performance of a Solar Hybrid Heating Network Integrated with a Micro-Cogeneration Unit Serving a Small-Scale Residential District including Electric Vehicles (2020)

A solar hybrid district heating network integrated with a seasonal borehole thermal energy storage is modelled, simulated and analyzed over a 5-year period. The system is devoted to satisfying the thermal demand of a smallscale district consisting of 6 typical Italian single-family houses in Naples (south of Italy); the charging of 6 plugin electric vehicles is also considered. The performance of the proposed plant is investigated by considering two alternative natural gas-fueled back-up systems. The energy, environmental and economic performance of the proposed plant are analyzed and compared with those associated to a conventional heating system in order to assess the potential benefits.
Persistence ofHelicobacter pyloriVacA toxin and vacuolating potential in cultured gastric epithelial cells (1998)

The vacuolating toxin A (VacA) is one of the most important virulence factors in Helicobacter pylori-induced damage to human gastric epithelium. Using human gastric epithelial cells in culture and broth culture filtrate from a VacA-producing H. pylori strain, we studied 1) the delivery of VacA to cells, 2) the localization and fate of internalized toxin, and 3) the persistence of toxin inside the cell. The investigative techniques used were neutral red dye uptake, ultrastructural immunocytochemistry, quantitative immunofluorescence, and immunoblotting. We found that VacA 1) is delivered to cells in both free and membrane-bound form (i.e., as vesicles formed by the bacterial outer membrane), 2) localizes inside the endosomal-lysosomal compartment, in both free and membrane-bound form, 3) persists within the cell for at least 72 h, without loss of vacuolating power, which, however, becomes evident only when NH4Cl is added, and 4) generally does not degrade into fragments smaller than approximately 90 kDa. Our findings suggest that, while accumulating inside the endosomal-lysosomal compartment, a large amount of VacA avoids the main lysosomal degradative processes and retains its apparent molecular integrity.
A loop transformation approach for combined parallelization and data transfer and storage optimization (2000)

We show a new loop transformation approach to combine parallelization and data transfer and storage optimization for embedded multimedia applications. Our methodology makes use of an extended polytope model, with an exact mathematical description of all operations and dependencies. For the data transfer and storage exploration, we use a two step approach, consisting of a polytope placement step and an ordering step. We will show that an early parallelization has to be done between these two steps, in order to achieve a powerful combination of storage optimization and parallelization.