gebhart/patrepeval huggingface dataset:
Transposition of plasmid DNA segments specifying hydrocarbon degradation and their expression in various microorganisms (1978)

The conjugative TOL plasmid (75 Mdal), specifying biodegradation of xylenes, toluene, and trimethylbenzene derivatives, undergoes dissociation in Pseudomonas aeruginosa PAO to a nonconjugative TOL(*) plasmid (28 Mdal) and a transfer plasmid termed TOLDelta (48 Mdal). The TOL(*) plasmid is rendered transmissible through introduction of a number of conjugative plasmids such as factor K, CAM, and TOLDelta but not by the FP2 derivative pR0271. Transfer of TOL(*) via factor K or TOLDelta is mediated by the formation of plasmid cointegrates; no recombination is observed with CAM. A recombinant RP4-TOL plasmid (76 Mdal), which has lost resistance to tetracycline, has been isolated. The TOL(*) segment can be transposed from this RP4-TOL recombinant plasmid to other antibiotic resistance plasmids such as R702. A segment of DNA, specifying salicylate degradation from SAL plasmid, was transposed onto pAC10, the TOL(*-) derivative of RP4-TOL recombinant plasmid, which has lost resistance to tetracycline but retains the transfer genes of RP4. Transposition of the salicylate degradative genes onto pAC10 results in the loss of kanamycin resistance. It has been possible to isolate SAL(+) segregants from pAC10[unk]SAL transposition derivatives that have lost the pAC10 plasmid. Such segregants harbor the salicylate degradative genes in the form of a nonconjugative plasmid (SAL(*)). Transfer of RP4[unk]TOL(*) or pAC10[unk]SAL(*) transposition derivatives to Escherichia coli, Salmonella typhimurium, Agrobacterium tumefaciens, or Azotobacter vinelandii results in the functional expression of the antibiotic resistance genes but not of the hydrocarbon degradative genes. Such genes, however, are fully expressed on being transferred back to Pseudomonas.
pH-Responsive Water-Based Drilling Fluids Containing Bentonite and Chitin Nanocrystals (2018)

The forthcoming era of sustainable development demands the utilization of naturally abundant, sustainable, biodegradable, and environmentally friendly resources for a wide variety of applications. Herein, we report the isolation of chitin nanocrystals (ChNCs) from speckled swimming crab shell waste and their novel utilization as rheology modifiers in bentonite-water-based drilling fluids (BT-WDFs). The positively charged functional groups on the surface of ChNCs enable them to attach to the negatively charged face surfaces of BT by electrostatic attraction, leading to a notable improvement in the rheological property that is responsible for the ability of drilling fluids to carry away drill cuttings. Moreover, owing to the reversible protonation and deprotonation of ChNCs and BT platelets, ChNC/BT-WDFs can form distinctive dispersion states and nanostructured surface interactions under different pH conditions. As a result, ChNC/BT-WDFs exhibit interesting pH-responsive rheological and filtration performance, especially when the pH is changed from neutral to acidic. Finally, the combined use of ChNCs with a conventional filtration control agent—polyanionic cellulose—(PAC) leads to remarkable improvement in both rheological and filtration performance of BT-WDFs. It is expected that these observations not only enrich the high-value utilization of crab shell waste but also advance the development of smart nanofluids with pH-responsiveness for various applications.
Peritoneal Transport during Dialysis with Amino Acid-Based Solutions (1993)

We conclude that the peritoneal transport of fluid and investigated solutes, except amino acids, was not different with the amino acid solutions compared with the corresponding equimolar glucose solutions. However, ultrafiltration tended to be lower with amino acid solutions. Furthermore, the fractional absorption of amino acids and KBD values for amino acids was higher with PDA 2.7% versus PDA 1%, suggesting an effect of the hypertonic amino acid solution on the peritoneal membrane transport properties. Also, the hypertonic PDA 2.7% solution yielded nonphysiologically high plasma levels of several amino acids. We therefore consider this solution not to be safe enough for long-term clinical use.
Superconducting quantum nano-circuits (2010)

Superconducting circuits are described by a small number of macroscopic variables and behave as simple quantum mechanical systems. They can be manufactured and integrated by extending micro-electronics techniques with suspended masks and shadow evaporation techniques. Superconducting circuits can be designed to study novel quantum phenomena and explore some of their applications. In this paper, the physics of some superconducting qubits circuits (phase and coupled charge-phase qubits) is reviewed. Other interesting applications involving quantised superconducting pumps and the current-phase relation of Josephson rhombi networks are also presented. Presently, applications of superconducting circuits to quantum computing are limited by decoherence phenomena. Prospects in material development and circuit integration to overcome these difficulties are also discussed in this review.
Poly(ethylene glycol) doubly and singly cationized by different alkali metal ions: Relative cation affinities and cation-dependent resolution in a quadrupole ion trap mass spectrometer (2002)

Structural information of gas phase complexes of poly(ethylene glycol) (PEG) cationized by one or two different alkali metal ions is inferred from MS and MS/MS experiments performed with an electrospray quadrupole ion trap mass spectrometer. The rationale for selecting PEG was that its sites for cation binding are non-selective with respect to the repeating monomeric unit of the polymer, but there is selectivity with respect to the formation of an inner coordination sphere specific to each metal ion. The dissociation of [M1+ M2+ (EO23)], where EO23 = linear polymer of ethylene oxide, 23 units in length, resulted in loss of one of the alkali metal ions, with preference for loss of the larger cation, with no fragmentation of the PEG backbone for Na, K, Rb, and Cs. Li was not examined in this portion of the study. The selectivity for loss of the larger alkali metal ion was [Na+ K+ (EO23)] to [Na+ (EO23)] + K+ at 100%; [K+ Rb+ (EO23)] to [K+ (EO23)] + Rb+ at 93%; and [Rb+ Cs+ (EO23)] to [Rb+ (Eo23)] + Cs+ at 99%. The resolution of [M+ (EOx)] for x = 20-30 was dependent on the alkali metal ion, with the highest resolution observed for Cs+ and the lowest for Na+. These results are discussed with respect to the packing of the oxygen atoms on PEG (M.W.(avg) = 1000) around an alkali metal ion of different radius, and how this packing leads to an ensemble of unique structures, and therefore mobilities for [M+ (EOx)].
Hyperlink Pipeline: Lightweight Service Composition for Users. (2013)

This paper describes a lightweight service composition mechanism in web browsers, called hyperlink pipeline, to allow users to interactively chain distributed atomic web services into composite services similar to using Unix pipelines. This mechanism addresses the limitation in current Web, which confines users to following predefined hyperlinks and forms. We present the functional composition framework to facilitate recursive hyperlink pipeline construction and execution based on REST services and the HTML5 Micro data model to efficiently implement the framework. The proposed mechanism has been implemented and used in several web applications for real-time communication and collaboration based on WebRTC. The initial tests indicate the approach is feasible and promising.
Use of 6-hydroxydopamine to create lesions in catecholamine neurons in rats (1975)

The authors report experiments in rats with 6-hydroxydopamine (6-OHDA), a chemical agent used for creating lesions in catecholamine neurons. Stereotaxic injection of 6-OHDA into the compact zone of the substantia nigra induced degeneration of the nigrostriatal dopamine (DA) system, confirmed by histology and histochemistry of the substantia nigra and by dopamine determinations in the neostriatum. These observations closely mimic those found in Parkinson's disease. In the experimental model a rotatory behavior is induced by DA agonists; this response has been used to test drugs for potential therapeutic use and also in basic studies of the extrapyramidal system. This technique may be useful in developing other experimental models for neurosurgical problems involving catecholamine pathways.
Weighted Signed Graph (WSG) power-aware routing in distributed wireless networks (2012)

In this paper, we propose a Weighted Signed Graph (WSG)-based power-aware routing scheme for distributed wireless networks. It is a practically implementable and self re-configurable distributed solution. It is an alternative and novel method to solve the constraint optimization with network lifetime and throughput in wireless networks. The proposed scheme runs independently on each wireless node and optimizes the network lifetime by invoking power-aware routing schemes. The power-aware routing scheme we propose in this paper is a modified shortest path routing (Distance Vector (DV) Routing) scheme wherein instead of path length, we employ link cost in terms of congestion and battery availability at nodes for route computation. We also propose linear as well as non-linear sectorization of available battery power at a node for sending route update packets. We perform extensive simulation using Java implementation and observe that our scheme minimizes the message passing involved in DV routing deployment. We further observe that the proposed WSG scheme out-performs the basic DV routing in-terms of throughput and lifetime of the network.
Tryptophan catabolism during sporulation in <i>Bacillus cereus</i> (1970)

1. Two intermediates of tryptophan catabolism were isolated from a sporulating culture of Bacillus cereus and identified as anthranilic acid and kynurenine by their spectral properties. 2. During sporulation the rate of formation of anthranilic acid and kynurenine by whole cells increased and reached a maximum at the pre-spore stage. 3. The specific activities of tryptophan pyrrolase and formylase also increased during sporulation and exhibited a maximal activity at the pre-spore stage. 4. Kynureninase activity reached a maximum during early stages of sporulation and then started to decline. 5. There was a net increase in the activity of tryptophan pyrrolase when cells were grown in the presence of l-tryptophan or dl-kynurenine. 6. The cultures exhibited the maximal activity of kynureninase 2h earlier in the presence of dl-kynurenine whereas l-tryptophan delayed the appearance of the maximal activity by 2h. 7. The omission of glucose from the medium had no effect on the pattern of development of tryptophan pyrrolase during growth and sporulation. 8. On the addition of tryptophan to a chemically defined medium no significant change in the pattern of development of tryptophan pyrrolase was observed.
Acoustic Emission Signatures of Fatigue Damage in Idealized Bevel Gear Spline for Localized Sensing (2017)

In many rotating machinery applications, such as helicopters, the splines of an externally-splined steel shaft that emerges from the gearbox engage with the reverse geometry of an internally splined driven shaft for the delivery of power. The splined section of the shaft is a critical and non-redundant element which is prone to cracking due to complex loading conditions. Thus, early detection of flaws is required to prevent catastrophic failures. The acoustic emission (AE) method is a direct way of detecting such active flaws, but its application to detect flaws in a splined shaft in a gearbox is difficult due to the interference of background noise and uncertainty about the effects of the wave propagation path on the received AE signature. Here, to model how AE may detect fault propagation in a hollow cylindrical splined shaft, the splined section is essentially unrolled into a metal plate of the same thickness as the cylinder wall. Spline ridges are cut into this plate, a through-notch is cut perpendicular to the spline to model fatigue crack initiation, and tensile cyclic loading is applied parallel to the spline to propagate the crack. In this paper, the new piezoelectric sensor array is introduced with the purpose of placing them within the gearbox to minimize the wave propagation path. The fatigue crack growth of a notched and flattened gearbox spline component is monitored using a new piezoelectric sensor array and conventional sensors in a laboratory environment with the purpose of developing source models and testing the new sensor performance. The AE data is continuously collected together with strain gauges strategically positioned on the structure. A significant amount of continuous emission due to the plastic deformation accompanied with the crack growth is observed. The frequency spectra of continuous emissions and burst emissions are compared to understand the differences of plastic deformation and sudden crack jump. The correlation of the cumulative AE events at the notch tip and the strain data is used to predict crack growth. The performance of the new sensor array is compared with the conventional AE sensors in terms of signal to noise ratio and the ability to detect fatigue cracking.
Phenylbutyrate Counteracts Shigella Mediated Downregulation of Cathelicidin in Rabbit Lung and Intestinal Epithelia: A Potential Therapeutic Strategy (2011)

Our results suggest that PB has treatment potential in human shigellosis. Enhancement of CAP-18 in the mucosal epithelia of the respiratory tract by PB or NaB is a novel discovery. This could mediate protection from secondary respiratory infections that frequently are the lethal causes in dysentery.
Control of respiration as a means of controlling responses to threat. (1978)

After a 30-minute rest period, (a) subjects in a respiration tracing condition began replicating their breathing patterns from the rest period; (b) subjects in an attention tracing condition participated in a comparable task that did not involve the control of respiration; and (c) subjects in a no-tracing condition were not assigned to perform any task. After the tracing manipulation was introduced, half of the subjects were assigned to a threat condition and informed that they would receive a series of painful electric shocks, whereas the other subjects were assigned to a no-threat condition and informed that they would receive red light stimulation. Analyses of heart rate and self-report data indicated that (a) the threat manipulation was effective; (b) controlling respiration did not reduce subjects' stress responses; and (c) subjects in the no-tracing condition were the only stressed subjects to show decreases in physiological arousal over time, an effect that may have been due to their use of a cognitive coping strategy (situation redefinition). These findings do not provide evidence that control of respiration is an effective strategy for controlling stress but do suggest that, when not interferred with, subjects can employ relatively effective, self-generated cognitive coping strategies.
A consensus protocol for the standardization of cerebrospinal fluid collection and biobanking (2009)

There is a long history of research into body fluid biomarkers in neurodegenerative and neuroinflammatory diseases. However, only a few biomarkers in CSF are being used in clinical practice. One of the most critical factors in CSF biomarker research is the inadequate powering of studies because of the lack of sufficient samples that can be obtained in single-center studies. Therefore, collaboration between investigators is needed to establish large biobanks of well-defined samples. Standardized protocols for biobanking are a prerequisite to ensure that the statistical power gained by increasing the numbers of CSF samples is not compromised by preanalytical factors. Here, a consensus report on recommendations for CSF collection and biobanking is presented, formed by the BioMS-eu network for CSF biomarker research in multiple sclerosis. We focus on CSF collection procedures, preanalytical factors, and high-quality clinical and paraclinical information. The biobanking protocols are applicable for CSF biobanks for research targeting any neurologic disease.
Statics solutions and event correlations: two critical aspects of shear‐wave exploration (1983)

PreviousNext No AccessSEG Technical Program Expanded Abstracts 1983Statics solutions and event correlations: two critical aspects of shear‐wave explorationAuthors: Phil AnnoPhil AnnoConoco Inc.https://doi.org/10.1190/1.1893941 SectionsAboutPDF/ePub ToolsAdd to favoritesDownload CitationsTrack CitationsPermissions ShareFacebookTwitterLinked InRedditEmail Permalink: https://doi.org/10.1190/1.1893941FiguresReferencesRelatedDetailsCited ByTwo-component recording with a p-wave source to improve seismic resolutionSurveys in Geophysics, Vol. 10, No. 2-4 SEG Technical Program Expanded Abstracts 1983ISSN (print):1052-3812 ISSN (online):1949-4645Copyright: 1983 Pages: 646 publication data© 1983 Copyright © 1983 Society of Exploration GeophysicistsPublisher:Society of Exploration Geophysicists HistoryPublished: 24 Mar 2005 CITATION INFORMATION Phil Anno, (1983), "Statics solutions and event correlations: two critical aspects of shear‐wave exploration," SEG Technical Program Expanded Abstracts : 347-349. https://doi.org/10.1190/1.1893941 Plain-Language Summary PDF DownloadLoading ...
Physical characterization of plasmids determining synthesis of a microcin which inhibits methionine synthesis in Escherichia coli (1980)

Plasmid deoxyribonucleic acid (DNA) isolated from each of three antibiotic-resistant clinical strains of Escherichia coli producing the same microcin showed multiple bands upon agarose gel electrophoresis. Transformants selected either for microcin resistance or ampicillin resistance yielded plasmid DNA corresponding in size to only one of the multiple bands. Plasmids, isolated from all three hosts, which determined microcin resistance and microcin production measured about 4 megadaltons by sucrose density, restriction enzyme, and contour length analyses; cleavage of the DNAs by each of eight restriction enzymes showed the same response, and DNA-DNA hybridization indicated complete homology. The antibiotic resistance plasmids of the three host strains were uniformly larger, were of different sizes, and showed different restriction enzyme cleavage patterns. One of these R plasmids (pCP106) also determined the synthesis of the same microcin, and DNA-DNA hybridization studies indicated an approximate 2.4-megadalton homology with the 4-megadalton microcin plasmid pCP101. The microcin plasmids were present at approximately 20 copies per genome equivalent and were nonconjugative, whereas the R plasmids had a copy number of about 1, were conjugative, and could mobilize the microcin plasmid. Microcin plasmid pCP101 showed replication properties similar to those of a number of small multicopy plasmids such as ColE1.
A Recurrent Neural Network for Hierarchical Control of Interconnected Dynamic Systems (2007)

A recurrent neural network for the optimal control of a group of interconnected dynamic systems is presented in this paper. On the basis of decomposition and coordination strategy for interconnected dynamic systems, the proposed neural network has a two-level hierarchical structure: several local optimization subnetworks at the lower level and one coordination subnetwork at the upper level. A goal-coordination method is used to coordinate the interactions between the subsystems. By nesting the dynamic equations of the subsystems into their corresponding local optimization subnetworks, the number of dimensions of the neural network can be reduced significantly. Furthermore, the subnetworks at both the lower and upper levels can work concurrently. Therefore, the computation efficiency, in comparison with the consecutive executions of numerical algorithms on digital computers, is increased dramatically. The proposed method is extended to the case where the control inputs of the subsystems are bounded. The stability analysis shows that the proposed neural network is asymptotically stable. Finally, an example is presented which demonstrates the satisfactory performance of the neural network.
User-guided white balance for mixed lighting conditions (2012)

Proper white balance is essential in photographs to eliminate color casts due to illumination. The single-light case is hard to solve automatically but relatively easy for humans. Unfortunately, many scenes contain multiple light sources such as an indoor scene with a window, or when a flash is used in a tungsten-lit room. The light color can then vary on a per-pixel basis and the problem becomes challenging at best, even with advanced image editing tools. We propose a solution to the ill-posed mixed light white balance problem, based on user guidance. Users scribble on a few regions that should have the same color, indicate one or more regions of neutral color, and select regions where the current color looks correct. We first expand the provided scribble groups to more regions using pixel similarity and a robust voting scheme. We formulate the spatially varying white balance problem as a sparse data interpolation problem in which the user scribbles and their extensions form constraints. We demonstrate that our approach can produce satisfying results on a variety of scenes with intuitive scribbles and without any knowledge about the lights.
Design of a large scale discrete element soil model for high performance computing systems (1996)

The Discrete Element Model (DEM) is an alternative to the classical continuum mechanics approach for problems with flow-like deformations of solids. DEM is especially well-suited for problems such as soil plowing where the media is subject to large discontinuous deformations. The goal of this project was to develop a large-scale three dimensional DEM soil modeling system capable of handling problems with potentially several million particles. This paper discusses the development of that model and the factors driving it toward a High Performance Computing (HPC) solution. It also discusses how work in progress is making use of heterogeneous HPC environments and high speed networks to produce a real-time user interaction and visualization capability.
Adaptive Channel Prediction, Beamforming and Scheduling Design for 5G V2I Network (2017)

One of the important use-cases of 5G network is the vehicle to infrastructure (V2I) communication which requires accurate understanding about its dynamic propagation environment. As 5G base stations (BSs) tend to have multiple antennas, they will likely employ beamforming to steer their radiation pattern to the desired vehicle equipment (VE). Furthermore, since most wireless standards employ an OFDM system, each VE may use one or more sub-carriers. To this end, this paper proposes a joint design of adaptive channel prediction, beamforming and scheduling for 5G V2I communications. The channel prediction algorithm is designed without the training signal and channel impulse response (CIR) model. In this regard, first we utilize the well known adaptive recursive least squares (RLS) technique for predicting the next block CIR from the past and current block received signals (a block may have one or more OFDM symbols). Then, we jointly design the beamforming and VE scheduling for each sub- carrier to maximize the uplink channel average sum rate by utilizing the predicted CIR. The beamforming problem is formulated as a Rayleigh quotient optimization where its global optimal solution is guaranteed. And, the VE scheduling design is formulated as an integer programming problem which is solved by employing a greedy search. The superiority of the proposed channel prediction and scheduling algorithms over those of the existing ones is demonstrated via numerical simulations.