gebhart/patrepeval huggingface dataset:
In-network evaluation of mobile handset performance (2002)

This paper investigates the use of the measurement reports transmitted on the Abis interface of the GSM network for evaluating handset performance. The most important advantage of this method, is the relatively easy access to a large number of calls made by many different users in the environments where handsets are expected to work. A measurement campaign was carried out where controlled calls were made by 12 users in two different environments and with 4 different commercially available handsets. The calls were made to a normal GSM network where data logging equipment was connected to the Abis. Large differences were found in the performance of the handsets. For example, the link loss was found to vary 14 dB from user to user for one handset, while for another it only varied about 5 dB under the same conditions.
Muscle-tendon cross talk during muscle wasting (2021)

In organisms from flies to mammals, the initial formation of a functional tendon is completely dependent on chemical signals from muscles (myokines). However, how myokines affect the maturation, maintenance, and regeneration of tendons as a function of age is completely unstudied. Here we discuss the role of four myokines-fibroblast growth factors (FGF), myostatin, the secreted protein acidic and rich in cysteine (SPARC) miR-29-in tendon development and hypothesize a role for these factors in the progressive changes in tendon structure and function as a result of muscle wasting (disuse, aging, and disease). Because of the close relationship between mechanical loading and muscle and tendon regulation, disentangling muscle-tendon cross talk from simple mechanical loading is experimentally quite difficult. Therefore, we propose an experimental framework that hopefully will be useful in demonstrating muscle-tendon cross talk in vivo. Though understudied, the promise of a better understanding of muscle-tendon cross talk is the development of new interventions that will improve tendon development, regeneration, and function throughout the lifespan.
Isolation and Structural Analysis of a 1.2-Megabase N-myc Amplicon from a Human Neuroblastoma (1992)

Oncogene amplification is observed frequently in human cancers, but little is known about the mechanism of gene amplification or the structure of amplified DNA in tumor cells. We have studied the N-myc amplified domain from a representative neuroblastoma cell line, SMS-KAN, and compared the map of the amplicon in this cell line with that seen in normal DNA. The SMS-KAN cell line DNA was cloned into yeast artificial chromosomes (YACs), and clones were identified by screening the YAC library with amplified DNA probes that were obtained previously (B. Zehnbauer, D. Small, G. M. Brodeur, R. Seeger, and B. Vogelstein, Mol. Cell. Biol. 8:522-530, 1988). In addition, YAC clones corresponding to the normal N-myc locus on chromosome 2 were obtained by screening two normal human YAC libraries with these probes, and the restriction maps of the two sets of overlapping YACs were compared. Our results suggest that the amplified domain in this cell line is a approximately 1.2-Mb circular molecule with a head-to-tail configuration, and the physical map of the normal N-myc locus generally is conserved in the amplicon. These results provide a physical map of the amplified domain of a neuroblastoma cell line that has de novo amplification of an oncogene. The head-to-tail organization, the general conservation of the normal physical map in the amplicon, and the extrachromosomal location of the amplified DNA are most consistent with the episome formation-plus-segregation mechanism of gene amplification in these tumors.
Distributed and cooperative optimization-based iterative learning control for large-scale building temperature regulation (2017)

In this paper, a distributed and cooperative optimization-based iterative learning control (ILC) algorithm is proposed for large-scale building temperature control problems. With the algorithm, large-scale building temperature control problems are solvable with reasonable computational load and guaranteed control performance under nearly repetitive disturbances. The large-scale centralized system is separated into several distributed and cooperative small-scale subsystems that communicate among each other. For each subsystem, a convex optimization problem is solved. The cooperative learning policy allows all subsystems to contribute together to improve the overall performance. The convergence property of the algorithm is proved and simulation results are provided to demonstrate its effectiveness.
On the determinants of amide backbone exchange in proteins: a neutron crystallographic comparative study (2008)

The hydrogen/deuterium-exchange (HDX) method, coupled with neutron diffraction, is a powerful probe for investigating molecular dynamics. In the present report, general determinants of HDX are proposed based on 12 deposited neutron protein structures. The parameters that correlate best with HDX are the depth within the protein structure of the amide N atom and the secondary-structure type. Both the B factor of the amide N atom and the ratio B/B correlate moderately. However, solvent accessibility only correlates strongly for one molecule and hydrogen-bonding distance correlates for two molecules with respect to amide HDX. In addition to the relatively small number of neutron structures available, the limitations to this type of analysis, namely resolution, data completeness and the data-to-parameter ratio, are discussed briefly. A global analysis of HDX was performed to overcome some of these obstacles, damping the effects of outliers and the extreme variation of the data sets arising from resolution limitations. From this, amide depth and hydrogen-bonding distance to the amide (a measure of interaction strength) show strong global correlation with HDX. For some structures, the constituents of the hydrophobic protein core could be identified based on contiguous regions that are resistant to exchange and have significant depth. These may, in fact, constitute minimal folding domains.
Supplementary Movies 1-3 from Combined Analysis of Antigen Presentation and T-cell Recognition Reveals Restricted Immune Responses in Melanoma (2023)

&lt;p&gt;In vitro killing assay movies. Co-culture of 12T melanoma cells with autologous 12TILs&lt;/p&gt;
Identification of S-nitroso-CoA reductases that regulate protein S-nitrosylation (2014)

Coenzyme A (CoA) mediates thiol-based acyl-group transfer (acetylation and palmitoylation). However, a role for CoA in the thiol-based transfer of NO groups (S-nitrosylation) has not been considered. Here we describe protein S-nitrosylation in yeast (heretofore unknown) that is mediated by S-nitroso-CoA (SNO-CoA). We identify a specific SNO-CoA reductase encoded by the alcohol dehydrogenase 6 (ADH6) gene and show that deletion of ADH6 increases cellular S-nitrosylation and alters CoA metabolism. Further, we report that Adh6, acting as a selective SNO-CoA reductase, protects acetoacetyl-CoA thiolase from inhibitory S-nitrosylation and thereby affects sterol biosynthesis. Thus, Adh6-regulated, SNO-CoA-mediated protein S-nitrosylation provides a regulatory mechanism paralleling protein acetylation. We also find that SNO-CoA reductases are present from bacteria to mammals, and we identify aldo-keto reductase 1A1 as the mammalian functional analog of Adh6. Our studies reveal a novel functional class of enzymes that regulate protein S-nitrosylation from yeast to mammals and suggest that SNO-CoA-mediated S-nitrosylation may subserve metabolic regulation.
Rapid tissue histology using multichannel confocal fluorescence microscopy with focus tracking (2018)

This study confirms the use of confocal fluorescence microscopy technique to acquire rapid pathology results using optical sectioning, line scanning and focus tracking. We anticipate that the presented method will enable intraoperative histology and significantly reduce stress on patients undergoing surgery requiring repeated histology examinations.
A novel dual-detector micro-spectrometer (2005)

Infrared analysis is a well-established tool for measuring composition and purity of various materials in industrial-, medical- and environmental applications. Traditional spectrometers, for example Fourier Transform Infrared (FTIR) Instruments are mainly designed for laboratory use and are generally, too large, heavy, costly and delicate to handle for remote applications. With important advances in the miniaturization, ruggedness and cost efficiency we have designed and created a new type of a micromirror spectrometer that can operate in harsh temperature and vibrating environments This device is ideally suited for environmental monitoring, chemical and biological applications as well as detection of biological warfare agents and sensing in important security locations In order to realize such compact, portable and field-deployable spectrometers we have applied MOEMS technology. Thus our novel dual detector micro mirror system is composed of a scanning micro mirror combined with a diffraction grating and other essential optical components in order to miniaturize the basic modular set-up. Especially it periodically disperses polychromatic radiation into its spectral components, which are measured by a combination of a visible (VIS) and near infrared (NIR) single element detector. By means of integrated preamplifiers high-precise measurements over a wide dynamic wavelength range are possible. In addition the spectrometer, including the radiation source, detectors and electronics can be coupled to a minimum-volume liquid or gas-flow cell. Furthermore a SMA connector as a fiber optical input allows easy attachment of fiber based probes. By utilizing rapid prototyping techniques, where all components are directly integrated, the micro mirror spectrometer is manufactured for the 700-1700 nm spectral range. In this work the advanced optical design and integration of the electronic interface will be reviewed. Furthermore we will demonstrate the performance of the system and present characteristic measurement results. Finally advanced packaging issues and test results of the device will be discussed.
481. Targeted Genome Editing in Mouse Hematopoietic Stem/Progenitor Cells (HSPC) To Model Gene Correction of SCID-X1 (2015)

Targeted genome editing by artificial nucleases has brought the goal of gene correction within the reach of gene therapy. A candidate disease for HSPC gene correction is SCID-X1, because gene therapy with early generation integrating vectors showed robust clinical efficacy even from few corrected cells but also the occurrence of adverse events due to insertional mutagenesis and unregulated transgene expression. We recently reported a strategy that enabled targeted integration of a corrective cDNA into the IL2RG gene in 6% of human HSPC with high specificity. Gene corrected HSPC generated polyclonal lymphoid cells that express the IL2RG protein and have a selective growth advantage over those carrying disruptive IL2RG mutations (Genovese, Nature, 2014). Here, to model SCID-X1 disease correction, we developed a mouse model carrying the IL2RG human gene including a common disease-causing mutation in place of the murine Il2rg gene, allowing to use the same reagents utilized for gene correction of human cells. These mice have impairment in lymphoid development which phenocopies that reported for Il2rg-/- mice. To assess the minimal level of corrected HSPC required to achieve immune reconstitution we first performed competitive transplants with wild-type (WT) and Il2rg-/- HSPC and found that 1% of WT cells are sufficient to reconstitute at least in part the T and B cell compartments. We then developed a protocol to obtain gene correction in murine Lin- HSPC based on the delivery of donor DNA template by IDLVs followed by transfection of ZFN mRNAs. This protocol was associated with high on-target nuclease activity (40%) and a mean of 6% transgene integration by HDR, but also with high levels of acute cytotoxicity (65% cell loss). The surviving cells remained capable of expansion in culture and preserved their clonogenic potential. Importantly, upon transplant into lethally irradiated mice, only the gene corrected cells were able to generate lymphoid lineages (B and T cells), showing a clear selective advantage over un-corrected cells. These data indicate functional correction of the IL2RG gene by our strategy. Yet, measuring percentage of correction within myeloid cells at long-term we found that it was almost undetectable. Despite the lack of HSC marking, gene corrected lymphoid cells stably persisted in the mice up to 7 months post transplantation within all the hematopoietic organs. Furthermore, upon challenging the transplanted mice with a murine pathogen (LCMV Arm.) we observed viral-specific γIFN production by CD8+ gene corrected cells at a similar extent as for WT mice, proving in vivo the functionality of corrected T cells. These results suggest that our protocol achieves biologically relevant levels of gene correction in progenitors that sustain long-term lymphopoiesis but is limited in multipotent HSC. Ongoing studies aim to improve murine HSC gene targeting and to compare safety and efficacy of gene correction vs gene replacement in our disease model.
Confining an Ag10 Core in an Ag12 Shell: A Four-Electron Superatom with Enhanced Photoluminescence upon Crystallization (2019)

We introduce a cluster coprotected by thiol and diphosphine ligands, [Ag<sub>22</sub>(dppe)<sub>4</sub>(2,5-DMBT)<sub>12</sub>Cl<sub>4</sub>]<sup>2+</sup> (dppe = 1,2-bis(diphenylphosphino)ethane; 2,5-DMBT= 2,5-dimethylbenzenethiol), which has an Ag<sub>10</sub> core encapsulated by an Ag<sub>12</sub>(dppe)<sub>4</sub>(2,5-DMBT)<sub>12</sub>Cl<sub>4</sub> shell. The Ag<sub>10</sub> core comprises two Ag<sub>5</sub> distorted trigonal bipyramidal units and is uncommon in Au and Ag nanoclusters. The electrospray ionization mass spectrum reveals that the cluster is divalent and contains four free electrons. An uncommon crystallization-induced enhancement of emission is observed in the cluster. The emission is weak in the solution and amorphous states. However, it is enhanced 12 times in the crystalline state compared to the amorphous state. A detailed investigation of the crystal structure suggests that well-arranged C-H···π and π···π interactions between the ligands are the major factors for this enhanced emission. Further, in-depth structural elucidation and density functional theory calculations suggest that the cluster is a superatom with four magic electrons.
In situ cuprate formation via transmetalation between vinylstannanes and higher order cyanocuprates (1988)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIn situ cuprate formation via transmetalation between vinylstannanes and higher order cyanocupratesJames R. Behling, Kevin A. Babiak, John S. Ng, Arthur L. Campbell, Robert. Moretti, Mike. Koerner, and Bruce H. LipshutzCite this: J. Am. Chem. Soc. 1988, 110, 8, 2641–2643Publication Date (Print):April 1, 1988Publication History Published online1 May 2002Published inissue 1 April 1988https://pubs.acs.org/doi/10.1021/ja00216a045https://doi.org/10.1021/ja00216a045research-articleACS PublicationsRequest reuse permissionsArticle Views1515Altmetric-Citations144LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Phase I/II Trial of Diaphragm Delivery of Recombinant Adeno-Associated Virus Acid Alpha-Glucosidase (rAAV1-CMV- GAA ) Gene Vector in Patients with Pompe Disease (2014)

A recombinant virus vector constructed from adeno-asso-ciated virus (AAV) has been engineered to carry the humanacid alpha-glucosidase (hGAA) gene expressed from thecytomegalovirus (CMV) enhancer/promoter. The constructhas been shown to produce hGAA in animal models ofPompe disease, which directly matches the proposed humanstudies. The proposed clinical trial is an open label, phase I/II study administering rAAV1-CMV-GAAgene vector in-tramuscularly into the diaphragms of human subjects withPompe disease. Safety parameters will be measurement ofchange in: serum chemistries and hematology, urinalysis,muscle function testing, whole blood assay for vector ge-nomes, immunologic response to GAA and AAV, as well asreported subject symptom history.
AI-Augmented Multi Function Radar Engineering with Digital Twin: Towards Proactivity (2020)

Thales new generation digital multi-missions radars, fully-digital and software-defined, like the Sea Fire and Ground Fire radars, benefit from a considerable increase of accessible degrees of freedoms to optimally design their operational modes. To effectively leverage these design choices and turn them into operational capabilities, it is necessary to develop new engineering tools, using artificial intelligence. Innovative optimization algorithms in the discrete and continuous domains, coupled with a radar Digital Twins, allowed construction of a generic tool for “search” mode design (beam synthesis, waveform and volume grid) compliant with the available radar time budget. The high computation speeds of these algorithms suggest tool application in a “Proactive Radar” configuration, which would dynamically propose to the operator, operational modes better adapted to environment, threats and the equipment failure conditions.
A survey of TonB‐dependent receptors in fluorescent pseudomonads (2009)

For bacteria with an aerobic lifestyle, iron is in the oxidized Fe(3+) form, hence poorly soluble. The solution is the synthesis and excretion of siderophores with a high affinity for iron. These ferrisiderophores are recognized by TonB-dependent outer membrane receptors in Gram-negative bacteria. Haem is also a source of iron and is captured via TonB-dependent receptors as well. In many cases bacterial genomes encode genes for receptors for siderophores produced by other microorganisms (xenosiderophores). Pseudomonads are known for their high adaptive capacity and it is therefore not surprising to find a relatively large number of genes encoding these receptors. In this study we analysed the genomes of three fluorescent pseudomonads available in the Pseudomonas genome database (http://www.pseudomonas.com; P. aeruginosa, P. putida, P. syringae) in order to extract the genes coding for TonB-dependent receptors. As expected we observed differences between species for the number of receptors. We also report differences within species, suggesting the acquisition of some genes via horizontal gene transfer, including those coding for the ferripyoverdine receptors. We also report cases where duplications of receptor genes are observed and the presence of 'receptor islands'. Our study strongly supports the notion of 'core' and 'accessory' TonB-dependent receptors within each species, with the ferripyoverdine receptors belonging to the last category.
A Pragmatic Approach to Frac-Pack Tool Erosion Qualification Testing (2010)

Abstract Frac packing tool erosion is a growing concern as more high-profile deepwater wells are completed using this technique. Today many deepwater wells require frac pack pump rates of at least 40 barrels per minute (bbl/min) with proppant loads reaching 300,000 lbm. As zone lengths are increased and multizone operations are performed, jobs requiring 60 bbl/min pump rates with proppant loads reaching 1,500,000 lbm are becoming more typical. The current frac packing tool designs must be optimized to accommodate the higher pump rates and proppant volumes required to complete these deepwater wells. Extensive research and development, including computational fluid dynamics analysis and scale-model erosion testing, have led to the development of a new series of sand control tools that have been optimized for ultra-high-rate frac packing applications. Analyzing various patterns such as velocity, fluid path, erosion, and sand concentration at high rates helps identify critical areas within the system that require design optimization. Results from full-scale erosion qualification testing of this new series of sand control tools are discussed. The qualification tests are designed to simulate extreme applications for tools in terms of pump rate, treatment volumes, and proppant properties, while testing conditions remain consistent with actual job specifications. The qualification test parameters were chosen to emulate and, in some cases, exceed the parameters of frac pack treatments currently being planned for the deepwater Gulf of Mexico. Erosion properties of the crossover, extension, and casing will be discussed, and depicted.
Influence of Semicrystalline Homopolymer Addition on the Morphology of Semicrystalline Diblock Copolymers (1997)

We have studied blends of polyethylene “homopolymer” (hydrogenated polybutadiene) with diblock copolymers of polyethylene-poly(ethylene-alt-propylene), E/EP, varying both homopolymer loading and the block copolymer and homopolymer molecular weights. The pure block copolymers form homogeneous melts which are miscible with the homopolymer. The two components readily cocrystallize, even at homopolymer loadings as high as 75 wt % and even for a homopolymer which has nearly three times the molecular weight of the E block in the diblock. Small-angle X-ray scattering (SAXS) shows a single domain structure up to at least 50 wt % homopolymer addition, a result confirmed by transmission electron microscopy (TEM). Surprisingly, the Bragg spacing observed by SAXS, which reflects the sum of E and EP lamellar thicknesses, decreases continuously and substantially as homopolymer is added. The strong chain stretching in the EP block is progressively relaxed as E homopolymer is added; the reduction in Bragg spacing is only weakly opposed by the enthalpic resistance to formation of additional internal interface between E and EP domains, due to the small interaction parameter between the two blocks.
Femtosecond Four-Wave-Mixing Spectroscopy of Suspended Individual Semiconducting Single-Walled Carbon Nanotubes (2010)

Femtosecond four-wave-mixing (FWM) experiments of individual suspended semiconducting single-walled carbon nanotubes (SWCNTs) are presented. The chiral indices of the tubes were determined by electron diffraction as (28,14) and (24,14) having diameters of 2.90 and 2.61 nm, respectively. The diameter and semiconducting character of the tubes were additionally confirmed by resonance Raman measurements. The FWM signal showed electronic response from the SWCNTs. The results demonstrate that ultrafast dynamics of individual SWCNTs can be studied by FWM spectroscopies.