gebhart/patrepeval huggingface dataset:
F390 synthetase and F390 hydrolase from Methanobacterium thermoautotrophicum (strain delta H). (1991)

Factor F390 is the 8-OH adenylated form of the deazaflavin coenzyme F420, which is a central electron carrier in methanogenic bacteria. The enzymes catalysing the formation of F390 from ATP and F420 (F390 synthetase) and its hydrolysis into AMP and F420 (F390 hydrolase) were isolated and partially purified from Methanobacterium thermoautotrophicum. Both enzymes were oxygen-stable. The F390 synthetase tended to coelute with coenzyme F420 reducing hydrogenase during all purification steps. The 30-fold purified enzyme was still contaminated with the hydrogenase. The F390 hydrolase was purified 135-fold to a specific activity of 8.6 mumol/min/mg protein. The colourless enzyme consisted of one polypeptide of approximately 27,000 kd.
Microgrippers: a case study for batch-compatible integration of MEMS with nanostructures (2007)

A batch-compatible integration of micro-electro-mechanical systems (MEMS) with nanoscale objects is demonstrated using the example of a gripping device with nanoscale end-effectors. The proposed nanofabrication technique is based on creating a certain number of nanowires/ribbons on a planar surface, each with a known orientation, using self-assembled crack networks as a template. Since both the location and orientation of the nanowires/ribbons are known, the gripping device can be lithographically transferred on to the substrate ensuring full integration of MEMS with nanoscale end-effectors. Two nanowires/ribbons are attached to each MEMS solely at desired locations with a desired inclination in contrast to most other self-assembly-based techniques of growing nanoscale objects. Challenges unique to MEMS fabrication are encountered raising process requirements beyond those of the simple electrode–nanowire integration. With issues related to yield and end-effector geometry remaining to be studied further, the method proposes a true batch fabrication for nanoscale objects and their integration with MEMS, which does not require the use of nano-lithographic techniques.
Synthesis and Characterization of a Series of Annelated Benzotriazole Based Polymers with Variable Bandgap (2012)

Here we report the synthesis and characterization of a series of annelated benzotriazole based polymers with variable bandgap. Benzobistriazole monomers reported by us previously were desymmetrized using partial reduction ring opening followed by ring closure to produce a wide range of annelated benzotriazole based monomers. These monomers were co-polymerized with a fluorene moiety to give polymers with bandgaps ranging from 1.16 to 2.41 eV.
The Sodium∣Tin Liquid-Metal Cell (1962)

Preliminary studies of the liquid‐metal cell have shown it to possess promising characteristics for application to the conversion of thermal energy. Polarization effects commonly associated with electrochemical cells are essentially absent; charge‐discharge curves are straight lines passing through the open‐circuit intercept. The conductivity of the fused electrolyte, 2.3 mhos, provides for low internal losses. Nongalvanic losses occur causing an apparent loss of reactants to the extent of 0.018 amp/cm2. It is shown that a cell constructed of the materials and electrolyte employed in the study should allow operation at 0.7 amp/cm2 at maximum power and that the coulombic efficiency would be 95% when continuously operated at this current density during balanced charge and discharge periods.
Robust Speech Recognition Using Generative Adversarial Networks (2018)

This paper describes a general, scalable, end-to-end framework that uses the generative adversarial network (GAN) objective to enable robust speech recognition. Encoders trained with the proposed approach enjoy improved invariance by learning to map noisy audio to the same embedding space as that of clean audio. Unlike previous methods, the new framework does not rely on domain expertise or strong assumptions, and directly encourages robustness in a data-driven way. We show the new approach improves simulated far-field speech recognition of vanilla sequence-to-sequence models without specialized front-ends or preprocessing.
Detection of low-molecular-weight heparin oligosaccharides (Fragmin™) using surface plasmon resonance (1998)

During the last decades there has been a growing realization of the central biological role that oligosaccharides and oligosaccharide-protein interactions play. One of the most striking examples is the use of heparin and low-molecular-weight heparin oligosaccharides (Fragmin) to modify blood coagulation. Several monoclonal antibodies directed against glycosaminoglycan structures have been produced. However, their clinical use is limited by the difficulty of detection systems for oligosaccharides. In the present study we used a monoclonal antibody directed against heparin oligosaccharides prepared by partial nitrous acid deamination of heparin. Using a biosensor (BIAcore), purified antibody was immobilized on sensor surfaces and binding of oligosaccharide was measured by surface plasmon resonance. Using this technique, it was possible to quantitate low-molecular-weight heparin oligosaccharides in nanomolar concentrations.
Discrete Event Simulation Of Networked Print Production (2008)

In print media industries networked production gains increasing importance. The relatively young XML based communication standard (JDF/JMF) allows to specify workflow models and data exchange. The proposed concept of a simulation framework for modelling of networked print production is based on an object-oriented approach implementing modules for the resources and controls applied in this particular industry. The framework uses the JavaSim-simulation library and shall enable modelling of networked print production using the same JDF-/JMF-communication algorithms as applied in real-world system communication. This approach allows to integrate the framework in a digital factory concept using simulation for the factory planning phase and also for the operative planning and control of networked print production.
Sequestosome 1/p62 Is a Polyubiquitin Chain Binding Protein Involved in Ubiquitin Proteasome Degradation (2004)

Herein, we demonstrate that the ubiquitin-associated (UBA) domain of sequestosome 1/p62 displays a preference for binding K63-polyubiquitinated substrates. Furthermore, the UBA domain of p62 was necessary for aggregate sequestration and cell survival. However, the inhibition of proteasome function compromised survival in cells with aggregates. Mutational analysis of the UBA domain reveals that the conserved hydrophobic patch MGF as well as the conserved leucine in helix 2 are necessary for binding polyubiquitinated proteins and for sequestration-aggregate formation. We report that p62 interacts with the proteasome by pull-down assay, coimmunoprecipitation, and colocalization. Depletion of p62 levels results in an inhibition of ubiquitin proteasome-mediated degradation and an accumulation of ubiquitinated proteins. Altogether, our results support the hypothesis that p62 may act as a critical ubiquitin chain-targeting factor that shuttles substrates for proteasomal degradation.
Molecular genetic differentiation of yeast α-glucosidases: Maltase and isomaltase (2012)

The review is dedicated to the molecular genetics of yeast α-glucosidases: the maltase and isomaltase isozymes. Comparative analysis of the genome sequence of the yeast Saccharomyces cerevisiae S288C using the isomaltase gene of Saccharomyces cerevisiae ATCC56960 revealed a new family of polymeric isomaltase genes IMA1-IMA5 located in the telomeric regions of chromosomes VII, XV, IX, X, and X, respectively. The isomaltase overexpression and substrate specificity are discussed.
On correlation matching approaches to blind multipath parameter estimation in MC-DS-CDMA ZP systems (2009)

In this paper, correlation matching techniques are employed in order to blindly estimate multipath-parameters of r a Zero adeP MC-DS-CDMA (multi carrier DSCDMA) system. Using only the spreading code of the user of interest, a technique is proposed to identify the impulse response of the multipath channel in the uplink transmission. For each user, the correlation matrix of the despreaded received data sequence is matched against its sample-average estimate. By minimizing the square of the Frobenius norm of the resulting error matrix, the channel parameters can be estimated up to a complex scalar ambiguity. Extensive simulations indicate that the proposed method has performance comparable to existing subspace methods but at a lower computational cost.
Fabrication and testing of 1.4-m convex off-axis aspheric optical surfaces (2009)

New developments in fabrication and testing techniques at the College of Optical Sciences, University of Arizona have allowed successful completion of 1.4-m diameter convex off-axis aspherics. The optics with up to 300 &#956;m aspheric departure were finished using a new method of computer controlled polishing and measured with two new optical tests: the Swingarm Optical CMM (SOC) and a Fizeau interferometer using a spherical reference surface and CGH correction. This paper shows the methods and equipment used for manufacturing these surfaces.
Silver nano particle incorporated Ti metal prepared by chemical treatment for antibacterial and corrosion resistance study (2013)

In the present study, attempts are made to incorporate silver nano particles into Ti metal by chemical treatment where first the Ti metals are treated with H2O2 or NaOH solution separately and then in AgNO3 solution. SEM and TEM results showed that fine nano network structures were uniformly formed by both the H2O2 and NaOH treatment. Raman result confirmed these networks to be hydrated Ti and sodium hydrogen titanate respectively. Therefore, formed nano network structures were successfully incorporated with silver nano particles of 5–10 nm in size by the subsequent AgNO3 solution. Electrochemical studies showed high corrosion resistance of Ag incorporated Ti metal compared to H2O2 or NaOH treated Ti metals. Antibacterial study of Ti metal subjected to both H2O2–AgNO3 and NaOH–AgNO3 showed zone of inhibition in Staphylococcus aureus compared to only NaOH or H2O2 or untreated specimens. Steady release of silver ions from thus treated Ti metals into simulated body fluid as measured by AAS coupled with good corrosion resistance property suggests this method to be useful in various biomedical implants.
DisCo (2016)

We present DisCo, a novel display-camera communication system. DisCo enables displays and cameras to communicate with each other while also displaying and capturing images for human consumption. Messages are transmitted by temporally modulating the display brightness at high frequencies so that they are imperceptible to humans. Messages are received by a rolling shutter camera that converts the temporally modulated incident light into a spatial flicker pattern. In the captured image, the flicker pattern is superimposed on the pattern shown on the display. The flicker and the display pattern are separated by capturing two images with different exposures. The proposed system performs robustly in challenging real-world situations such as occlusion, variable display size, defocus blur, perspective distortion, and camera rotation. Unlike several existing visible light communication methods, DisCo works with off-the-shelf image sensors. It is compatible with a variety of sources (including displays, single LEDs), as well as reflective surfaces illuminated with light sources. We have built hardware prototypes that demonstrate DisCo’s performance in several scenarios. Because of its robustness, speed, ease of use, and generality, DisCo can be widely deployed in several applications, such as advertising, pairing of displays with cell phones, tagging objects in stores and museums, and indoor navigation.
Design and performance of a step and repeat imprinting machine (2003)

Molecular Imprints, Inc. (MII) has developed the ImprioTM 100, which is the first commercial step and repeat imprint lithography system with field-to-field alignment. This system is designed to implement the UV curable nano-replication capability of the Step and FlashTM Imprint Lithography (S-FILTM) process. To-date, the Imprio 100 system has demonstrated: 1) Full 200 mm wafer coverage with lithographically useful patterning; 2) Full wafer residual thickness control to enable practical etching (thickness variation < 50 nm, 3 sigma); 3) Field edge control compatible with 50 um kerf regions. 4) Multi-day CD uniformity measured on an analytical SEM < 2 nm, 3 sigma with no process adjustments; 5) Etch pattern transfer including break-through etch of residual material, followed by a bi-layer etch through thick planarization layers; 6) Initial level-to-level alignment target acquisition with accuracy of better than 100 nm. 7) Low air borne particle counts in tool microenvironment consistent with Class 0.1 while imprinting.
Genome‐Based Identification of a Plant‐Associated Marine Bacterium as a Rich Natural Product Source (2018)

The large number of sequenced bacterial genomes provides the opportunity to bioinformatically identify rich natural product sources among previously neglected microbial groups. Testing this discovery strategy, unusually high biosynthetic potential was suggested for the Oceanospirillales member Gynuella sunshinyii, a Gram-negative marine bacterium from the rhizosphere of the halophilic plant Carex scabrifolia. Its genome contains numerous unusual biosynthetic gene clusters for diverse types of metabolites. Genome-guided isolation yielded representatives of four different natural product classes, of which only alteramide A was known. Cytotoxic lacunalides were identified as products of a giant trans-acyltransferase polyketide synthase gene cluster, one of six present in this strain. Cytological profiling against HeLa cells suggested that lacunalide A disrupts CDK signaling in the cell cycle. In addition, chemical studies on model compounds were conducted, suggesting the structurally unusual ergoynes as products of a conjugated diyne-thiourea cyclization reaction.
Groupwise successive interference cancellation for MIMO communication systems (2008)

This paper proposes a modified detection scheme which reduces the performance gap between the V-BLAST MMSE detection algorithm and the maximum likelihood (ML) detection. In V-BLAST detection algorithm error propagation due to unreliable decision feedback severely limits the system performance. Here, we propose a new detection scheme that reduces the destructive effect of error propagation to a great extent. In our proposed detection algorithm, we have used ML detection to jointly estimate two strongest sub-streams of the transmitted data. For this purpose, we find an optimum beam-forming matrix to minimize the power of cumulative noise and the interfering sub-streams. It is shown that the proposed scheme outperforms the conventional V-BLAST MMSE algorithm with moderate increase in computational complexity. Nevertheless, our study shows that the complexity of our proposed algorithm is almost negligible compared to maximum likelihood detection.
The intracellular cytoplasmic domain of the Alzheimer's disease amyloid precursor protein interacts with phosphotyrosine‐binding domain proteins in the yeast two‐hybrid system (1996)

We have used the yeast two-hybrid system to screen for proteins that interact with the carboxy-terminal domain of APP. Six different clones were isolated and sequence analyses revealed that they encoded domains of a previously described neuronal protein Fe65, a homologue of Fe65 and a homologue of protein X11. All of these proteins contain one or more phosphotyrosine binding (PTB) domains. PTB domain proteins bind to the sequence Asn-Pro-X-Tyr when the Tyr is phosphorylated and are believed to function in signal transduction. APP contains such a motif. These results are consistent with a role for APP in signal transduction mechanisms.
Oxidative Stress of Newborn (2012)

Free radicals are highly reactive molecules containing one or more unpaired electrons. They donate or abstract electrons from other molecules in an attempt to pair their electrons and generate a more stable species. Oxygen-derived reactants collectively termed reactive oxygen species (ROS) as well as reactive nitrogen species (RNS) are normally produced in living organisms. When produced in excess, they are important mediators of cell and tissue injury [Halliwell, B. (1999), Fridovich, I. (1998), Gitto, E. et al. (2002)]. The resulting damage is referred to as oxidative stress. Free radicals are highly unstable and several enzymes and small-molecular-weight molecules with antioxidant capabilities protect against them [Halliwell, B. (1992)]; these protective molecules are part of the antioxidative defence system. There is a critical balance between free radical generation and antioxidant defences. Free radical reactions lead to the oxidation of lipids, proteins, polysaccharides and to DNA damage (fragmentation, base modifications and strand breaks); as a consequence, radicals have a wide range of biologically toxic effects [Saugstad, OD. (1996), Sarker, AH. et al. (1995)]. The generation of both ROS and RNS are summarised in figure 1.
Delineation of a duplication map of chromosome 3q: A new case confirms the exclusion of 3q25‐q26.2 from the duplication 3q syndrome critical region (1997)

We report on the clinical, cytogenetic, and molecular characterization of a propositus and his mother with a duplication of 3q25–q26, minor anomalies, and mental retardation. The duplication, detected by cytogenetic analysis, was confirmed and delineated by comparative genomic hybridization and fluorescence in situ hybridization using probes previously mapped to the region. Comparison of the mapping data obtained in these patients and those obtained in patients that present with a typical dup(3q) syndrome phenotype shows that the segment duplicated in these patients lies proximally to the reported dup(3q) syndrome critical region, thus explaining the absence in our patients of the characteristic phenotype of dup(3q) syndrome patients. Accumulation of mapping data in patients with segmental duplications of 3q will eventually allow us to build a duplication map of the region and a genotype-phenotype correlation. Am. J. Med. Genet. 68:428–432, 1997. © 1997 Wiley-Liss, Inc.
The hidden pub/sub of spotify (2013)

Spotify is a peer-assisted music streaming service that has gained worldwide popularity. Apart from providing instant access to over 20 million music tracks, Spotify also enhances its users' music experience by providing various features for social interaction. These are realized by a system using the widely-adopted pub/sub paradigm. In this paper we provide an interesting case study of a hybrid pub/sub system designed for real-time as well as offline notifications for Spotify users. We firstly describe a multitude of use cases where pub/sub is applied. Secondly, we study the design of its pub/sub system used for matching, disseminating and persisting billions of publications every day. Finally, we study pub/sub traffic collected from the production system, derive characterizations of the pub/sub workload, and show some interesting findings and trends.
Characteristics and long-term outcomes of dogs with gastroesophageal intussusception (2020)

Treatment should be considered for dogs with GEI given the high rate of survival to discharge and median survival time. Although persistent regurgitation was common after treatment, a satisfactory outcome was possible with medical management, including managed feedings and medications.
Organ-Specific Gene Expressions in C57BL/6 Mice after Exposure to Low-Dose Radiation (2006)

The possibility that radiation-induced alterations in gene expression are tissue specific and are related to apoptosis was examined using samples from brain, heart, lung, spleen and intestine from female C57BL6 mice after exposure to 0.2 Gy radiation. Apoptosis was the highest in spleen and intestine, moderate in lung, and absent in brain and heart. However, the mRNA expression of Trp53 and Cdkn1a (p21) after irradiation was not different among the organ types, and immunohistochemistry revealed that all the organs expressed these two proteins after irradiation. When expression patterns of 23 genes in the organs were examined by RT-PCR, neogenine, Apo1, nuclease sensitive element binding protein 1, syntaxin, cyclin G1, hNOP56, paraoxonase and glutathione peroxidase were overexpressed after irradiation in all the organs sampled, suggesting them as universal exposure markers for low-dose radiation. Sialyltransferase may be a candidate for radiation detection in spleen and intestine, which are radiosensitive organs. Because Sod1 (Cu/ZnSOD) and alphaB crystalline were expressed only in spleen, and protein tyrosine kinase and platelet membrane glycoprotein lib were expressed in both spleen and lung, these genes may also be potential markers for detection of radiation exposure, especially low-dose radiation, in these tissues. These data suggested possible tissue-specific markers of low-dose radiation exposure and suggested potential novel genetic modifiers of radiation response.
Test Generation for LSI: A Case Study (1984)

A new automatic test generation approach for LSI circuits has been presented in the companion papers [1] [2]. In this paper we generate tests for a typical LSI circuit using the new approach. The goal of this study is to gain insight into the problems involved in using the test generation procedures. A formal model C for a 1-bit microprocessor slice is defined which has all the main features of commercially available bit slices such as the Am2901. The circuit C is modeled as a network of interconnected functional modules. The functions of the individual modules are described using binary decision diagrams, or equivalently using experiments derived from the diagrams. Using our test generation technique, we derive tests for the circuit C capable of detecting various faults covered by our fault model [1]. It is shown that backtracking is rarely needed while generating tests for C. Also, we show that generating a multiple vector test is not required for any of the faults considered in the study. The length of the circuit's test sequence is significantly reduced using the fault collapsing method. A discussion of how to model some of the features of LSI circuits that are not included in the circuit C is presented. A comparison between the length of the test generated by our method and other manually-generated ones is also presented.
Safety and Immunogenicity of Adenovirus and Poxvirus Vectored Vaccines against a Mycobacterium Avium Complex Subspecies (2021)

Heterologous prime-boost strategies are known to substantially increase immune responses in viral vectored vaccines. Here we report on safety and immunogenicity of the poxvirus Modified Vaccinia Ankara (MVA) vectored vaccine expressing four Mycobacterium avium subspecies paratuberculosis antigens as a single dose or as a booster vaccine following a simian adenovirus (ChAdOx2) prime. We demonstrate that a heterologous prime-boost schedule is well tolerated and induced T-cell immune responses.