gebhart/patrepeval huggingface dataset:
Identification of a 60 kb region of the chromosome of Pseudomonas fluorescens NCIB 10586 required for the biosynthesis of pseudomonic acid (mupirocin) (1995)

Pseudomonic acid (mupirocin) produced by Pseudomonas fluorescens is a polyketide antibiotic which blocks isoleucyl-tRNA synthetase. Knowledge of the biosynthetic pathways leading to pseudomonic acid production may help in engineering related antibiotics with other useful properties. To help define these pathways, we have isolated 13 non-producing mutants using Tn5 and Tn1725 mutagenesis. Seven of the Tn5 insertions mapped within a 55 kb region. The remaining insertions, and one gene encoding resistance to pseudomonic acid, mapped at separate locations. DNA that overlapped the seven clustered Tn5 insertions was isolated on a series of clones, extending over a region in excess of 60 kb. Non-producing mutants generated via gene disruption suggest that the biosynthetic cluster extends throughout this region.
Micro-CT evaluation of the effect of material, donor and implantation site variability on the bone forming capacity of progenitor cell/CaP-collagen constructs implanted ectopically in nude mice (2013)

peer reviewed
Chemical Processing in high-pressure aqueous environments. 3. Batch reactor process development experiments for organics destruction (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTChemical Processing in high-pressure aqueous environments. 3. Batch reactor process development experiments for organics destructionDouglas C. Elliott, L. John Jr. Sealock, and Eddie G. BakerCite this: Ind. Eng. Chem. Res. 1994, 33, 3, 558–565Publication Date (Print):March 1, 1994Publication History Published online1 May 2002Published inissue 1 March 1994https://pubs.acs.org/doi/10.1021/ie00027a012https://doi.org/10.1021/ie00027a012research-articleACS PublicationsRequest reuse permissionsArticle Views691Altmetric-Citations95LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Production and Applications of Metal-cluster-complex Ion Beams (2009)

A new ion source using massive molecules called metal cluster complexes has been developed. Metal cluster complexes are chemically-synthesized organometallic compounds, which have a wide range of chemical compositions with high molecular weight. The ion source is compact enough to be installed in commonly used secondary ion mass spectrometry (SIMS) systems. Using the ion source, sputtering characteristics of silicon bombarded with normally incident Ir4(CO)7+ ions were investigated. Experimental results showed that the sputtering yield at 10 keV was 36, which is higher than that with Ar+ ions by a factor of 24. In addition, SIMS analyses of boron-delta-doped silicon samples and organic films of poly(methyl methacrylate) (PMMA) were performed. Compared with conventional O2+ ion beams, Ir4(CO)7+ ion beams improved depth resolution by a factor of 2.5 at the same irradiation conditions; the highest depth resolution of 0.9 nm was obtained at 5 keV, 45° with oxygen flooding of 1.3×10-4 Pa. Furthermore, experimental results confirmed that Ir4(CO)7+ ion beams significantly enhanced secondary ion intensity in high-mass region.
<title>Region-Of-Interest X-Ray Tomography (ROIT)</title> (1979)

Region-of-interest tomography (ROIT) reconstructs a convex region within an object on a specified sampling grid with relatively small dose and higher resolution. In this paper, we introduce a new algorithm for ROIT. This algorithm is based on a variable sampling scheme in which the external region is sampled coarsely whereas a finer sampling is used for the region of interest. After the data is collected, the coarsely sampled data is interpolated at the sampling interval as the finely sampled data. The interpolated coarsely sampled data and the finely sampled data are assimilated and entered into a reconstruction of the ROI. We have obtained encouraging results in experimental computer simulations of our technique. These results are summarized in this paper.
Into the groove:instructive conductive silk films with topological guidance cues (2015)

Instructive biomaterials capable of controlling the behaviour of the cells are particularly interesting scaffolds for tissue engineering and regenerative medicine. Novel biomaterials are particularly important in societies with rapidly aging populations, where demand for organ/tissue donations is greater than their supply. Herein we describe the preparation of electrically conductive silk film-based nerve tissue scaffolds that are manufactured using all aqueous processing. Aqueous solutions of Bombyx mori silk were cast on flexible polydimethylsiloxane substrates with micrometer-scale grooves on their surfaces, allowed to dry, and annealed to impart β-sheets to the silk which assures that the materials are stable for further processing in water. The silk films were rendered conductive by generating an interpenetrating network of polypyrrole and polystyrenesulfonate in the silk matrix. Films were incubated in an aqueous solution of pyrrole (monomer), polystyrenesulfonate (dopant) and iron chloride (initiator), after which they were thoroughly washed to remove low molecular weight components (monomers, initiators, and oligomers) and dried, yielding conductive films with sheet resistances of 124 ± 23 kΩ square-1. The micrometer-scale grooves that are present on the surface of the films are analogous to the natural topography in the extracellular matrix of various tissues (bone, muscle, nerve, skin) to which cells respond. Dorsal Root Gangions (DRGs) adhere to the films and the grooves in the surface of the films instruct the aligned growth of processes extending from the DRGs. Such materials potentially enable the electrical stimulation of cells cultured on them, and future in vitro studies will focus on understanding the interplay between electrical and topographical cues on the behaviour of cells cultured on them.
Integrated Access and Backhaul Optimization for Millimeter Wave Heterogeneous Networks (2019)

By allowing a large number of links to be simultaneously transmitted, directional antenna arrays with beamforming have been envisioned as a promising candidate to reach unprecedented levels of spatial isolation. To achieve the high efficiency of spatial reuse in improving system performance, an optimization problem that maximizes the achievable data rate of a multihop heterogeneous network, which incorporates the concept of integrated access and backhaul and supports both downlink and uplink transmissions on access and backhaul links, is formulated. The optimization problem is then systematically decomposed and demonstrated as NP-hard, and a heuristic joint scheduling and resource allocation algorithm is proposed to maximize the achievable data rate. In addition, an efficient dynamic routing algorithm is proposed to further enhance the data rate. With extensive system-level simulations, it is demonstrated that the proposed algorithms achieve significant gain over benchmark schemes, in terms of data rate, and closely approach the theoretical optimum, yet with lower latency. Besides, the proposed algorithms enable a flexible adjustment of downlink and uplink transmission duration allocation and support both half- and full-duplex modes with considerable performance enhancement. In particular, the proposed algorithms are capable of fulfilling different performance requirements for both point-to-point and point-to-multipoint communications.
Newborn Screening for Lysosomal Storage Disorders: Quo Vadis? (2016)

Screening newborns for lysosomal storage disorders (LSDs)7 has gained credence due to the increasing number of therapeutic options available and evidence that early intervention significantly improves outcomes. LSDs are progressive conditions that are typically asymptomatic at birth, potentially making them ideal candidates for newborn screening (NBS). Over the past decade, the development of high-throughput assays with multiplexing capabilities for use with dried blood spot (DBS) samples has facilitated several pilot NBS programs for LSDs worldwide. Such programs have been invaluable in providing knowledge of these disorders, particularly in regards to their true incidence and the overall feasibility of widespread population screening for LSDs. Despite these endeavors, implementation of NBS for LSDs is still debated and there are lingering concerns in some quarters. In the US, the US Department of Health and Human Services Secretary's Advisory Committee on Heritable Disorders in Newborns and Children (SACHDNC) is responsible for reviewing evidence and making recommendations for proposed conditions to be added to the Recommended Universal Screening Panel (RUSP). However, each state determines whether or not it will follow the recommendations. Outside the US, the process is less systematic, and regional newborn screening committees determine which disorders should be added to a panel. The original criteria of Wilson and Jungner (WHO; 1968) for population screening should be used wherever possible as a guide. In general, disorders are considered if they meet criteria based on the following: screening should provide clear benefits to the patient; testing capabilities should be in place; and effective treatments should be available. Despite the technical advances achieved in assay development, there are concerns about the appropriateness of NBS for some LSDs on the basis of the interpretation of results, the need for confirmatory testing, availability of effective therapies, and the overall costs involved. At present, the SACHDNC has recommended …
Efficient Model-based Tonemapping of High Dynamic Range Gigapixel Images (2013)

We present a technique to address the tonemapping of high dynamic range (HDR) gigapixel images. The proposed method relies on extracting low-dimensional models from low-resolution proxy images, and can be efficiently implemented in a parallel manner.
Magnetic filed effect on sensitized photocrosslinking reaction of azidomethylated polytsyrene (1989)

Abstract Characteriscs curves for the lithographic sensitivity of poly(styrene‐co‐vinylblenzyl azide) (AZMA) with such sensitizer as 2,4‐diisopentvlthioxanthone (DITX), 2‐chlorothioxanthone (CTX), and Michier's ketone wer emeasured in the basence and in the presence of a magnetic filed. By the application of a magnetic field, the get fraction increases, and efficiency of photocrosslink formation increases by ≈ 45% (at 0.1 T) for AZMA/DITX and by ≈ 20% (at 0.5 T) for AZMS/CTX. Senstization mechanism was investigated by measuring UV, IR, and FT‐IR spectra, and AZMS is found to be sensitized effectively by DITX and CTX through the triplet energy transfer, and to produce the triplet nitrene as an intermediate. The magnetic field effect on photocrosslink formation of AZMS/sensitizer systems is interpreted in term of the radical pair model of intermediate species which is formed by hydrogen abstraction of the nitrene from the sensitizer.
Coordination of opposing sex-specific and core muscle groups regulates male tail posture during Caenorhabditis elegansmale mating behavior (2009)

Our results demonstrated that coordination of opposing sex-specific and core muscle groups, through the activity of multiple neurotransmitters, is required for regulation of male tail posture during mating. We have provided a simple model for regulation of male tail posture that provides a foundation for studies of how genes, molecular pathways, and neural circuits contribute to sensory regulation of this motor behavior.
Gas Microsensor Technology (2012)

This chapter contains sections titled: Introduction Metal oxide gas sensor technology New generation of wireless gas sensors Conclusion Bibliography
Abrasives (2022)

The article contains sections titled: 1 Introduction 2 Grain Types 2.1 Natural Abrasives 2.1.1 Quartz 2.1.2 Garnet 2.1.3 Corundum and Emery 2.1.4 Natural Diamond 2.2 Manufactured Abrasives 2.2.1 Fused Aluminum Oxides 2.2.1.1 Raw Materials 2.2.1.2 Furnace Designs 2.2.1.3 Fused Alumina Types 2.2.2 Fused Zirconia–Aluminas 2.2.3 Sintered Aluminas 2.2.4 Silicon Carbide 2.2.5 Boron Carbide 2.2.6 Diamond 2.2.7 Cubic Boron Nitride (cBN) 3 Grain Sizing and Testing 4 Physical and Chemical Properties 4.1 Hardness 4.2 Friability 4.3 Fracture Strength 4.4 Fracture Toughness 4.5 Resistance to Attrition or Plastic Flow 5 Loose Abrasive Applications 6 Bonded Abrasive Products 6.1 Vitrified Bonds and Vitrified Bonded Abrasive Products 6.1.1 Vitrified Microstructures 6.1.2 Mix Preparation, Forming, and Finishing 6.2 Organic Bonds and Organic Bonded Abrasive Products 6.3 Metal Bonds and Metal-Bonded Abrasive Products 7 Coated Abrasives Products 7.1 Components and Manufacture 7.2 Nonwoven Abrasive Products 8 Economic Aspects and Trends in Abrasive Products Manufacturing 9 Safety References
Parallel Attention Forcing for Machine Translation (2022)

Attention-based autoregressive models have achieved state-of-the-art performance in various sequence-to-sequence tasks, including Text-To-Speech (TTS) and Neural Machine Translation (NMT), but can be difficult to train. The standard training approach, teacher forcing, guides a model with the reference back-history. During inference, the generated back-history must be used. This mismatch limits the evaluation performance. Attention forcing has been introduced to address the mismatch, guiding the model with the generated back-history and reference attention. While successful in tasks with continuous outputs like TTS, attention forcing faces additional challenges in tasks with discrete outputs like NMT. This paper introduces the two extensions of attention forcing to tackle these challenges. (1) Scheduled attention forcing automatically turns attention forcing on and off, which is essential for tasks with discrete outputs. (2) Parallel attention forcing makes training parallel, and is applicable to Transformer-based models. The experiments show that the proposed approaches improve the performance of models based on RNNs and Transformers.
Reversible monomer-oligomer transition in human prion protein (2008)

The structure and the dissociation reaction of oligomers PrPoligo from reduced human prion huPrPC (23-231) have been studied by 1H-NMR and tryptophan fluorescence spectroscopy at varying pressure, along with circular dichroism and atomic force microscopy. The 1H-NMR and fluorescence spectral feature of the oligomer is consistent with the notion that the N-terminal residues including all seven Trp residues, are free and mobile, while residues 105~210, comprising the AGAAAAGA motif and S1-Loop-HelixA-Loop-S2-Loop-HelixC, are engaged in intra- and/or inter-molecular interactions. By increasing pressure to 200 MPa, the oligomers tend to dissociate into monomers which may be identified with PrPC*, a rare metastable form of PrPC stabilized at high pressure (Kachel et al. BMC. Struct. Biol. 6, 16). The results strongly suggest that the oligomeric form PrPoligo is in dynamic equilibrium with the monomeric forms via PrPC*, namely huPrPC ⇄ huPrPC* ⇄ huPrPoligo.
Photocatalytic Electron-Transfer Oxidation of Triphenylphosphine and Benzylamine with Molecular Oxygen via Formation of Radical Cations and Superoxide Ion (2006)

Abstract Photooxygenation of triphenylphosphine (Ph3P) to triphenylphosphine oxide (Ph3P=O) with molecular oxygen (O2) occurs under photoirradiation of 9-mesityl-10-methylacridinium perchlorate ([Acr+–Mes]ClO4−) which acts as an efficient electron-transfer photocatalyst. Photooxidation of benzylamine (PhCH2NH2) with O2 also occurs efficiently under photoirradiation of Acr+–Mes to yield PhCH2N=CHPh and hydrogen peroxide (H2O2). Each photocatalytic reaction is initiated by intramolecular photoinduced electron transfer from the Mes moiety to the singlet excited state of the Acr+ moiety to produce the electron-transfer state (Acr•–Mes•+). The Mes•+ moiety oxidizes Ph3P and PhCH2NH2 to produce the radical cations (Ph3P•+ and PhCH2NH2•+, respectively), whereas the Acr• moiety reduces O2 to O2•−. The produced Ph3P•+ binds with O2•− as well as O2, leading to the oxygenated product (Ph3P=O). On the other hand, proton transfer from PhCH2NH2•+ to O2•− occurs, followed by hydrogen transfer, leading to the dehydrogenated dimer product, PhCH2N=CHPh. In each case, the radical intermediates were detected by laser flash photolysis and ESR measurements to clarify the photocatalytic mechanism.
Mice with an aspartylglucosaminuria mutation similar to humans replicate the pathophysiology in patients (1998)

Aspartyglucosaminuria (AGU) is a lysosomal storage disease with autosomal recessive inheritance that is caused by deficient activity of aspartylglucosaminidase (AGA), a lysosomal enzyme belonging to the newly described enzyme family of N-terminal hydrolases. An AGU mouse model was generated by targeted disruption of the AGA gene designed to mimic closely one human disease mutation. These homozygous mutant mice have no detectable AGA activity and excrete aspartylglucosamine in their urine. Analogously to the human disease, the affected homozygous animals showed storage in lysosomes in all analyzed tissues, including the brain, liver, kidney and skin, and lysosomal storage was already detected in fetuses at 19 days gestation. Electron microscopic studies of brain tissue samples demonstrated lysosomal storage vacuoles in the neurons and glia of the neocortical and cortical regions. Magnetic resonance images (MRI) facilitating monitoring of the brains of living animals indicated cerebral atrophy and hypointensity of the deep gray matter structures of brain-findings similar to those observed in human patients. AGU mice are fertile, and up to 11 months of age their movement and behavior do not differ from their age-matched littermates. However, in the Morris water maze test, a slow worsening of performance could be seen with age. The phenotype mimics well AGU in humans, the patients characteristically showing only slowly progressive mental retardation and relatively mild skeletal abnormalities.
Restoration of contact inhibition in human glioblastoma cell lines after MIF knockdown (2009)

Our study adds another puzzle stone to the role of MIF in tumor growth and progression by showing the importance of MIF for overcoming contact inhibition.
Sequential Photoactivation of Self-Assembled Monolayers to Direct Cell Adhesion and Migration (2019)

Dynamic substrates for cell culture control the spatial and temporal presentation of extracellular matrix ligands that interact with adherent cells. This paper reports a photoactive surface chemistry that can repeatedly activate regions of the substrate for cell adhesion, spreading, and migration. The approach uses self-assembled monolayers presenting the integrin ligand RGD that is caged with a nitrophenyl-based photoprotecting group. The group is also modified with a maltoheptaose oligosaccharide to prevent nonspecific protein adsorption and cell attachment. The peptide is uncaged when irradiated with a laser source at 405 nm on a microscope to reveal micron-size regions for single cell attachment. This method is applied to studies of gap junction-mediated communication between two neighboring cells and requires the patterning of an initial receiver cell population and then the patterning of a second sender population to give a culture wherein each pair of cells are separated by 30 μm. Finally, activation of the region between the cells permits cell-cell contact and gap junction assembly between the sender and receiver cells. This example demonstrates the broad relevance of this method to studying complex phenotypes in cell culture.
Comparison of the effects of the antiestrogens EM-800 and tamoxifen on the growth of human breast ZR-75-1 cancer xenografts in nude mice. (1998)

Although estrone supplementation in ovariectomized (OVX) nude mice bearing ZR-75-1 xenografts caused a 365% increase in average tumor size during the 4-month treatment period, administration of the antiestrogen EM-800 at the daily oral doses of 50, 150, or 400 microg completely prevented estrogen-stimulated tumor growth. At the same doses of tamoxifen, tumor size was inhibited to 189, 117, and 120% above pretreatment values. However, when EM-800 (150 microg/day) was added to the daily 150- and 400-microg doses of tamoxifen, final tumor size was decreased further to 12 and 38% above pretreatment values, respectively. EM-800 (400 microg daily) administered to estrone-supplemented OVX mice caused complete, partial, and stable responses in 11, 22, and 49% of estrone-stimulated tumors, respectively, whereas 19% (7 of 37) progressed. At the same dose of tamoxifen, the corresponding responses were 3% (complete response), 3% (partial response), and 25% (no change), whereas 69% (22 of 32) of tumors progressed. In the absence of estrone supplementation, tamoxifen (400 microg) alone administered to OVX mice stimulated tumor growth to 161% compared with initial size whereas the same dose of EM-800 reduced tumor size by 55%, a value superimposable to that observed in OVX control animals. The agonistic effect of tamoxifen is thus illustrated by the observation that 73% of tumors progressed when tamoxifen was administered alone to OVX animals whereas no tumor progressed with EM-800. The present data strongly suggest that at least part of the initial lack of response and resistance to tamoxifen during tamoxifen treatment in women is due to the estrogenic activity of this compound, whereas the new antiestrogen EM-800 exerts pure antagonistic action.
Limitations of the modified shift-and-ratio technique for extraction of the bias dependence of L/sub eff/ and R/sub sd/ of LDD MOSFETs (2000)

The purpose of this study, based on two-dimensional (2-D) simulation, was to scale effective channel length and series resistance extraction routines for sub-100 nm CMOS devices. We demonstrate that L/sub eff/- and R/sub sd/-gate-bias dependence extracted using a modified shift-and-ratio (M-S&R) method may not give accurate results because of a nonnegligible effective mobility dependence on gate bias. Using a reasonable gate bias-dependent mobility model, one observes a finite V/sub g/ dependence of L/sub eff/ and R/sub sd/ even for devices with degenerately doped drain junction.
Influence of the Feedback Filter on the Response of the Pulsed Digital Oscillator (2007)

This paper introduces a new feedback topology for the Pulsed Digital Oscillator (PDO) and compares it to the classical topology. The `classic' or single feedback topology, introduced in previous works, shows a strong behavior dependence on the damping losses in the MEMS resonator. A new double feedback topology is introduced here in order to help solving this problem. Comparative discrete-time simulations and preliminary experimental measurements have been carried out for both topologies, showing how the new double feedback topology may increase PDO performance for some frequency ranges.
The use of autologous skeletal muscle progenitor cells for adjunctive treatment of presumptive urethral sphincter mechanism incompetence in female dogs (2022)

Urethral submucosal injection of skMPC can be used adjunctively to improve continence in dogs with difficult to manage USMI. The procedure is labor intensive but well tolerated; most dogs will require continued medication to remain continent.