gebhart/patrepeval huggingface dataset:
Uro-Science (2010)

No AccessJournal of UrologyInvestigative Urology1 Nov 2010Uro-Science Anthony Atala, M.D. Dean Assimos, andM.D. Richard E. BergerM.D. Anthony AtalaAnthony Atala More articles by this author , Dean AssimosDean Assimos More articles by this author , and Richard E. BergerRichard E. Berger More articles by this author View All Author Informationhttps://doi.org/10.1016/j.juro.2010.07.013AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Uro-Science." The Journal of Urology, 184(5), pp. 2205–2206 Urolithiasis and Hepatotoxicity Are Linked to the Anion Transporter Sat1 in Mice 1 : Ileal oxalate absorption and urinary oxalate excretion are enhanced in Slc26a6 null mice. Am J Physiol Gastrointest Liver Physiol2006; 290: G719. Google Scholar 2 : Calcium oxalate urolithiasis in mice lacking anion transporter Slc26a6. Nat Genet2006; 38: 474. Google Scholar © 2010 by American Urological Association Education and Research, Inc.FiguresReferencesRelatedDetails Volume 184Issue 5November 2010Page: 2205-2206 Advertisement Copyright & Permissions© 2010 by American Urological Association Education and Research, Inc.MetricsAuthor Information Anthony Atala More articles by this author Dean Assimos More articles by this author Richard E. Berger More articles by this author Expand All Advertisement PDF downloadLoading ...
Comparison and Evaluation of Classical and Modern Beamforming (2013)

Modern hardware components like FPGAs and GPUs allow the massive parallelization of signal processing algorithms. The classical beamforming approach though provides limited possibilities for parallelization. For the development of a new ultrasound research platform it is examined what beamforming approach is most suited for new ultrasound imaging modalities. Synthetic aperture methods, plane wave imaging and the classical line-by-line beamforming approach are compared regarding time efficiency and imaging performance using simulations. The plane wave approach turned out to be the most versatile and superior beamforming method to generate homogenously focused images with high resolution and acceptable contrast at a very high frame rate.
Characterization of benign and metastatic vertebral compression fractures with quantitative diffusion MR imaging. (2002)

Our results indicate that quantitative ADC mapping, instead of qualitative diffusion-weighted imaging, can provide valuable information in differentiating benign vertebral fractures from metastatic lesions.
Using Near IR Scattering Nanoparticles to Improve Transparent Solar Cell Efficiency (2016)

We use near IR scattering nanoparticles and a wavelength selective mirror to create a light trapping effect. When used with a transparent solar cell, theoretical calculations show that efficiency can double without decreasing transparency.
IL-10 Plays an Important Role in the Homeostatic Regulation of the Autoreactive Repertoire in Naive Mice (2004)

We have previously shown that naive SJL (H-2(s)) mice, which are highly susceptible to myelin proteolipid protein (PLP)-induced experimental autoimmune encephalomyelitis (EAE), have a very high frequency (1/20,000 CD4 T cells) of PLP(139-151)-reactive T cells in the naive repertoire. In this study, we examine the function of this endogenous PLP(139-151)-reactive repertoire in vivo and find that this repertoire encompasses the precursors of pathogenic T cells. Because SJL mice do not develop spontaneous EAE, we have explored the mechanisms that keep this autopathogenic repertoire in check and prevent the development of spontaneous autoimmunity. We crossed IL-4 and IL-10 deficiency onto the SJL background and analyzed the roles of these two immunoregulatory cytokines in regulating the size and effector function of the endogenous PLP(139-151)-reactive repertoire and development of autoimmune disease. We find that IL-10 is important in the homeostatic regulation of the endogenous PLP(139-151)-reactive repertoire in that it both limits the size of the repertoire and prevents development of effector autoaggressive T cells. SJL IL-10(-/-) mice with high numbers of PLP(139-151)-specific precursors in the repertoire did not develop spontaneous EAE, but when they were injected with pertussis toxin, they showed atypical clinical signs of EAE with small numbers of typical mononuclear cell infiltrates predominantly in the meninges. EAE could be inhibited by prior tolerization of the mice with soluble PLP(139-151) peptide. These findings indicate that IL-10 may contribute to the regulation of the endogenous autoimmune repertoire.
Metallized plastic surface-mount cavity resonators and filters (2009)

A novel method for the design and fabrication of low-cost filtering devices for cellular applications is presented in this paper. The proposed filter technology is based on the integration of 3-D coaxial resonators with 2-D printed-circuit boards (PCBs). Specifically, metallized plastic resonators are properly mounted on planar PCBs, while printed transmission lines (i.e. striplines) are employed to feed and couple the resonators. In this approach, high-Q resonators are integrated with conventional planar transmission lines, allowing for the design of filters that exhibit satisfactory performance (small in-band insertion loss, good close-to-band selectivity) while remaining light in weight, slim in volume, low-cost and compatible with standard PCB technology. The critical design parameters of the proposed class of resonators and filters, together with simulations and measurements of such filters are reported in the text, while the technical difficulties encountered during the fabrication of the filters are discussed.
1,1,4,4-Tetracyanobutadiene-Functionalized Anthracenes: Regioselectivity of Cycloadditions in the Synthesis of Small Near-IR Dyes (2020)

&lt;p&gt;Two small 1,1,4,4-tetracyanobutadiene-functionalized chromophores were obtained by careful leverage of the regioselectivity of the cycloaddition reaction of tetracyanoethylene with anthracene-ynamide derivatives, inducing either a [2+2] or a [4+2] Diels–Alder process. DFT calculations unraveled the mechanism of the [2+2] cycloaddition-retroelectrocyclization reaction sequence with ynamides and elucidated the differing mechanisms in the two substrates. The synthesized dyes presented panchromatic absorption extending into the near-IR, and far-red/near-IR photoluminescence in the solid-state up to 1550 nm.&lt;/p&gt;
Minimizing MPI Resource Contention in Multithreaded Multicore Environments (2010)

With the ever-increasing numbers of cores per node in high-performance computing systems, a growing number of applications are using threads to exploit shared memory within a node and MPI across nodes. This hybrid programming model needs efficient support for multithreaded MPI communication. In this paper, we describe the optimization of one aspect of a multithreaded MPI implementation: concurrent accesses from multiple threads to various MPI objects, such as communicators, datatypes, and requests. The semantics of the creation, usage, and destruction of these objects implies, but does not strictly require, the use of reference counting to prevent memory leaks and premature object destruction. We demonstrate how a naive multithreaded implementation of MPI object management via reference counting incurs a significant performance penalty. We then detail two solutions that we have implemented in MPICH2 to mitigate this problem almost entirely, including one based on a novel garbage collection scheme. In our performance experiments, this new scheme improved the multithreaded messaging rate by up to 31% over the naive reference counting method.
Prognostic importance of promoter hypermethylation of multiple genes in esophageal adenocarcinoma. (2003)

Our data suggest that positive methylation status for multiple genes in esophageal adenocarcinoma is a predictor of poor prognosis.
Orientation control over bent-core smectic liquid crystal phases (2013)

Bent-core smectic liquid crystal (LC) phases (B phases) have been widely studied since their unusual polar and chiral properties were discovered in the 1990s. Relatively few studies have examined the mechanisms by which the orientation of the B phase may be controlled to produce the type of macroscopic domain that is essential for organic semiconductor, optical device and patterning applications. This review is intended to cover recent progress towards controlling the B phases upon layering, including anisotropic treatment methods and topographical confinement methods. Finally, this review closes with a discussion of B smectic phases that have been fabricated for use in certain applications.
ChemInform Abstract: COMPLEX CHEMISTRY OF REACTIVE ORGANIC COMPOUNDS. 26. SYNTHESIS OF CARBOCYCLIC C CARBENE COMPLEXES BY METAL‐INDUCED DIAZOCYCLOPENTADIENE FRAGMENTATION (1979)

Abstract Beim Versuch, durch metallinduzierte Fragmentierung von (I) in THF‐Lösungen der Komplexe (II) bei 10‐25°C Cyclopentadienyliden‐ Komplexe zu erhalten, werden erstmals oligocyclische, übergangsmetallstabilisierte Dicarbene beobachtet.
High-power high-linearity SiGe based E-BAND transceiver chipset for broadband communication (2012)

Fully integrated chipset at E-band frequencies in a superhetrodyne architecture covering the lower 71-76GHz and upper 81-86GHz bands were designed and fabricated in 0.13μm SiGe technology. The receiver chips include an image-reject low-noise amplifier (LNA), RF-to-IF mixer, variable gain IF amplifier, quadrature IF-to-baseband de-modulators, tunable baseband filter, phase-locked loop (PLL), and frequency multiplier by four (quadrupler). The receiver chips achieve maximum gain of 65dB, 6dB noise figure, better than -10 dBm IIP3, with more than 65 dB dynamic range, and consumes 600 mW. The transmitter chips include a power amplifier, image-reject driver, IF-to-RF up-converting mixer, variable gain IF amplifier, quadrature baseband-to-IF modulator, PLL, and frequency quadrupler. It achieves output power at P <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1dB</sub> of 17.5 to 18.5 dBm, P <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">sat</sub> of 20.5 to 21.5 dBm, an analog controlled dynamic range of 30 dB and consumes 1.75 W.
Rapid histologic diagnosis using quick fluorescence staining and tissue confocal microscopy (2019)

With the development of advanced and minimally invasive surgical techniques, and in view of the functional and cosmetic aspects, the need for rapid and accurate diagnosis during surgery is increasing. This study was conducted to develop a tissue diagnosis method using confocal microscopy after simple tissue staining that does not require freezing and slicing. At present, fluorescence staining with confocal microscopy is not generalized for real-time diagnosis during surgery. In this paper, we propose a fluorescence staining method using Hoechst 33342 and Eosin that does not require tissue freezing and slicing. The proposed method can be used as part of a rapid tissue diagnosis method that is suitable for use in the operating room, although further research is required before it can be applied in clinical practice.
MET gene amplification or EGFR mutation activate MET in lung cancers untreated with EGFR tyrosine kinase inhibitors (2008)

We analyzed MET protein and copy number in NSCLC with or without EGFR mutations untreated with EGFR tyrosine kinase inhibitors (TKIs). MET copy number was examined in 28 NSCLC and 4 human bronchial epithelial cell lines (HBEC) and 100 primary tumors using quantitative real-time PCR. Positive results were confirmed by array comparative genomic hybridization and fluorescence in-situ hybridization. Total and phospho-MET protein expression was determined in 24 NSCLC and 2 HBEC cell lines using Western blot. EGFR mutations were examined for exon 19 deletions, T790M, and L858R. Knockdown of EGFR with siRNA was performed to examine the relation between EGFR and MET activation. High-level MET amplification was observed in 3 of 28 NSCLC cell lines and in 2 of 100 primary lung tumors that had not been treated with EGFR-TKIs. MET protein was highly expressed and phosphorylated in all the 3 cell lines with high MET amplification. In contrast, 6 NSCLC cell lines showed phospho-MET among 21 NSCLC cell lines without MET amplification (p = 0.042). Furthermore, those 6 cell lines harboring phospho-MET expression without MET amplification were all EGFR mutant (p = 0.0039). siRNA-mediated knockdown of EGFR abolished phospho-MET expression in examined 3 EGFR mutant cell lines of which MET gene copy number was not amplified. By contrast, phospho-MET expression in 2 cell lines with amplified MET gene was not down-regulated by knockdown of EGFR. Our results indicated that MET amplification was present in untreated NSCLC and EGFR mutation or MET amplification activated MET protein in NSCLC.
Synthesis of three advanced biofuels from ionic liquid-pretreated switchgrass using engineered Escherichia coli (2011)

One approach to reducing the costs of advanced biofuel production from cellulosic biomass is to engineer a single microorganism to both digest plant biomass and produce hydrocarbons that have the properties of petrochemical fuels. Such an organism would require pathways for hydrocarbon production and the capacity to secrete sufficient enzymes to efficiently hydrolyze cellulose and hemicellulose. To demonstrate how one might engineer and coordinate all of the necessary components for a biomass-degrading, hydrocarbon-producing microorganism, we engineered a microorganism naïve to both processes, Escherichia coli, to grow using both the cellulose and hemicellulose fractions of several types of plant biomass pretreated with ionic liquids. Our engineered strains express cellulase, xylanase, beta-glucosidase, and xylobiosidase enzymes under control of native E. coli promoters selected to optimize growth on model cellulosic and hemicellulosic substrates. Furthermore, our strains grow using either the cellulose or hemicellulose components of ionic liquid-pretreated biomass or on both components when combined as a coculture. Both cellulolytic and hemicellulolytic strains were further engineered with three biofuel synthesis pathways to demonstrate the production of fuel substitutes or precursors suitable for gasoline, diesel, and jet engines directly from ionic liquid-treated switchgrass without externally supplied hydrolase enzymes. This demonstration represents a major advance toward realizing a consolidated bioprocess. With improvements in both biofuel synthesis pathways and biomass digestion capabilities, our approach could provide an economical route to production of advanced biofuels.
Area-Selective Atomic Layer Deposition: Conformal Coating, Subnanometer Thickness Control, and Smart Positioning (2015)

Transistors have already been made three-dimensional (3D), with device channels (i.e., fins in trigate field-effect transistor (FinFET) technology) that are taller, thinner, and closer together in order to enhance device performance and lower active power consumption. As device scaling continues, these transistors will require more advanced, fabrication-enabling technologies for the conformal deposition of high-κ dielectric layers on their 3D channels with accurate position alignment and thickness control down to the subnanometer scale. Among many competing techniques, area-selective atomic layer deposition (AS-ALD) is a promising method that is well suited to the requirements without the use of complicated, complementary metal-oxide semiconductor (CMOS)-incompatible processes. However, further progress is limited by poor area selectivity for thicker films formed via a higher number of ALD cycles as well as the prolonged processing time. In this issue of ACS Nano, Professor Stacy Bent and her research group demonstrate a straightforward self-correcting ALD approach, combining selective deposition with a postprocess mild chemical etching, which enables selective deposition of dielectric films with thicknesses and processing times at least 10 times larger and 48 times shorter, respectively, than those obtained by conventional AS-ALD processes. These advances present an important technological breakthrough that may drive the AS-ALD technique a step closer toward industrial applications in electronics, catalysis, and photonics, etc. where more efficient device fabrication processes are needed.
Modified Pound-Drever-Hall scheme for high-precision free spectral range measurement of Fabry-Perot etalon (2008)

Improvement of two orders of magnitude of the Pound-Drever-Hall based free spectral range (FSR) measurement method is reported. The improved technique results in 1 part in 106 precision. This is believed to be the most precise measurement of FSR.
Increased tight junction permeability: a possible mechanism of oestrogen cholestasis (1983)

Ethinyl oestradiol increased rat biliary permeability for 3H-inulin and 14C-sucrose, and significantly raised serum concentrations of bile acids after 3 and 7 days' treatment (P less than 0.0005) and bilirubin after 7 days (P less than 0.005) but not after 3 days. Following intravenous infusion of bromsulphthalein or phenolphthalein, ethinyl oestradiol-treated rats had elevated plasma concentrations of the three bile constituents, bromsulphthalein (P less than 0.0005 after 3 and 7 days), bromsulphthalein-glutathione conjugate (P less than 0.005 after 3 days; P less than 0.0005 after 7 days) and phenolphthalein glucuronide (P less than 0.005 after 3 days; P less than 0.0005 after 7 days), but the plasma concentration of unconjugated phenolphthalein, which was undetectable in bile, was unchanged. Similar changes followed partial biliary obstruction produced by bile cannula elevation. This pattern suggests that biliary constituents are refluxing from bile to plasma via the paracellular pathway, a concept further supported by structural changes in tight junction morphology in the oestrogen-treated rats. 'Leakiness' of canalicular tight junctions may explain the pathophysiology of oestrogen-induced cholestasis.
Variable-Length Link Transmission Model for Traffic Flow Management (2010)

A Variable-Length Link Transmission Model for Tra c Flow Management (TFM) is developed and implemented. The model is derived from the spatial reduction of a Multicommodity Large Capacity Cell Transmission Model for en route tra c. Like the Cell Transmission Model, our Link Transmission Model is based on an aggregation of historical air tra c data, and minimizes total aircraft ight time by selecting aircraft holding and routing decisions. Compared to the Cell Transmission formulation, the Link Transmission formulation decreases the number of variables by a factor of eight without impacting the accuracy of the model. Also, solving and processing time is reduced by up to 90%.
Network Coding: Beyond Throughput Benefits (2011)

Network coding enables novel network functionalities and thus offers a wider canvas of choices when optimizing an information flow problem. In this paper, we examine the simplest possible information flow problem, a unicast connection, and explore what we believe is one of the most attractive features network coding offers: the ability to enable near-optimal performance in a completely decentralized and randomized setting. This is an especially attractive feature for wireless applications. However, it comes at the cost of an overhead in terms of rate that can be significant for applications that operate using relatively short frame lengths, as is the case in the wireless setting. We review the efforts in the literature to either alleviate this overhead, or alternatively, to exploit it for network management and control.
Kindlin-3 recruitment to the plasma membrane precedes high-affinity β2-integrin and neutrophil arrest from rolling (2020)

Integrin-mediated neutrophil adhesion starts by arrest from rolling. Activation of integrins involves conformational changes from an inactive, bent conformation to an extended conformation (E+) with high affinity for ligand binding (H+). The cytoplasmic protein kindlin-3 is necessary for leukocyte adhesion; mutations of kindlin-3 cause leukocyte adhesion deficiency type 3. Kindlin-3 binds the β2-integrin cytoplasmic tail at a site distinct from talin-1, but the molecular mechanism by which kindlin-3 activates β2-integrins is unknown. In this study, we measured the spatiotemporal dynamics of kindlin-3 and β2-integrin conformation changes during neutrophil and HL-60 cell rolling and arrest under flow. Using high-resolution quantitative dynamic footprinting microscopy and kindlin-3-fluorescent protein (FP) fusion proteins, we found that kindlin-3 was recruited to the plasma membrane in response to interleukin-8 (IL-8) before induction of the H+ β2-integrin conformation. Intravital imaging revealed that EGFP-kindlin-3-reconstituted, kindlin-3-knockout neutrophils arrest in vivo in response to CXCL1. EGFP-kindlin-3 in primary mouse neutrophils was also recruited to the plasma membrane before arrest. Upon arrest, we found small clusters of high-affinity β2-integrin molecules within large areas of membrane-proximal kindlin-3 FP. Deletion of kindlin-3 or its pleckstrin homology (PH) domain in neutrophil-like HL-60 cells completely abolished H+ β2-integrin induction. IL-8 also triggered recruitment of the isolated kindlin-3 PH domain to the plasma membrane before arrest. In summary, we showed that the kindlin-3 PH domain is necessary for recruitment to the plasma membrane, where full-length kindlin-3 is indispensable for the induction of high-affinity β2-integrin.
ChemInform Abstract: Intramolecular SN2 Ring Opening of Cyclic Sulfates: 6‐exo‐Tet versus 7‐endo‐Tet Cyclization. (1998)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Enhancement and optimization of PpIX-based photodynamic therapy of skin cancer: translational studies from bench to clinic (2009)

Nonmelanoma skin carcinomas are the most common of all human cancers. Photodynamic therapy (PDT) using 5-aminolevulinic acid (5-ALA) has been used to treat these tumors, but has shown variable results. We are pursuing a multifaceted approach toward optimizing tumor responsiveness. First, a new paradigm is being developed in which tumors are pretreated with differentiation-inducing agents, e.g. methotrexate or Vitamin D, to enhance synthesis of protoporphyrin IX (PpIX) and improve tumor cell killing upon exposure to 635 nm light. This principle was first elucidated in cell culture studies, and has now been shown to hold true for murine skin tumors, and for a human subcutaneous tumor model (A431 cells injected in nude mice). Clinical trials to test methotrexate and Vitamin D as augmenting agents for ALA-PDT of nonmelanoma skin cancer are being designed. Second, better methods to measure PpIX in patients' skin tumors in real time are being developed. In a clinical study to measure PpIX in patients with dysplastic skin lesions, in vivo fluorescence dosimetry was used to measure the accumulation of PpIX over time, and revealed that intralesional PpIX may reach clinically-useful levels earlier than previously thought for the treatment of actinic keratoses. In a second clinical study to examine depth of PpIX production in nonmelanoma skin cancer, the depth of PpIX within BCC tumors was found at relatively deep levels (&gt;1 mm) in some tumor nests, but not in others. Production of PpIX in deep squamous cell carcinoma was very low. In summary, molecular approaches such as differentiation therapy to enhance ALA-PDT for individual patients may ultimately be needed to help to improve skin cancer responses to this modality.